| Publication (Do not delete) | Article Title | Author | Journal | Year | Date | URL | Species | Primary Application | Secondary Application | Product/Service | |
|---|---|---|---|---|---|---|---|---|---|---|---|
| A chromosomal level genome assembly of Nguni Sheep, Ovis aries LT Nesengani, et al.Scientific Data, 2025, July | A chromosomal level genome assembly of Nguni Sheep, Ovis aries | LT Nesengani, et al. | Scientific Data | 2025 | July | https://www.nature.com/articles/s41597-025-05514-7 | Mammal | Genome Assembly | Evolution, Agricultural Biology | Omni-C | |
| A genome assembly for Lahontan Cutthroat Trout, Oncorhynchus clarkii henshawi CY Payne, et al.Journal of Heredity, 2025, July | A genome assembly for Lahontan Cutthroat Trout, Oncorhynchus clarkii henshawi | CY Payne, et al. | Journal of Heredity | 2025 | July | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esaf050/8196565 | Fish | Genome Assembly | Conservation, Structural Variation | Omni-C | |
| Chromosome-level genome of Zoysia sinica in the intertidal zone reveals genomic insights into waterlogging stress adaptation H Park, et al.The Plant Genome, 2025, July | Chromosome-level genome of Zoysia sinica in the intertidal zone reveals genomic insights into waterlogging stress adaptation | H Park, et al. | The Plant Genome | 2025 | July | https://acsess.onlinelibrary.wiley.com/doi/full/10.1002/tpg2.70070 | Plant | Genome Assembly | Evolution | Omni-C | |
| High-quality chromosome-level genome of three Meretrix species using Nanopore and Hi-C technologies CC Chen, et al.Scientific Data, 2025, July | High-quality chromosome-level genome of three Meretrix species using Nanopore and Hi-C technologies | CC Chen, et al. | Scientific Data | 2025 | July | https://www.nature.com/articles/s41597-025-05454-2 | Mollusc | Genome Assembly | Conservation, Agricultural Biology | Omni-C | |
| The reference genome for the northeastern Pacific bull kelp, Nereocystis luetkeana C Alves-Lima, et al.BioRxiv (pre-print), 2025, July | The reference genome for the northeastern Pacific bull kelp, Nereocystis luetkeana | C Alves-Lima, et al. | BioRxiv (pre-print) | 2025 | July | https://www.biorxiv.org/content/10.1101/2025.07.16.665147v1.abstract | Plant | Genome Assembly | Conservation, Evolution | Omni-C | |
| Nearly T2T, phased genome assemblies of corals reveal haplotype diversity and the evolutionary process of gene expansion T Takeuchi, et al.DNA Research, 2025, July | Nearly T2T, phased genome assemblies of corals reveal haplotype diversity and the evolutionary process of gene expansion | T Takeuchi, et al. | DNA Research | 2025 | July | https://academic.oup.com/dnaresearch/advance-article/doi/10.1093/dnares/dsaf017/8180329 | Coral | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| From Wild Halophyte to Future Crop: Genomic Insights into Salicornia Y Wang, et al.Rsearch Square (Pre-print), 2025, July | From Wild Halophyte to Future Crop: Genomic Insights into Salicornia | Y Wang, et al. | Rsearch Square (Pre-print) | 2025 | July | https://repository.kaust.edu.sa/items/6ff40dd1-68c0-4379-9ac9-ce7c2fd548d1 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| The genome of a sea spider corroborates a shared Hox cluster motif in arthropods with a reduced posterior tagma N Papadopoulos, et al. BMC Biology, 2025, July | The genome of a sea spider corroborates a shared Hox cluster motif in arthropods with a reduced posterior tagma | N Papadopoulos, et al. | BMC Biology | 2025 | July | https://link.springer.com/article/10.1186/s12915-025-02276-x | Marine Arthopod | Genome Assembly | Evolution | Omni-C | |
| A genome resource for the marine annelid Platynereis spp KN Mutemi, et al.BMC Genomics, 2025, July | A genome resource for the marine annelid Platynereis spp | KN Mutemi, et al. | BMC Genomics | 2025 | July | https://link.springer.com/article/10.1186/s12864-025-11727-2 | Worm | Genome Assembly | Conservation | Omni-C | |
| A Complete Telomere-to-Telomere Diploid Reference Genome for Indian Population P Sarashetti, et al.BioRxiv (pre-print), 2025, July | A Complete Telomere-to-Telomere Diploid Reference Genome for Indian Population | P Sarashetti, et al. | BioRxiv (pre-print) | 2025 | July | https://www.biorxiv.org/content/10.1101/2025.07.12.664550v1.abstract | Human | Genome Assembly | Structural Variation, Conservation | Omni-C | |
| Sex chromosome identification and genome curation from a single individual with SCINKD BJ Pinto, et al.BioRxiv (pre-print), 2025, July | Sex chromosome identification and genome curation from a single individual with SCINKD | BJ Pinto, et al. | BioRxiv (pre-print) | 2025 | July | https://www.biorxiv.org/content/10.1101/2025.07.07.660342v1.abstract | Human | Genome Assembly | Developmental Biology | Omni-C | |
| The genomic basis of the tristylous floral polymorphism - evidence for a role of gene duplications in a region of restricted recombination H Xue, et al.Molecular Biology and Evolution, 2025, July | The genomic basis of the tristylous floral polymorphism - evidence for a role of gene duplications in a region of restricted recombination | H Xue, et al. | Molecular Biology and Evolution | 2025 | July | https://academic.oup.com/mbe/advance-article/doi/10.1093/molbev/msaf170/8207160 | Plant | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| European ash pangenome reveals widespread structural variation and a diverse genetic basis for low ash dieback susceptibility DP Wood, et al.BioRxiv (pre-print), 2025, July | European ash pangenome reveals widespread structural variation and a diverse genetic basis for low ash dieback susceptibility | DP Wood, et al. | BioRxiv (pre-print) | 2025 | July | https://www.biorxiv.org/content/10.1101/2025.07.16.665114v1.abstract | Plant | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Genome topology analysis and transcriptomics of human osteoclasts reveals enhancer-promoter interactions at loci for bone traits and diseases SG Wilson, et al.JBMR Plus, 2025, July | Genome topology analysis and transcriptomics of human osteoclasts reveals enhancer-promoter interactions at loci for bone traits and diseases | SG Wilson, et al. | JBMR Plus | 2025 | July | https://academic.oup.com/jbmrplus/advance-article/doi/10.1093/jbmrpl/ziaf120/8203257 | Human | Epigenetics | Other Disease | Micro-C | |
| ILF2 blockade suppresses helicase-mediated R-loop resolution to induce lethality in homologous recombination-deficient cancers YC Lim, et al.BioRxiv (pre-print), 2025, July | ILF2 blockade suppresses helicase-mediated R-loop resolution to induce lethality in homologous recombination-deficient cancers | YC Lim, et al. | BioRxiv (pre-print) | 2025 | July | https://www.biorxiv.org/content/10.1101/2025.05.21.655390v2.full | Human | Epigenetics | Cancer, 3D Chromatin Topology | TopoLink | |
| Development and extensive sequencing of a broadly-consented Genome in a Bottle matched tumor-normal pair JH McDaniel, et al.Scientific Data, 2025, July | Development and extensive sequencing of a broadly-consented Genome in a Bottle matched tumor-normal pair | JH McDaniel, et al. | Scientific Data | 2025 | July | https://www.nature.com/articles/s41597-025-05438-2 | Human | Genome Assembly | Cancer | LinkPrep | |
| Non-canonical activating roles of RCoR2 sustain transcription in adrenergic neuroblastoma S Aloisi, et al.Cell Reports, 2025, July | Non-canonical activating roles of RCoR2 sustain transcription in adrenergic neuroblastoma | S Aloisi, et al. | Cell Reports | 2025 | July | https://www.cell.com/cell-reports/fulltext/S2211-1247(25)00722-3 | Human | Epigenetics | Cancer | HiChIP | |
| The genome of the early diverged amphioxus, Asymmetron lucayanum, illuminates the evolution of genome architecture and gene repertoires in cephalochordates Y Ren, et al.BioRxiv (pre-print), 2025, July | The genome of the early diverged amphioxus, Asymmetron lucayanum, illuminates the evolution of genome architecture and gene repertoires in cephalochordates | Y Ren, et al. | BioRxiv (pre-print) | 2025 | July | https://www.biorxiv.org/content/10.1101/2025.07.21.665930v1.abstract | Cephalochordate | Genome Assembly | Evolution | Hi-C, ChiCAGO | |
| Comprehensive resolution and classification of the Epstein Barr virus transcriptome TD Nguyen, et al.Nature Communications, 2025, July | Comprehensive resolution and classification of the Epstein Barr virus transcriptome | TD Nguyen, et al. | Nature Communications | 2025 | July | https://www.nature.com/articles/s41467-025-61870-3 | Human | Epigenetics | Other Disease, Gene Expression | Micro-C | |
| Chromatin interaction maps of human arterioles reveal mechanisms for the genetic regulation of blood pressure Y Kiu, et al.Nature Communications, 2025, July | Chromatin interaction maps of human arterioles reveal mechanisms for the genetic regulation of blood pressure | Y Kiu, et al. | Nature Communications | 2025 | July | https://www.nature.com/articles/s41467-025-61656-7 | Human | Epigenetics | Gene Expression, Other Disease | Micro-C | |
| Integrative Genomic, Transcriptomic and Epigenomic Analysis Reveals cis-regulatory Contributions to High-altitude Adaptation in Tibetan Pigs D Lai, et al.Molecular Biology and Evolution, 2025, July | Integrative Genomic, Transcriptomic and Epigenomic Analysis Reveals cis-regulatory Contributions to High-altitude Adaptation in Tibetan Pigs | D Lai, et al. | Molecular Biology and Evolution | 2025 | July | https://academic.oup.com/mbe/article/42/7/msaf169/8196839 | Mammal | Epigenetics | Agricultural Biology, Evolution | HiChIP | |
| Chromosome-level assembly and annotation of the grey reef shark (Carcharhinus amblyrhynchos) genome C. Dahms, et al.BioRxiv (pre-print), 2025, June | Chromosome-level assembly and annotation of the grey reef shark (Carcharhinus amblyrhynchos) genome | C. Dahms, et al. | BioRxiv (pre-print) | 2025 | June | https://www.biorxiv.org/content/10.1101/2025.06.07.658398v1.abstract | Fish | Genome Assembly | Conservation | Omni-C | |
| ERGA-BGE genome of Dendarus foraminosus: an IUCN Least Concern darkling beetle endemic to Crete (Greece) G Bolanakis, et al.Open Research Europe (pre-print), 2025, June | ERGA-BGE genome of Dendarus foraminosus: an IUCN Least Concern darkling beetle endemic to Crete (Greece) | G Bolanakis, et al. | Open Research Europe (pre-print) | 2025 | June | https://open-research-europe.ec.europa.eu/articles/5-173 | Insect | Genome Assembly | Conservation, Evolution | Omni-C | |
| De Novo Genome Assembly and Annotation of the Arunachali Yak M Pukhrambam, et al.Scientific Data, 2025, June | De Novo Genome Assembly and Annotation of the Arunachali Yak | M Pukhrambam, et al. | Scientific Data | 2025 | June | https://www.nature.com/articles/s41597-025-05362-5 | Mammal | Genome Assembly | Conservation | Omni-C | |
| Genomic innovations underlying the transition to complex societies in termites C AumontFree University of Berlin (Dissertation), 2025, June | Genomic innovations underlying the transition to complex societies in termites | C Aumont | Free University of Berlin (Dissertation) | 2025 | June | https://refubium.fu-berlin.de/handle/fub188/47809 | Insect | Genome Assembly | Evolution | Omni-C | |
| Bimodal centromeres in pentaploid dogroses shed light on their unique meiosis V Herklotz, et al.Nature , 2025, June | Bimodal centromeres in pentaploid dogroses shed light on their unique meiosis | V Herklotz, et al. | Nature | 2025 | June | https://www.nature.com/articles/s41586-025-09171-z | Plant | Genome Assembly | Evolution | Omni-C | |
| Impaired trap closure in the counting-deficient Venus flytrap mutant DYSCALCULIA is caused by cell wall biomechanics S Trebing, et al.BioRxiv (pre-print), 2025, June | Impaired trap closure in the counting-deficient Venus flytrap mutant DYSCALCULIA is caused by cell wall biomechanics | S Trebing, et al. | BioRxiv (pre-print) | 2025 | June | https://www.biorxiv.org/content/10.1101/2025.06.26.661685v1.abstract | Plant | Genome Assembly | Developmental Biology | Omni-C | |
| Comparison of whole-genome assemblies of European river lamprey (Lampetra fluviatilis) and brook lamprey (Lampetra planeri) OK Torresen, et al.Journal of Heredity, 2025, June | Comparison of whole-genome assemblies of European river lamprey (Lampetra fluviatilis) and brook lamprey (Lampetra planeri) | OK Torresen, et al. | Journal of Heredity | 2025 | June | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esaf036/8161274 | FIsh | Genome Assembly | Evolution | Omni-C | |
| Gene Flow Disruption and Population Declines in a Soil Arthropod in Fragmented Habitats TAT Ho, et al.Molecular Ecology, 2025, June | Gene Flow Disruption and Population Declines in a Soil Arthropod in Fragmented Habitats | TAT Ho, et al. | Molecular Ecology | 2025 | June | https://onlinelibrary.wiley.com/doi/full/10.1111/mec.17820 | Insect | Genome Assembly | Conservation, Evolution | Omni-C | |
| The evolutionary history and functional specialization of microRNA genes in Arabidopsis halleri and A. lyrata F Pavan, et al.The Plant Cell, 2025, June | The evolutionary history and functional specialization of microRNA genes in Arabidopsis halleri and A. lyrata | F Pavan, et al. | The Plant Cell | 2025 | June | https://academic.oup.com/plcell/advance-article-abstract/doi/10.1093/plcell/koaf168/8176839 | Plant | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| Pan-genome and haplotype map of cassava cultivars and wild ancestors provide insights into its adaptive evolution and domestication Z Xia, et al.Molecular Plant, 2025, June | Pan-genome and haplotype map of cassava cultivars and wild ancestors provide insights into its adaptive evolution and domestication | Z Xia, et al. | Molecular Plant | 2025 | June | https://www.cell.com/molecular-plant/fulltext/S1674-2052(25)00173-X | Plant | Genome Assembly | Agricultural Biology, Evolution | Hi-C | |
| Limited population structure but signals of recent selection in introduced African Fig Fly (Zaprionus indianus) in North America PA Erickson, et al.BioRxiv (pre-print), 2025, June | Limited population structure but signals of recent selection in introduced African Fig Fly (Zaprionus indianus) in North America | PA Erickson, et al. | BioRxiv (pre-print) | 2025 | June | https://pmc.ncbi.nlm.nih.gov/articles/PMC11463544/ | Insect | Genome Assembly | Evolution | Omni-C | |
| Screening a new European hake (Merluccius merluccius) chromosome-level genome assembly suggests an XX/XY sex-determining system driven by the SRY-box transcription factor 3 (sox3) G3 Genes|Genomes|Genetics, 2025, June | Screening a new European hake (Merluccius merluccius) chromosome-level genome assembly suggests an XX/XY sex-determining system driven by the SRY-box transcription factor 3 (sox3) | G3 Genes|Genomes|Genetics | 2025 | June | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkaf127/8158669 | Fish | Genome Assembly | Conservation | Omni-C | ||
| Population genomics of recovery and extinction in Hawaiian honeycreepers C Kyriazis, et al.Current Biology, 2025, June | Population genomics of recovery and extinction in Hawaiian honeycreepers | C Kyriazis, et al. | Current Biology | 2025 | June | https://www.cell.com/current-biology/fulltext/S0960-9822(25)00575-5 | Bird | Genome Assembly | Conservation | Omni-C | |
| The architecture of resilience: a genome assembly of Myrothamnus flabellifolia sheds light on desiccation tolerance and sex determination R Marks, et al.BioRxiv (pre-print), 2025, June | The architecture of resilience: a genome assembly of Myrothamnus flabellifolia sheds light on desiccation tolerance and sex determination | R Marks, et al. | BioRxiv (pre-print) | 2025 | June | https://www.biorxiv.org/content/10.1101/2025.06.02.657439v2.abstract | Plant | Genome Assembly | Developmental Biology | Omni-C | |
| Wolbachia induces host cell identity changes and determines symbiotic fate in Drosophila J Jacobs, et al.BioRxiv (pre-print), 2025, June | Wolbachia induces host cell identity changes and determines symbiotic fate in Drosophila | J Jacobs, et al. | BioRxiv (pre-print) | 2025 | June | https://www.biorxiv.org/content/10.1101/2025.06.05.658111v1.abstract | Insect | Epigenetics | Other disease | Micro-C | |
| Unraveling the cohesin-chromatin interface: identifying protein interactions that modulate chromosome structure and function N Rittenhouse, et al.Epigenetics & Chromatin, 2025, June | Unraveling the cohesin-chromatin interface: identifying protein interactions that modulate chromosome structure and function | N Rittenhouse, et al. | Epigenetics & Chromatin | 2025 | June | https://link.springer.com/article/10.1186/s13072-025-00596-4 | Human | Epigenetics | Gene Expression | Micro-C | |
| A single-cell atlas of the bobtail squid visual and nervous system highlights molecular principles of convergent evolution D Gavriouchkina, et al.Nature Ecology & Evolution, 2025, June | A single-cell atlas of the bobtail squid visual and nervous system highlights molecular principles of convergent evolution | D Gavriouchkina, et al. | Nature Ecology & Evolution | 2025 | June | https://www.nature.com/articles/s41559-025-02720-9 | Fish | Genome Assembly | Evolution | Hi-C, HiRiSE | |
| Genomic insights into Castanopsis carlesii and Castanea henryi: flower and fruit development and evolution of NLR genes in the beech-oak family X Tu, et al.Molecular Horticulture , 2025, June | Genomic insights into Castanopsis carlesii and Castanea henryi: flower and fruit development and evolution of NLR genes in the beech-oak family | X Tu, et al. | Molecular Horticulture | 2025 | June | https://link.springer.com/article/10.1186/s43897-025-00152-4 | Plant | Genome Assembly | Evolution | Hi-C | |
| Satellite-observed mountain greening predicts genomic erosion in a grassland medicinal herb over half a century S Theodoridis, et al.Current Biology, 2025, June | Satellite-observed mountain greening predicts genomic erosion in a grassland medicinal herb over half a century | S Theodoridis, et al. | Current Biology | 2025 | June | https://www.cell.com/current-biology/fulltext/S0960-9822(25)00436-1 | Plant | Genome Assembly | Conservation | Hi-C | |
| Clover All Over: Investigating Wild Trifolium Management of Bacterial Symbionts A EakerWashington State University (Dissertation), 2025, May | Clover All Over: Investigating Wild Trifolium Management of Bacterial Symbionts | A Eaker | Washington State University (Dissertation) | 2025 | May | https://www.proquest.com/openview/af99f2d0880b807731e4cb5d95a19dc9/1?pq-origsite=gscholar&cbl=18750&diss=y | Plant | Genome Assembly | Evolution, Agricultural Biology | Omni-C | |
| Chromosomal scale assembly and functional annotation of the apicomplexan parasite Eimeria acervulina S Srivastava, et al.Scientific Data, 2025, May | Chromosomal scale assembly and functional annotation of the apicomplexan parasite Eimeria acervulina | S Srivastava, et al. | Scientific Data | 2025 | May | https://www.nature.com/articles/s41597-025-04653-1 | Eukaryote | Genome Assembly | Agricultural Biology, Immunology | Omni-C | |
| Reference genome and reproduction-focused transcriptome for the threatened alpine tree frog (Litoria verreauxii alpina) A Wendt, et al., 2025, May | Reference genome and reproduction-focused transcriptome for the threatened alpine tree frog (Litoria verreauxii alpina) | A Wendt, et al. | 2025 | May | https://f1000research.com/articles/14-514 | Amphibian | Genome Assembly | Conservation | Omni-C | ||
| A haplotype-resolved genome assembly of the bocaccio rockfish, Sebastes paucispinis R De-Kayne, et al.Journal of Heredity, 2025, May | A haplotype-resolved genome assembly of the bocaccio rockfish, Sebastes paucispinis | R De-Kayne, et al. | Journal of Heredity | 2025 | May | https://www.researchgate.net/profile/Milton-Love/publication/391457980_A_haplotype-resolved_genome_assembly_of_the_bocaccio_rockfish_Sebastes_paucispinis/links/681cf47560241d514025a407/A-haplotype-resolved-genome-assembly-of-the-bocaccio-rockfish-Sebastes-paucispinis.pdf | FIsh | Genome Assembly | Agricultural Biology, Conservation | Omni-C | |
| Chromosome-scale whole genome assembly and annotation of the Jamaican field cricket Gryllus assimilis Y Ito, et al.Scientific Data, 2025, May | Chromosome-scale whole genome assembly and annotation of the Jamaican field cricket Gryllus assimilis | Y Ito, et al. | Scientific Data | 2025 | May | https://www.scienceopen.com/document_file/dafc8ccb-fced-4dc7-8aac-3b75742b64d9/PubMedCentral/dafc8ccb-fced-4dc7-8aac-3b75742b64d9.pdf | Insect | Genome Assembly | Agricultural Biology, Conservation | Omni-C | |
| Reconstruction of the X and Y haplotypes in the genetically improved Abbassa nile tilapia genome assembly GJ Etherington, et al.Scientific Reports, 2025, May | Reconstruction of the X and Y haplotypes in the genetically improved Abbassa nile tilapia genome assembly | GJ Etherington, et al. | Scientific Reports | 2025 | May | https://www.nature.com/articles/s41598-025-01300-y | Fish | Genome Assembly | Agricultural Biology | Omni-C | |
| Reference genome of the Gophersnake, Pituophis catenifer (Serpentes: Colubridae) J Grismer, et al.Journal of Heredity, 2025, May | Reference genome of the Gophersnake, Pituophis catenifer (Serpentes: Colubridae) | J Grismer, et al. | Journal of Heredity | 2025 | May | https://academic.oup.com/jhered/advance-article-abstract/doi/10.1093/jhered/esaf024/8124693 | Reptile | Genome Assembly | Conservation | Omni-C | |
| A Chromosome-level Genome Assembly of the Beavertail Cactus, Opuntia basilaris S Fawcett, et al.Journal of Heredity, 2025, May | A Chromosome-level Genome Assembly of the Beavertail Cactus, Opuntia basilaris | S Fawcett, et al. | Journal of Heredity | 2025 | May | https://academic.oup.com/jhered/advance-article-abstract/doi/10.1093/jhered/esaf027/8126916 | Plant | Genome Assembly | Conservation | Omni-C | |
| 3D Genome Constrains Breakpoints of Inversions That Can Act as Barriers to Gene Flow in the Stickleback Y Yamasaki, et al.Molecular Ecology, 2025, May | 3D Genome Constrains Breakpoints of Inversions That Can Act as Barriers to Gene Flow in the Stickleback | Y Yamasaki, et al. | Molecular Ecology | 2025 | May | https://onlinelibrary.wiley.com/doi/full/10.1111/mec.17814 | Fish | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Genomic Insights into the Population Structure and Adaptive Variation of Mullus barbatus in the Mediterranean Sea P Massa, et al.Research Square (pre-print), 2025, May | Genomic Insights into the Population Structure and Adaptive Variation of Mullus barbatus in the Mediterranean Sea | P Massa, et al. | Research Square (pre-print) | 2025 | May | https://www.researchsquare.com/article/rs-6370797/v1 | Fish | Genome Assembly | Agricultural Biology | Omni-C | |
| Chromosome-level genome assembly of the doctor fish (Garra rufa) T Kon, et al.Scientific Data, 2025, May | Chromosome-level genome assembly of the doctor fish (Garra rufa) | T Kon, et al. | Scientific Data | 2025 | May | https://www.nature.com/articles/s41597-025-05101-w | Fish | Genome Assembly | Adaptation | Omni-C | |
| Single-cell analyses reveal scyphozoan conserved and specific genes contribution during tissue regeneration in two jellyfish Y Li, et al.BioRxiv (pre-print), 2025, May | Single-cell analyses reveal scyphozoan conserved and specific genes contribution during tissue regeneration in two jellyfish | Y Li, et al. | BioRxiv (pre-print) | 2025 | May | https://www.biorxiv.org/content/10.1101/2025.04.29.650939v1.abstract | Cnidaria | Genome Assembly | Evolution | Omni-C | |
| Coexisting with humans: genomic and behavioural consequences in a small and isolated bear population G Fabbri, et al.BioRxiv (pre-print), 2025, May | Coexisting with humans: genomic and behavioural consequences in a small and isolated bear population | G Fabbri, et al. | BioRxiv (pre-print) | 2025 | May | https://www.biorxiv.org/content/10.1101/2025.05.15.654188v1.abstract | Mammal | Genome Assembly | Evolution, Conservation | Omni-C | |
| A Chromosome-Scale Genome of Nanomia septata Reveals Extensive Rearrangement But No Clear Driver of the Unique Colony-Level Organization of Siphonophores N Ahuja, et al.BioRxiv (pre-print), 2025, May | A Chromosome-Scale Genome of Nanomia septata Reveals Extensive Rearrangement But No Clear Driver of the Unique Colony-Level Organization of Siphonophores | N Ahuja, et al. | BioRxiv (pre-print) | 2025 | May | https://www.biorxiv.org/content/10.1101/2025.05.01.651713v1.abstract | Cnidaria | Genome Assembly | Evolution | Omni-C | |
| Signatures of Selection for Resistance/Tolerance to Perkinsus olseni in Grooved Carpet Shell Clam (Ruditapes decussatus) Using a Population Genomics Approach I Sambade, et al.Evolutionary Applications, 2025, May | Signatures of Selection for Resistance/Tolerance to Perkinsus olseni in Grooved Carpet Shell Clam (Ruditapes decussatus) Using a Population Genomics Approach | I Sambade, et al. | Evolutionary Applications | 2025 | May | https://onlinelibrary.wiley.com/doi/full/10.1111/eva.70106 | Mollusc | Genome Assembly | Agricultural Biology | Omni-C | |
| Post-polyploid chromosomal diploidization in plants is affected by clade divergence and constrained by shared genomic features M Lysak, et al.Research Square (pre-print), 2025, May | Post-polyploid chromosomal diploidization in plants is affected by clade divergence and constrained by shared genomic features | M Lysak, et al. | Research Square (pre-print) | 2025 | May | https://www.researchsquare.com/article/rs-6440714/v1 | Plant | Genome Assembly | Evolution | Omni-C | |
| Chromosomal fusions and subsequent rearrangements shaped octopus genomes M Yoshida, et al.BioRxiv (pre-print), 2025, May | Chromosomal fusions and subsequent rearrangements shaped octopus genomes | M Yoshida, et al. | BioRxiv (pre-print) | 2025 | May | https://www.biorxiv.org/content/10.1101/2025.05.16.652989v1.abstract | Cephalopod | Genome Assembly | Evolution | Omni-C | |
| AI-Driven Drug Target Screening Platform Identified Oncogene CACNA2D1 Activated by Enhancer Infestation in Epstein-Barr Virus-Associated Nasopharyngeal Carcinoma D Chung, et al.IJMS, 2025, May | AI-Driven Drug Target Screening Platform Identified Oncogene CACNA2D1 Activated by Enhancer Infestation in Epstein-Barr Virus-Associated Nasopharyngeal Carcinoma | D Chung, et al. | IJMS | 2025 | May | https://www.mdpi.com/1422-0067/26/10/4697 | Mouse | Genome Assembly | Cancer | Omni-C | |
| Topologically associating domains and the evolution of three-dimensional genome architecture in rice A Kurbidaeva, et al.The Plant Journal, 2025, May | Topologically associating domains and the evolution of three-dimensional genome architecture in rice | A Kurbidaeva, et al. | The Plant Journal | 2025 | May | https://onlinelibrary.wiley.com/doi/full/10.1111/tpj.70139 | Plant | Epigenetics | Agricultural Biology, 3D Chromatin Topology | Micro-C | |
| The molecular basis of chromosomal inversions in deer mice L Gozashti, et al.Cell Reports, 2025, May | The molecular basis of chromosomal inversions in deer mice | L Gozashti, et al. | Cell Reports | 2025 | May | https://pubmed.ncbi.nlm.nih.gov/40327505/ | Mouse | Genome Assembly | Genetic Analysis | Omni-C | |
| Genome reorganization and its functional impact during breast cancer progression KSM Reed, et al.BioRxiv (pre-print), 2025, May | Genome reorganization and its functional impact during breast cancer progression | KSM Reed, et al. | BioRxiv (pre-print) | 2025 | May | https://www.biorxiv.org/content/10.1101/2025.05.14.654144v1.abstract | Human | Epigenetics | Cancer, 3D Chromatin Topology | Micro-C | |
| High-resolution CTCF footprinting reveals impact of chromatin state on cohesin extrusion C Sept, et al.Nature Communications, 2025, May | High-resolution CTCF footprinting reveals impact of chromatin state on cohesin extrusion | C Sept, et al. | Nature Communications | 2025 | May | https://www.nature.com/articles/s41467-025-57775-w | Human | Epigenetics | 3D Chromatin Topology, Gene Expression | HiChIP | |
| Haplotype-resolved reference genomes of the sea turtle clade unveil ultra-syntenic genomes with hotspots of divergence S Liu, et al.Cell Reports, 2025, May | Haplotype-resolved reference genomes of the sea turtle clade unveil ultra-syntenic genomes with hotspots of divergence | S Liu, et al. | Cell Reports | 2025 | May | https://www.cell.com/cell-reports/fulltext/S2211-1247(25)00468-1 | Mollusc | Genome Assembly | Gene Expression, Evolution | Hi-C | |
| Conservative evolution of genetic and genomic features in Caenorhabditis becei, an experimentally tractable gonochoristic worm J Correa, et al.BioRxiv (pre-print), 2025, May | Conservative evolution of genetic and genomic features in Caenorhabditis becei, an experimentally tractable gonochoristic worm | J Correa, et al. | BioRxiv (pre-print) | 2025 | May | https://www.biorxiv.org/content/10.1101/2025.05.09.653148v1.abstract | Worm | Genome Assembly | Genetic Analysis | Hi-C | |
| Genomic evidence reveals a lack of evolutionary differentiation among grasshopper sparrow (Ammodramus savannarum) subspecies C Carneiro, et al.Conservation Genetics, 2025, May | Genomic evidence reveals a lack of evolutionary differentiation among grasshopper sparrow (Ammodramus savannarum) subspecies | C Carneiro, et al. | Conservation Genetics | 2025 | May | https://link.springer.com/article/10.1007/s10592-025-01704-3 | Bird | Genome Assembly | Evolution | Hi-C | |
| Reference genome of the leopard seal (Hydrurga leptonyx),a Southern Ocean apex predator J Canitz, et al.Evolutionary and Population Genetics, 2025, May | Reference genome of the leopard seal (Hydrurga leptonyx),a Southern Ocean apex predator | J Canitz, et al. | Evolutionary and Population Genetics | 2025 | May | https://www.frontiersin.org/journals/genetics/articles/10.3389/fgene.2025.1561273/full | Mammal | Genome Assembly | Conservation | Hi-C | |
| Genomic Selection Breeding in Abalone: Progress and Challenges L Jin, et al.International Journal of Aquaculture, 2025, April | Genomic Selection Breeding in Abalone: Progress and Challenges | L Jin, et al. | International Journal of Aquaculture | 2025 | April | https://www.aquapublisher.com/index.php/ija/article/view/3941 | Fish | Genome Assembly | Agricultural Biology | Omni-C | |
| Chromosome-level genome assembly and annotation of the sharpsnout seabream (Diplodus puntazzo) C Pegueroles, et al.Scientific Data, 2025, April | Chromosome-level genome assembly and annotation of the sharpsnout seabream (Diplodus puntazzo) | C Pegueroles, et al. | Scientific Data | 2025 | April | https://www.nature.com/articles/s41597-025-04902-3 | Fish | Genome Assembly | Conservation | Omni-C | |
| Diploid chromosome-level genome assembly and annotation for Lycorma delicatula A Snead, et al.Scientific Data, 2025, April | Diploid chromosome-level genome assembly and annotation for Lycorma delicatula | A Snead, et al. | Scientific Data | 2025 | April | https://www.nature.com/articles/s41597-025-04854-8 | Insect | Genome Assembly | Agricultural Biology, Conservation | Omni-C | |
| Chromosome-scale genome assembly of the European common cuttlefish Sepia officinalis S Rencken, et al.BioRxiv (pre-print), 2025, April | Chromosome-scale genome assembly of the European common cuttlefish Sepia officinalis | S Rencken, et al. | BioRxiv (pre-print) | 2025 | April | https://www.biorxiv.org/content/10.1101/2025.04.22.649952v1.abstract | Mollusc | Genome Assembly | Evolution | Omni-C | |
| The evolution of gene expression in seasonal environments S Kudo, et al.BioRxiv (pre-print), 2025, April | The evolution of gene expression in seasonal environments | S Kudo, et al. | BioRxiv (pre-print) | 2025 | April | https://www.biorxiv.org/content/10.1101/2025.03.25.645377v2.abstract | Plant | Genome Assembly | Evolution | Omni-C | |
| Insights into convergent evolution of cosexuality in liverworts from the Marchantia quadrata genome G Potente, et al.Cell Reports, 2025, April | Insights into convergent evolution of cosexuality in liverworts from the Marchantia quadrata genome | G Potente, et al. | Cell Reports | 2025 | April | https://www.cell.com/cell-reports/fulltext/S2211-1247(25)00274-8 | Plant | Genome Assembly | Developmental Biology | Omni-C | |
| The phased pan-genome of tetraploid European potato H Sun, et al.Nature , 2025, April | The phased pan-genome of tetraploid European potato | H Sun, et al. | Nature | 2025 | April | https://www.nature.com/articles/s41586-025-08843-0 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Adaptation repeatedly uses complex structural genomic variation Z Gompert, et al.Science, 2025, April | Adaptation repeatedly uses complex structural genomic variation | Z Gompert, et al. | Science | 2025 | April | https://www.science.org/doi/abs/10.1126/science.adp3745 | Insect | Genome Assembly | Genetic Analysis, Evolution | Omni-C | |
| Comparative analyses of four reference genomes reveal exceptional diversity and weak linked selection in the yellow monkeyflower (Mimulus guttatus) complex J Lovell, et al.Authorea, 2025, April | Comparative analyses of four reference genomes reveal exceptional diversity and weak linked selection in the yellow monkeyflower (Mimulus guttatus) complex | J Lovell, et al. | Authorea | 2025 | April | https://www.authorea.com/doi/full/10.22541/au.174487446.63393375 | Plant | Genome Assembly | Evolution | Omni-C | |
| Genomic garden: From societal and scientific impacts to biodiversity conservation A Lim, et al.Cell Genomics, 2025, April | Genomic garden: From societal and scientific impacts to biodiversity conservation | A Lim, et al. | Cell Genomics | 2025 | April | https://www.cell.com/cell-genomics/fulltext/S2666-979X(25)00035-7?dgcid=raven_jbs_etoc_email | Plant | Genome Assembly | Conservation | Omni-C | |
| ERGA-BGE Reference Genome of the Western Montpellier Snake (Malpolon monspessulanus),a Key Species for Evolutionary and Venom Studies S Carranza, et al.ARPHA (Preprint), 2025, April | ERGA-BGE Reference Genome of the Western Montpellier Snake (Malpolon monspessulanus),a Key Species for Evolutionary and Venom Studies | S Carranza, et al. | ARPHA (Preprint) | 2025 | April | https://preprints.arphahub.com/article/155085/ | Reptile | Genome Assembly | Evolution | Omni-C | |
| The genomic landscape of Hermetia illucens: exploring the potential of the black soldier fly through molecular insights P Muchina, et al.Brill, 2025, April | The genomic landscape of Hermetia illucens: exploring the potential of the black soldier fly through molecular insights | P Muchina, et al. | Brill | 2025 | April | https://brill.com/view/journals/jiff/aop/article-10.1163-23524588-bja10200/article-10.1163-23524588-bja10200.xml | Insect | Genome Assembly | Agricultural Biology | Omni-C | |
| Assembly, annotation and analysis of the complete mitochondrial genome of a neotropic lineage of Ligula intestinalis (Cestoda: Diphyllobothriidea): Insights into Evolution and Phylogenetics Research Square (pre-print), 2025, April | Assembly, annotation and analysis of the complete mitochondrial genome of a neotropic lineage of Ligula intestinalis (Cestoda: Diphyllobothriidea): Insights into Evolution and Phylogenetics | Research Square (pre-print) | 2025 | April | https://www.researchsquare.com/article/rs-6241047/v1 | Parasite | Genome Assembly | Evolution | Omni-C | ||
| The first chromosome-scale genome assembly of a microcyclic rust, Puccinia silphii J S. de Mattos, et al.BMC Genomics, 2025, April | The first chromosome-scale genome assembly of a microcyclic rust, Puccinia silphii | J S. de Mattos, et al. | BMC Genomics | 2025 | April | https://link.springer.com/article/10.1186/s12864-025-11593-y | Fungi | Genome Assembly | Evolution | Omni-C | |
| Polyploidy-mediated variations in glutamate receptor proteins linked to Fusarium wilt resistance in upland cotton S Parris, et al.The Plant Journal, 2025, April | Polyploidy-mediated variations in glutamate receptor proteins linked to Fusarium wilt resistance in upland cotton | S Parris, et al. | The Plant Journal | 2025 | April | https://onlinelibrary.wiley.com/doi/full/10.1111/tpj.70125 | Plant | Genome Assembly | Conservation, Agricultural Biology | Omni-C | |
| Sex Chromosome Turnover and Structural Interspecific Genome Divergence Shapes Meiotic Outcomes in Hybridizing Cobitis S Schlebusch, et al.BioRxiv (pre-print), 2025, April | Sex Chromosome Turnover and Structural Interspecific Genome Divergence Shapes Meiotic Outcomes in Hybridizing Cobitis | S Schlebusch, et al. | BioRxiv (pre-print) | 2025 | April | https://www.biorxiv.org/content/10.1101/2025.04.01.646337v1.abstract | Fish | Genome Assembly | Developmental Biology, Evolution | Omni-C | |
| Genomic and ecological divergence support recognition of a new species of endangered Satyrium butterfly (Lepidoptera, Lycaenidae) Z MacDonaldZookeys, 2025, April | Genomic and ecological divergence support recognition of a new species of endangered Satyrium butterfly (Lepidoptera, Lycaenidae) | Z MacDonald | Zookeys | 2025 | April | https://pmc.ncbi.nlm.nih.gov/articles/PMC12022668/ | Insect | Genome Assembly | Evolution, Conservation | Omni-C | |
| Genomic Insights into the Evolution of Carnivory in the Giant Butterwort, Pinguicula gigantea: Chromosome-Level Assembly and Phylogenomic Analysis S Fleck, et al.BioRxiv (pre-print), 2025, April | Genomic Insights into the Evolution of Carnivory in the Giant Butterwort, Pinguicula gigantea: Chromosome-Level Assembly and Phylogenomic Analysis | S Fleck, et al. | BioRxiv (pre-print) | 2025 | April | https://www.biorxiv.org/content/10.1101/2025.04.05.646448v1.abstract | Plant | Genome Assembly | Evolution | Omni-C | |
| Nuc3DMap delineates finer nucleosome-based three-dimensional chromatin architecture K Fang, et al.BioRxiv (pre-print), 2025, April | Nuc3DMap delineates finer nucleosome-based three-dimensional chromatin architecture | K Fang, et al. | BioRxiv (pre-print) | 2025 | April | https://www.biorxiv.org/content/10.1101/2025.04.03.647017v1.abstract | Human | Epigenetics | 3D Chromatin Topology | Micro-C | |
| Whole-genome sequencing of wild and ancestral Dura provides insight into genetic shifting during the domestication of oil palm (Elaeis guineensis Jacq.) R Aditama, et al.Research Square (pre-print), 2025, April | Whole-genome sequencing of wild and ancestral Dura provides insight into genetic shifting during the domestication of oil palm (Elaeis guineensis Jacq.) | R Aditama, et al. | Research Square (pre-print) | 2025 | April | https://www.researchgate.net/profile/S-Sudarsono/publication/391295660_Whole-genome_sequencing_of_wild_and_ancestral_Dura_provides_insight_into_genetic_shifting_during_the_domestication_of_oil_palm_Elaeis_guineensis_Jacq/links/6811e4bdbd3f1930dd67ff7e/Whole-genome-sequencing-of-wild-and-ancestral-Dura-provides-insight-into-genetic-shifting-during-the-domestication-of-oil-palm-Elaeis-guineensis-Jacq.pdf | Plant | Genome Assembly | Agricultural Biology | Hi-C | |
| Chromosome-Level Genome Assembly of the Loach Goby Rhyacichthys aspro Offers Insights Into Gobioidei Evolution T Wang, et al. Molecular Ecology Resources, 2025, April | Chromosome-Level Genome Assembly of the Loach Goby Rhyacichthys aspro Offers Insights Into Gobioidei Evolution | T Wang, et al. | Molecular Ecology Resources | 2025 | April | https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.14110 | Fish | Genome Assembly | Evolution | Hi-C, HiRiSE | |
| Duckweed genomes and epigenomes underlie triploid hybridization and clonal reproduction E Ernst, et al.Current Biology, 2025, April | Duckweed genomes and epigenomes underlie triploid hybridization and clonal reproduction | E Ernst, et al. | Current Biology | 2025 | April | https://www.cell.com/current-biology/fulltext/S0960-9822(25)00298-2 | Plant | Genome Assembly | Evolution | Hi-C | |
| Mutant CEBPA promotes tolerance to inflammatory stress through deficient AP-1 activation M Cadefau-Fabregat, et al.Nature Communications, 2025, April | Mutant CEBPA promotes tolerance to inflammatory stress through deficient AP-1 activation | M Cadefau-Fabregat, et al. | Nature Communications | 2025 | April | https://www.nature.com/articles/s41467-025-58712-7 | Human | Epigenetics | Cancer | HiChIP | |
| Genetic variation and diversity in wild small mammals : an analysis on a mutation in coat color-determining gene of Norway rat ( Rattus norvegicus) and phylogeography in Japanese moles __, _Hokkaido University, 2025, March | Genetic variation and diversity in wild small mammals : an analysis on a mutation in coat color-determining gene of Norway rat ( Rattus norvegicus) and phylogeography in Japanese moles | __, _ | Hokkaido University | 2025 | March | https://eprints.lib.hokudai.ac.jp/dspace/bitstream/2115/95149/1/Takeru_Tsunoi.pdf | Mouse | Genome Assembly | Evolution, Developmental Biology | Omni-C | |
| Strong Signatures of Selection on Candidate Genes Underlying Core Speciation Mechanisms in Desert Tortoises SM Baty, et al.Molecular Ecology Resources, 2025, March | Strong Signatures of Selection on Candidate Genes Underlying Core Speciation Mechanisms in Desert Tortoises | SM Baty, et al. | Molecular Ecology Resources | 2025 | March | https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.14098 | Reptile | Genome Assembly | Evolution | Hi-C, ChiCAGO | |
| Genomes of two indigenous clams Anomalocardia flexuosa (Linnaeus, 1767) and Meretrix petechialis (Lamarck, 1818) S Law, et al.Scientific Data, 2025, March | Genomes of two indigenous clams Anomalocardia flexuosa (Linnaeus, 1767) and Meretrix petechialis (Lamarck, 1818) | S Law, et al. | Scientific Data | 2025 | March | https://www.nature.com/articles/s41597-025-04748-9 | Mollusc | Genome Assembly | Agricultural Biology, Conservation | Omni-C | |
| Near-chromosome-level genome assembly and transcriptome analysis of the Ural owl, Strix uralensis PALLAS, 1771 S Winter, et al.BioRxiv (pre-print), 2025, March | Near-chromosome-level genome assembly and transcriptome analysis of the Ural owl, Strix uralensis PALLAS, 1771 | S Winter, et al. | BioRxiv (pre-print) | 2025 | March | https://www.biorxiv.org/content/10.1101/2025.03.26.645461v1.abstract | Bird | Genome Assembly | Conservation | Omni-C | |
| The genome assembly of the farmed European whitefish Coregonus lavaretus L. from the Finnish selective breeding programme K Pokharel, et al.BMC Genome Data, 2025, March | The genome assembly of the farmed European whitefish Coregonus lavaretus L. from the Finnish selective breeding programme | K Pokharel, et al. | BMC Genome Data | 2025 | March | https://link.springer.com/article/10.1186/s12863-025-01313-6 | Fish | Genome Assembly | Agricultural Biology | Omni-C | |
| First reference genomes for two mesophotic, reef-building coral species: Leptoseris cf. scabra and Montipora cf. grisea V Radice, et al.Journal of Heredity, 2025, March | First reference genomes for two mesophotic, reef-building coral species: Leptoseris cf. scabra and Montipora cf. grisea | V Radice, et al. | Journal of Heredity | 2025 | March | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esaf010/8090358 | Coral | Genome Assembly | Conservation | Omni-C | |
| A Prelude to Conservation Genomics: First Chromosome-Level Genome Assembly of a Flying Squirrel (Pteromyini: Pteromys volans) G Wehrenberg, et al.BioRxiv (pre-print), 2025, March | A Prelude to Conservation Genomics: First Chromosome-Level Genome Assembly of a Flying Squirrel (Pteromyini: Pteromys volans) | G Wehrenberg, et al. | BioRxiv (pre-print) | 2025 | March | https://www.biorxiv.org/content/10.1101/2025.03.20.644356v2.abstract | Mammal | Genome Assembly | Conservation | Omni-C | |
| The impact of telomere-to-telomere genome assembly in the plant pan-genomics era Y Blue, et al.Breeding Science, 2025, March | The impact of telomere-to-telomere genome assembly in the plant pan-genomics era | Y Blue, et al. | Breeding Science | 2025 | March | https://www.jstage.jst.go.jp/article/jsbbs/75/1/75_24065/_article/-char/ja/ | Plant | Genome Assembly | Genetic Analysis | Omni-C | |
| A Haplotype-resolved Chromosome-scale Genome Assembly and Annotation for the Leafcutter Ant, Acromyrmex octospinosus G Agavekar, et al.Genome Biology and Evolution, 2025, March | A Haplotype-resolved Chromosome-scale Genome Assembly and Annotation for the Leafcutter Ant, Acromyrmex octospinosus | G Agavekar, et al. | Genome Biology and Evolution | 2025 | March | https://academic.oup.com/gbe/article/17/3/evaf047/8069203 | Insect | Genome Assembly | Evolution | Omni-C | |
| The Haplotype-resolved and Chromosome-scale Genome of Vaccinium Stamineum: A New Source of Genetic Variability for Blueberry Breeding G Matsumoto, et al.BioRxiv (pre-print), 2025, March | The Haplotype-resolved and Chromosome-scale Genome of Vaccinium Stamineum: A New Source of Genetic Variability for Blueberry Breeding | G Matsumoto, et al. | BioRxiv (pre-print) | 2025 | March | https://www.biorxiv.org/content/10.1101/2025.03.21.644558v1.abstract | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| The genome of the vining fern Lygodium microphyllum highlights genomic and functional differences between life phases of an invasive plant J Pelosi, et al.BioRxiv (pre-print), 2025, March | The genome of the vining fern Lygodium microphyllum highlights genomic and functional differences between life phases of an invasive plant | J Pelosi, et al. | BioRxiv (pre-print) | 2025 | March | https://www.biorxiv.org/content/10.1101/2025.03.06.640867v1 | Plant | Genome Assembly | Developmental Biology | Omni-C | |
| The genome sequence of Tethysbaena scabra (Pretus, 1991),the first known in the peracarid crustacean order Thermosbaenacea. J Pons, et al., 2025, March | The genome sequence of Tethysbaena scabra (Pretus, 1991),the first known in the peracarid crustacean order Thermosbaenacea. | J Pons, et al. | 2025 | March | https://f1000research.com/articles/14-293 | Crustacean | Genome Assembly | Conservation | Omni-C | ||
| Hi-reComb: constructing recombination maps from bulk gamete Hi-C sequencing M Malinsky, et al.BioRxiv (pre-print), 2025, March | Hi-reComb: constructing recombination maps from bulk gamete Hi-C sequencing | M Malinsky, et al. | BioRxiv (pre-print) | 2025 | March | https://www.biorxiv.org/content/10.1101/2025.03.06.641907v2.abstract | Fish | Genome Assembly | Genetic Analysis, Evolution | Omni-C | |
| Genomic Insights Into the Origin, Decline and Recovery of the Once Critically Endangered Iberian Lynx J Godoy, et al.Molecular Ecology, 2025, March | Genomic Insights Into the Origin, Decline and Recovery of the Once Critically Endangered Iberian Lynx | J Godoy, et al. | Molecular Ecology | 2025 | March | https://onlinelibrary.wiley.com/doi/full/10.1111/mec.17719 | Mammal | Genome Assembly | Conservation | Omni-C | |
| Genomic Landscape of Divergence in Ballan Wrasse (Labrus bergylta) E Jansson, et al.Molecular Ecology, 2025, March | Genomic Landscape of Divergence in Ballan Wrasse (Labrus bergylta) | E Jansson, et al. | Molecular Ecology | 2025 | March | https://onlinelibrary.wiley.com/doi/full/10.1111/mec.17732 | Fish | Genome Assembly | Evolution | Omni-C | |
| Skin regional specification and higher-order HoxC regulation S Li, et al.Science Advances, 2025, March | Skin regional specification and higher-order HoxC regulation | S Li, et al. | Science Advances | 2025 | March | https://www.science.org/doi/full/10.1126/sciadv.ado2223 | Bird | Epigenetics | 3D Chromatin Topology | Micro-C | |
| Discovery of Cis-Regulatory Mechanisms via Non-Coding Mutations in Acute Lymphoblastic Leukemia E Aydin, et al.Genes, Chromosomes and Cancer, 2025, March | Discovery of Cis-Regulatory Mechanisms via Non-Coding Mutations in Acute Lymphoblastic Leukemia | E Aydin, et al. | Genes, Chromosomes and Cancer | 2025 | March | https://onlinelibrary.wiley.com/doi/full/10.1002/gcc.70045 | Human | Epigenetics | Cancer, 3D Chromatin Topology | Micro-C | |
| De novo genome assembly of an interspecific hybrid grapevine ‘Maeve’ M Fujie, et al.BioRxiv (pre-print), 2025, March | De novo genome assembly of an interspecific hybrid grapevine ‘Maeve’ | M Fujie, et al. | BioRxiv (pre-print) | 2025 | March | https://www.biorxiv.org/content/10.1101/2025.03.24.644857v2.abstract | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Ephemeral speciation in a New Guinean honeyeater complex (Aves: Melidectes) I Muller, et al.Authorea (Pre-print), 2025, February | Ephemeral speciation in a New Guinean honeyeater complex (Aves: Melidectes) | I Muller, et al. | Authorea (Pre-print) | 2025 | February | https://www.authorea.com/doi/full/10.22541/au.173639442.28305532 | Bird | Genome Assembly | Evolution | Omni-C | |
| A chromosome-length genome assembly for the Pismo clam, Tivela stultorum, a long-lived bivalve species severely impacted by overfishing KA Emery, et al.Journal of Heredity, 2025, February | A chromosome-length genome assembly for the Pismo clam, Tivela stultorum, a long-lived bivalve species severely impacted by overfishing | KA Emery, et al. | Journal of Heredity | 2025 | February | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esaf008/8023712 | Mollusc | Genome Assembly | Agricultural Biology, Conservation | Omni-C | |
| A Near Complete Genome Assembly of the Oshima Cherry Cerasus speciosa K Fujiwara, et al.Scientific Data , 2025, February | A Near Complete Genome Assembly of the Oshima Cherry Cerasus speciosa | K Fujiwara, et al. | Scientific Data | 2025 | February | https://www.nature.com/articles/s41597-025-04388-z | Plant | Genome Assembly | Evolution | Omni-C | |
| Post-mitotic transcriptional activation and 3D regulatory interactions show locus- and differentiation-specific sensitivity to cohesin depletion U Lee, et al.BioRxiv (Pre-print), 2025, February | Post-mitotic transcriptional activation and 3D regulatory interactions show locus- and differentiation-specific sensitivity to cohesin depletion | U Lee, et al. | BioRxiv (Pre-print) | 2025 | February | https://www.biorxiv.org/content/10.1101/2025.02.13.638153v1.abstract | Mouse | Epigenetics | Gene Expression, 3D Chromatin Topology | Micro-C | |
| ERGA-BGE Reference Genome of Loboptera subterranea: a cave adapted cockroach endemic to the Canary Islands H Lopez, et al.BioRxiv (Pre-print), 2025, February | ERGA-BGE Reference Genome of Loboptera subterranea: a cave adapted cockroach endemic to the Canary Islands | H Lopez, et al. | BioRxiv (Pre-print) | 2025 | February | https://www.biorxiv.org/content/10.1101/2025.02.06.636782v1.abstract | Insect | Genome Assembly | Conservation | Omni-C | |
| ERGA-BGE genome of Coenonympha oedippus: an IUCN endangered European butterfly species occurring in two ecotypes T Celik, et al.BioRxiv (Pre-print), 2025, February | ERGA-BGE genome of Coenonympha oedippus: an IUCN endangered European butterfly species occurring in two ecotypes | T Celik, et al. | BioRxiv (Pre-print) | 2025 | February | https://www.biorxiv.org/content/10.1101/2025.02.10.637396v1.abstract | Insect | Genome Assembly | Conservation | Omni-C | |
| Whole genome sequencing reveals how plasticity and genetic differentiation underlie sympatric morphs of Arctic charr K Kurta, et al.BioRxiv (Pre-print), 2025, February | Whole genome sequencing reveals how plasticity and genetic differentiation underlie sympatric morphs of Arctic charr | K Kurta, et al. | BioRxiv (Pre-print) | 2025 | February | https://www.biorxiv.org/content/10.1101/2025.02.10.637319v1.abstract | Fish | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| A haplotype-resolved reference genome for Eucalyptus grandis A Lotter, et al.BioRxiv (Pre-print), 2025, February | A haplotype-resolved reference genome for Eucalyptus grandis | A Lotter, et al. | BioRxiv (Pre-print) | 2025 | February | https://www.biorxiv.org/content/10.1101/2025.02.07.637144v1.abstract | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A chromosome-level genome assembly of the European green toad (Bufotes viridis) P Rodin-Morch, et al.G3, 2025, February | A chromosome-level genome assembly of the European green toad (Bufotes viridis) | P Rodin-Morch, et al. | G3 | 2025 | February | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkaf002/8024180 | Amphibian | Genome Assembly | Conservation | Omni-C | |
| Recurrent evolution of cryptic triploids in cultivated enset increases yield Y Dussert, et al.BioRxiv (pre-print), 2025, February | Recurrent evolution of cryptic triploids in cultivated enset increases yield | Y Dussert, et al. | BioRxiv (pre-print) | 2025 | February | https://www.biorxiv.org/content/10.1101/2025.02.14.638218v1.abstract | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A non-catalytic role for MLL2 in controlling chromatin organisation and mobility during the priming of pluripotent cells for differentiation M Steindel, et al.BioRxiv (pre-print), 2025, February | A non-catalytic role for MLL2 in controlling chromatin organisation and mobility during the priming of pluripotent cells for differentiation | M Steindel, et al. | BioRxiv (pre-print) | 2025 | February | https://www.biorxiv.org/content/10.1101/2025.02.21.639010v1.abstract | Human | Epigenetics | Stem Cell Research | Micro-C | |
| Comparative analysis using a chromosome-scale genome assembly for Funaria hygrometrica suggests greater collinearity in mosses than in seed plants A Kirbis, et al.Communications Biology, 2025, February | Comparative analysis using a chromosome-scale genome assembly for Funaria hygrometrica suggests greater collinearity in mosses than in seed plants | A Kirbis, et al. | Communications Biology | 2025 | February | https://www.nature.com/articles/s42003-025-07749-x | Plant | Genome Assembly | Genetic Analysis | Hi-C, ChiCAGO | |
| A Chromosome level assembly of pomegranate (Punica granatum L.) variety grown in arid environment HV Patankar, et al.Scientific Data, 2025, January | A Chromosome level assembly of pomegranate (Punica granatum L.) variety grown in arid environment | HV Patankar, et al. | Scientific Data | 2025 | January | https://www.nature.com/articles/s41597-024-04337-2 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Exploring Technical and Biological Variation in Nematode Genomes GM MarieneUniversity of Calgary (Dissertation), 2025, January | Exploring Technical and Biological Variation in Nematode Genomes | GM Mariene | University of Calgary (Dissertation) | 2025 | January | https://prism.ucalgary.ca/server/api/core/bitstreams/242d6c9e-ecb6-4fcd-b964-50e07005acd4/content | Nematode | Genome Assembly | Agricultural Biology, Conservation | Omni-C | |
| Disentangling the hybridization dynamics between Chrosomus eos, the northern redbelly dace, and Chrosomus neogaeus, the finescale dace. B SchultzUniversity of Guelph (Dissertation), 2025, January | Disentangling the hybridization dynamics between Chrosomus eos, the northern redbelly dace, and Chrosomus neogaeus, the finescale dace. | B Schultz | University of Guelph (Dissertation) | 2025 | January | https://atrium.lib.uoguelph.ca/items/dbac7c1e-62d5-4e22-9a52-429953d3b70e | Fish | Genome Assembly | Developmental Biology, Evolution | Omni-C | |
| Secrets of the Goo: the Genome assembly of the Pacific Banana Slug, Ariolimax columbianus M Genetti, et al.Jouranl of Heredity, 2025, January | Secrets of the Goo: the Genome assembly of the Pacific Banana Slug, Ariolimax columbianus | M Genetti, et al. | Jouranl of Heredity | 2025 | January | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esaf002/7978205 | Mollusk | Genome Assembly | Conservation | Omni-C | |
| Genome assembly and population analysis of tetraploid marama bean reveal two distinct genome types J Li, et al.Scientific Reports, 2025, January | Genome assembly and population analysis of tetraploid marama bean reveal two distinct genome types | J Li, et al. | Scientific Reports | 2025 | January | https://www.nature.com/articles/s41598-025-86023-w | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Conservation of symmetry breaking at the level of chromatin accessibility between fly species with unrelated anterior determinants E Amiri, et al.BioRxiv (Pre-print), 2025, January | Conservation of symmetry breaking at the level of chromatin accessibility between fly species with unrelated anterior determinants | E Amiri, et al. | BioRxiv (Pre-print) | 2025 | January | https://www.biorxiv.org/content/10.1101/2025.01.13.632851v1.abstract | Insect | Epigenetics | Developmental Biology, 3D Chromatin Topology | Omni-C | |
| Revisiting the Central Dogma: the distinct roles of genome, methylation, transcription, and translation on protein expression in Arabidopsis thaliana Z Zhong, et al.BioRxiv (Pre-print), 2025, January | Revisiting the Central Dogma: the distinct roles of genome, methylation, transcription, and translation on protein expression in Arabidopsis thaliana | Z Zhong, et al. | BioRxiv (Pre-print) | 2025 | January | https://www.biorxiv.org/content/10.1101/2025.01.08.631880v1.abstract | Plant | Genome Assembly | Gene Expression | Omni-C | |
| Genomes of the entomopathogenic nematode Steinernema hermaphroditum and its associated bacteria EM Schwarz, et al.BioRxiv (Pre-print), 2025, January | Genomes of the entomopathogenic nematode Steinernema hermaphroditum and its associated bacteria | EM Schwarz, et al. | BioRxiv (Pre-print) | 2025 | January | https://www.biorxiv.org/content/10.1101/2025.01.09.632278v1.abstract | Nematode | Genome Assembly | Conservation | Omni-C | |
| ERGA-BGE genome of Androsace saussurei Dentant, Lavergne, F. C. Boucher & S. Ibanez, a recently described plant from the rooftops of Europe S Lavergne, et al.BioRxiv (Pre-print), 2025, January | ERGA-BGE genome of Androsace saussurei Dentant, Lavergne, F. C. Boucher & S. Ibanez, a recently described plant from the rooftops of Europe | S Lavergne, et al. | BioRxiv (Pre-print) | 2025 | January | https://www.biorxiv.org/content/10.1101/2025.01.21.634019v1.abstract | Plant | Genome Assembly | Conservation | Omni-C | |
| Unravelling termite evolution with 47 high-resolution genome assemblies C Liu, et al.BioRxiv (Pre-print), 2025, January | Unravelling termite evolution with 47 high-resolution genome assemblies | C Liu, et al. | BioRxiv (Pre-print) | 2025 | January | https://www.biorxiv.org/content/10.1101/2025.01.20.633303v1.abstract | Insect | Genome Assembly | Evolution | Omni-C | |
| A chromosome-level genome assembly of wild silkmoth, Bombyx mandarina J Lee, et al.Scientific Data, 2025, January | A chromosome-level genome assembly of wild silkmoth, Bombyx mandarina | J Lee, et al. | Scientific Data | 2025 | January | https://www.nature.com/articles/s41597-025-04395-0 | Insect | Genome Assembly | Conservation | Omni-C | |
| Chromosome-scale genome dynamics reveal signatures of independent haplotype evolution in the ancient asexual mite Platynothrus peltifer H Oztoprak, et al.Science Advances, 2025, January | Chromosome-scale genome dynamics reveal signatures of independent haplotype evolution in the ancient asexual mite Platynothrus peltifer | H Oztoprak, et al. | Science Advances | 2025 | January | https://www.science.org/doi/full/10.1126/sciadv.adn0817 | Insect | Genome Assembly | Developmental Biology | Omni-C | |
| Biosynthesis and Bioactivity of Anti-Inflammatory Triterpenoids in Calendula officinalis (pot marigold) D Golubova, et al.Biology, 2025, January | Biosynthesis and Bioactivity of Anti-Inflammatory Triterpenoids in Calendula officinalis (pot marigold) | D Golubova, et al. | Biology | 2025 | January | https://www.biorxiv.org/content/10.1101/2025.01.11.632544v1.full | Plant | Genome Assembly | Other | Omni-C | |
| MAPPING RHIZOCTONIA ROOT AND CROWN ROT RESISTANCE FROM SUGAR BEET GERMPLASM FC709-2 USING NEW GENOMIC RESOURCES N. Metz Colorado State University (Dissertation), 2024, na | MAPPING RHIZOCTONIA ROOT AND CROWN ROT RESISTANCE FROM SUGAR BEET GERMPLASM FC709-2 USING NEW GENOMIC RESOURCES | N. Metz | Colorado State University (Dissertation) | 2024 | na | https://api.mountainscholar.org/server/api/core/bitstreams/9a9c966c-a511-48b6-8960-f3477fbb0ffa/content | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Global and genetic regulation of gene expression in human endothelial and vascular smooth muscle cells P Liu, et al.BioRxiv (Pre-print), 2024, December | Global and genetic regulation of gene expression in human endothelial and vascular smooth muscle cells | P Liu, et al. | BioRxiv (Pre-print) | 2024 | December | https://www.biorxiv.org/content/10.1101/2024.12.25.630318v1.abstract | Human | Epigenetics | Gene Expression, 3D Chromatin Topology | Micro-C | |
| A single-cell map of hypertension Q Qiu, et al.BioRxiv (Pre-print), 2024, December | A single-cell map of hypertension | Q Qiu, et al. | BioRxiv (Pre-print) | 2024 | December | https://www.biorxiv.org/content/10.1101/2024.12.25.630332v1.abstract | Mouse | Epigenetics | Other Disease | Micro-C, Promoter Capture | |
| Chromosome-level assemblies of the endemic Korean species Abeliophyllum distichum and Forsythia ovata H jang, et al.Scientific Data, 2024, December | Chromosome-level assemblies of the endemic Korean species Abeliophyllum distichum and Forsythia ovata | H jang, et al. | Scientific Data | 2024 | December | https://www.nature.com/articles/s41597-024-04252-6 | Plant | Genome Assembly | Evolution | Hi-C, HiRise | |
| Phased genome assemblies and pangenome graphs of human populations of Japan and Saudi Arabia M Kulmanov, et al.BioRxiv (Pre-print), 2024, December | Phased genome assemblies and pangenome graphs of human populations of Japan and Saudi Arabia | M Kulmanov, et al. | BioRxiv (Pre-print) | 2024 | December | https://www.biorxiv.org/content/10.1101/2024.12.18.628902v1.abstract | Human | Genome Assembly | Other | Omni-C | |
| Evaluating data requirements for high-quality haplotype-resolved genomes for creating robust pangenome references P Sarashetti, et al.Genome Biology, 2024, December | Evaluating data requirements for high-quality haplotype-resolved genomes for creating robust pangenome references | P Sarashetti, et al. | Genome Biology | 2024 | December | https://pmc.ncbi.nlm.nih.gov/articles/PMC11658127/ | Human | Genome Assembly | Other | Omni-C | |
| Investigating the impact of whole genome duplication on transposable element evolution in teleost fishes R Mallik, et al.Genome Biology and Evolution, 2024, December | Investigating the impact of whole genome duplication on transposable element evolution in teleost fishes | R Mallik, et al. | Genome Biology and Evolution | 2024 | December | https://academic.oup.com/gbe/advance-article/doi/10.1093/gbe/evae272/7931639 | Fish | Genome Assembly | Evolution | Hi-C, Chicago | |
| Genome Assembly Of The Winter Ant, Prenolepis Imparis EI Cash, et al.Journal of Heredity, 2024, December | Genome Assembly Of The Winter Ant, Prenolepis Imparis | EI Cash, et al. | Journal of Heredity | 2024 | December | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esae066/7919502 | Insect | Genome Assembly | Evolution, Conservation | Omni-C | |
| Whole-genome evaluation of genetic rescue: the case of a curiously isolated and endangered butterfly ZG MacDonald, et al.BioRxiv (Pre-print), 2024, December | Whole-genome evaluation of genetic rescue: the case of a curiously isolated and endangered butterfly | ZG MacDonald, et al. | BioRxiv (Pre-print) | 2024 | December | https://www.biorxiv.org/content/10.1101/2024.12.20.627963v1.abstract | Insect | Genome Assembly | Conservation | Omni-C | |
| Screening a new European hake (Merluccius merluccius) chromosome-level genome assembly suggests an XX/XY sex determining system driven by the SRY-box transcription factor 3 (sox3) PM Portela, et al.ResearchGate (Pre-print), 2024, December | Screening a new European hake (Merluccius merluccius) chromosome-level genome assembly suggests an XX/XY sex determining system driven by the SRY-box transcription factor 3 (sox3) | PM Portela, et al. | ResearchGate (Pre-print) | 2024 | December | https://www.researchgate.net/profile/Paulino-Martinez/publication/386753184_Screening_a_new_European_hake_Merluccius_merluccius_chromosome-level_genome_assembly_suggests_an_XXXY_sex_determining_system_driven_by_the_SRY-box_transcription_factor_3_sox3/links/6759d80805bf5b3e924ef7e3/Screening-a-new-European-hake-Merluccius-merluccius-chromosome-level-genome-assembly-suggests-an-XX-XY-sex-determining-system-driven-by-the-SRY-box-transcription-factor-3-sox3.pdf | Fish | Genome Assembly | Conservation | Omni-C | |
| A new genome sequence resource for five invasive fruit flies of agricultural concern: Ceratitis capitata, C. quilicii, C. rosa, Zeugodacus cucurbitae and Bactrocera zonata (Diptera, Tephritidae) P Deschepper, et al.F1000 Research (Pre-print), 2024, December | A new genome sequence resource for five invasive fruit flies of agricultural concern: Ceratitis capitata, C. quilicii, C. rosa, Zeugodacus cucurbitae and Bactrocera zonata (Diptera, Tephritidae) | P Deschepper, et al. | F1000 Research (Pre-print) | 2024 | December | https://f1000research.com/articles/13-1492 | Insect | Genome Assembly | Agricultural Biology | Omni-C | |
| Chromosome-scale genome assembly and de novo annotation of Alopecurus aequalis J Wright, et al.Scientific Data, 2024, December | Chromosome-scale genome assembly and de novo annotation of Alopecurus aequalis | J Wright, et al. | Scientific Data | 2024 | December | https://www.proquest.com/openview/9c95e6730ebbbb25327f1a4f288923e9/1?pq-origsite=gscholar&cbl=2041912 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| ERGA-BGE Reference Genome of the Striped Field Mouse (Apodemus agrarius),a Widespread and Abundant Species in Central and Eastern Europe F Janzekovic, et al.BioRxiv (Pre-print), 2024, December | ERGA-BGE Reference Genome of the Striped Field Mouse (Apodemus agrarius),a Widespread and Abundant Species in Central and Eastern Europe | F Janzekovic, et al. | BioRxiv (Pre-print) | 2024 | December | https://www.biorxiv.org/content/10.1101/2024.12.04.626796v1.abstract | Mouse | Genome Assembly | Conservation | Omni-C | |
| Species Conservation in the Big Data Era: Leveraging Genomic and Community Science Datasets for Conservation Management JN CurtiUniversity of California, Los Angeles (Dissertation), 2024, December | Species Conservation in the Big Data Era: Leveraging Genomic and Community Science Datasets for Conservation Management | JN Curti | University of California, Los Angeles (Dissertation) | 2024 | December | https://www.proquest.com/openview/9de87cabd06047ee83c62680cf481dd3/1?pq-origsite=gscholar&cbl=18750&diss=y | Mammal | Genome Assembly | Conservation | Omni-C | |
| The evolution of heteromorphic sex chromosomes in plants SB Carey, et al.BioRxiv (Pre-print), 2024, December | The evolution of heteromorphic sex chromosomes in plants | SB Carey, et al. | BioRxiv (Pre-print) | 2024 | December | https://www.biorxiv.org/content/10.1101/2024.12.09.627636v1.abstract | Plant | Genome Assembly | Evolution | Omni-C | |
| Insights into the transcriptomic responses of silver-lipped pearl oysters Pinctada maxima exposed to a simulated large-scale seismic survey C Dang, et al.BMC Genomics, 2024, December | Insights into the transcriptomic responses of silver-lipped pearl oysters Pinctada maxima exposed to a simulated large-scale seismic survey | C Dang, et al. | BMC Genomics | 2024 | December | https://link.springer.com/article/10.1186/s12864-024-11091-7 | Mollusk | Genome Assembly | Gene Expression, Conservation | Omni-C | |
| Structural rearrangements and selection promote phenotypic evolution in Anolis lizards R Araya-Donso, et al.BioRxiv (Pre-print), 2024, December | Structural rearrangements and selection promote phenotypic evolution in Anolis lizards | R Araya-Donso, et al. | BioRxiv (Pre-print) | 2024 | December | https://www.biorxiv.org/content/10.1101/2024.12.12.628123v1.abstract | Reptile | Genome Assembly | Evolution | Hi-C, Chicago | |
| Polyploid genome assembly of Cardamine chenopodiifolia A Emonet, et al.GigaByte, 2024, December | Polyploid genome assembly of Cardamine chenopodiifolia | A Emonet, et al. | GigaByte | 2024 | December | https://pmc.ncbi.nlm.nih.gov/articles/PMC11693932/ | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Comparison of whole-genome assemblies of European river lamprey (Lampetra fluviatilis) and brook lamprey (Lampetra planeri) OK Torresen, et al.BioRxiv (Pre-print), 2024, December | Comparison of whole-genome assemblies of European river lamprey (Lampetra fluviatilis) and brook lamprey (Lampetra planeri) | OK Torresen, et al. | BioRxiv (Pre-print) | 2024 | December | https://www.biorxiv.org/content/10.1101/2024.12.06.627158v3.full | Fish | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Unveiling the evolutionary history of European vipers and their venoms from a multi-omic approach A Talavera, et al.BioRxiv (Pre-print), 2024, December | Unveiling the evolutionary history of European vipers and their venoms from a multi-omic approach | A Talavera, et al. | BioRxiv (Pre-print) | 2024 | December | https://www.biorxiv.org/content/10.1101/2024.12.10.627732v1.full | Reptile | Genome Assembly | Conservation, Evolution | Omni-C | |
| Chromosome-level genome assemblies and genetic maps reveal heterochiasmy and macrosynteny in endangered Atlantic Acropora NS Locatelli, et al.BMC Genomics, 2024, November | Chromosome-level genome assemblies and genetic maps reveal heterochiasmy and macrosynteny in endangered Atlantic Acropora | NS Locatelli, et al. | BMC Genomics | 2024 | November | https://pmc.ncbi.nlm.nih.gov/articles/PMC11577847/ | Coral | Genome Assembly | Conservation | Chicago, Hi-C | |
| Chromosome-scale assembly of apple mint (Mentha suaveolens) A Firl, et al.BMC Genomic Data, 2024, November | Chromosome-scale assembly of apple mint (Mentha suaveolens) | A Firl, et al. | BMC Genomic Data | 2024 | November | https://link.springer.com/article/10.1186/s12863-024-01278-y | Plant | Genome Assembly | Agricultural Biology | Chicago, Hi-C | |
| Chromosome-level reference genome for the Jonah crab, Cancer borealis JM Polinski, et al.G3, 2024, November | Chromosome-level reference genome for the Jonah crab, Cancer borealis | JM Polinski, et al. | G3 | 2024 | November | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkae254/7877229 | Crustacean | Genome Assembly | Agricultural Biology | Omni-C | |
| New genomic resources inform transcriptomic responses to heavy metal toxins in the common Eastern bumble bee Bombus impatiens AL Toth, et al.BMC Genomics, 2024, November | New genomic resources inform transcriptomic responses to heavy metal toxins in the common Eastern bumble bee Bombus impatiens | AL Toth, et al. | BMC Genomics | 2024 | November | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-024-11040-4 | Insect | Genome Assembly | Gene Expression | Omni-C | |
| De novo whole-genome assembly and annotation of Coffea arabica var. Geisha, a high-quality coffee variety from the primary origin of coffe JF Medrano, et al.G3, 2024, November | De novo whole-genome assembly and annotation of Coffea arabica var. Geisha, a high-quality coffee variety from the primary origin of coffe | JF Medrano, et al. | G3 | 2024 | November | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkae262/7900928 | Plant | Genome Assembly | Agricultural Biology | Chicago, Hi-C | |
| A reference quality, fully annotated diploid genome from a Saudi individual M Kulmanov, et al.Scientific Data, 2024, November | A reference quality, fully annotated diploid genome from a Saudi individual | M Kulmanov, et al. | Scientific Data | 2024 | November | https://www.nature.com/articles/s41597-024-04121-2 | Human | Genome Assembly | Conservation | Omni-C | |
| Chromosome-level genome assembly and annotation of the Patagonian toothfish Dissostichus eleginoides SJ Lee, et al.Scientific Data, 2024, November | Chromosome-level genome assembly and annotation of the Patagonian toothfish Dissostichus eleginoides | SJ Lee, et al. | Scientific Data | 2024 | November | https://www.nature.com/articles/s41597-024-04119-w | Fish | Genome Assembly | Evolution | Hi-C | |
| Inter-chromosomal contacts demarcate genome topology along a spatial gradient M Mokhtaridoost, et al. Nature Communications, 2024, November | Inter-chromosomal contacts demarcate genome topology along a spatial gradient | M Mokhtaridoost, et al. | Nature Communications | 2024 | November | https://www.nature.com/articles/s41467-024-53983-y | Human | Epigenetics | 3D Chromatin Topology | Omni-C | |
| Major changes in gene expression between strains of diapausing and non-diapause spruce budworm despite little evidence of genetic divergence KRL Van Der Burg, et al.BioRxiv (Pre-print), 2024, November | Major changes in gene expression between strains of diapausing and non-diapause spruce budworm despite little evidence of genetic divergence | KRL Van Der Burg, et al. | BioRxiv (Pre-print) | 2024 | November | https://www.biorxiv.org/content/10.1101/2024.11.20.624545v1.abstract | Insect | Genome Assembly | Gene Expression | Omni-C | |
| The epigenome underlying a novel and non-parental stress-adaptive phenotype created by transgressive segregation A Kitazumi, et al.Research Square (Pre-print), 2024, November | The epigenome underlying a novel and non-parental stress-adaptive phenotype created by transgressive segregation | A Kitazumi, et al. | Research Square (Pre-print) | 2024 | November | https://www.researchsquare.com/article/rs-5307002/v1 | Plant | Epigenetics | 3D Chromatin Topology | Hi-C | |
| Transient histone deacetylase inhibition induces cellular memory of gene expression and three-dimensional genome folding F Paldi, et al.BioRxiv (Pre-print), 2024, November | Transient histone deacetylase inhibition induces cellular memory of gene expression and three-dimensional genome folding | F Paldi, et al. | BioRxiv (Pre-print) | 2024 | November | https://www.biorxiv.org/content/10.1101/2024.11.21.624660v1.abstract | Mouse | Epigenetics | 3D Chromatin Topology | Micro-C | |
| Type II topoisomerases shape multi-scale 3D chromatin folding in regions of positive supercoils GMC Longo, et al.Molecular Cell, 2024, November | Type II topoisomerases shape multi-scale 3D chromatin folding in regions of positive supercoils | GMC Longo, et al. | Molecular Cell | 2024 | November | https://www.cell.com/molecular-cell/fulltext/S1097-2765(24)00830-X | Mouse | Epigenetics | 3D Chromatin Topology | Micro-C | |
| A phased chromosome-level genome of the annelid tubeworm Galeolaria caespitosa M van Dorssen, et al.BioRxiv (Pre-print), 2024, November | A phased chromosome-level genome of the annelid tubeworm Galeolaria caespitosa | M van Dorssen, et al. | BioRxiv (Pre-print) | 2024 | November | https://www.biorxiv.org/content/10.1101/2024.11.18.624032v1.abstract | Worm | Genome Assembly | Evolution | Omni-C | |
| The genome of a sea spider corroborates a shared Hox cluster motif in arthropods with reduced posterior tagma N Papadopoulos, et al.BioRxiv (Pre-print), 2024, November | The genome of a sea spider corroborates a shared Hox cluster motif in arthropods with reduced posterior tagma | N Papadopoulos, et al. | BioRxiv (Pre-print) | 2024 | November | https://www.biorxiv.org/content/10.1101/2024.11.20.624475v1.abstract | Marine Anthropod | Genome Assembly | Evolution | Omni-C | |
| A chromosome-level genome of the giant vinegaroon Mastigoproctus giganteus exhibits the signature of pre-Silurian whole genome duplication SS Kulkarni, et al.BioRxiv (Pre-print), 2024, November | A chromosome-level genome of the giant vinegaroon Mastigoproctus giganteus exhibits the signature of pre-Silurian whole genome duplication | SS Kulkarni, et al. | BioRxiv (Pre-print) | 2024 | November | https://www.biorxiv.org/content/10.1101/2024.11.08.622695v1.abstract | Insect | Genome Assembly | Evolution | Omni-C | |
| Structural variation in the pangenome of wild and domesticated barley M Jayakodi, et al.Nature, 2024, November | Structural variation in the pangenome of wild and domesticated barley | M Jayakodi, et al. | Nature | 2024 | November | https://www.nature.com/articles/s41586-024-08187-1 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A chromosome-level reference genome for the common bed bug, Cimex lectularius, with identification of sex chromosomes LS Miles, et al.Journal of Heredity, 2024, November | A chromosome-level reference genome for the common bed bug, Cimex lectularius, with identification of sex chromosomes | LS Miles, et al. | Journal of Heredity | 2024 | November | https://academic.oup.com/jhered/advance-article-abstract/doi/10.1093/jhered/esae071/7912083 | Insect | Genome Assembly | Evolution | Omni-C | |
| Chromosome-scale genome assembly and linkage map for Silene uniflora reveal the recombination landscape in a rapidly evolving plant species OG Osborne, et al.BioRxiv (Pre-print), 2024, November | Chromosome-scale genome assembly and linkage map for Silene uniflora reveal the recombination landscape in a rapidly evolving plant species | OG Osborne, et al. | BioRxiv (Pre-print) | 2024 | November | https://www.biorxiv.org/content/10.1101/2024.11.25.625183v1.abstract | Plant | Genome Assembly | Evolution | Hi-C, Chicago | |
| Extensive longevity and DNA virus-driven adaptation in nearctic Myotis bats JM VazquezBioRxiv (Pre-print), 2024, November | Extensive longevity and DNA virus-driven adaptation in nearctic Myotis bats | JM Vazquez | BioRxiv (Pre-print) | 2024 | November | https://pmc.ncbi.nlm.nih.gov/articles/PMC11482938/ | Mammals | Genome Assembly | Other Disease, Cancer | Omni-C | |
| Reconstructing Catastrophic Chromothripsis Events Using Multiomic Data Reveals Their Functional Impact in Multiple Myeloma E Liu, et al.Blood, 2024, November | Reconstructing Catastrophic Chromothripsis Events Using Multiomic Data Reveals Their Functional Impact in Multiple Myeloma | E Liu, et al. | Blood | 2024 | November | https://www.sciencedirect.com/science/article/pii/S0006497124074020 | Human | Epigenetics | Cancer, Gene Expression | Micro-C | |
| TCF3::HLF Orchestrates an Enhancer-Promoter Network with Activation of MEF2C to Promote Immature HSC gene Expression in Leukemia V Priebe, et al.BioRxiv (Pre-print), 2024, November | TCF3::HLF Orchestrates an Enhancer-Promoter Network with Activation of MEF2C to Promote Immature HSC gene Expression in Leukemia | V Priebe, et al. | BioRxiv (Pre-print) | 2024 | November | https://www.biorxiv.org/content/10.1101/2024.11.26.625006v1.abstract | Human | Epigenetics | Cancer, 3D Chromatin Topology | HiChIP | |
| Evolution and functioning of an X-A balance sex determination system in hops T Akagi, et al.BioRxiv (Pre-print), 2024, November | Evolution and functioning of an X-A balance sex determination system in hops | T Akagi, et al. | BioRxiv (Pre-print) | 2024 | November | https://www.biorxiv.org/content/10.1101/2024.11.04.621975v1.full | Plant | Genome Assembly | Agricultural Biology, Developmental Biology | Omni-C | |
| Long-term balancing selection maintains cryptic color polymorphism in frogs S Goutte, et al.BioRxiv (Pre-print), 2024, November | Long-term balancing selection maintains cryptic color polymorphism in frogs | S Goutte, et al. | BioRxiv (Pre-print) | 2024 | November | https://www.biorxiv.org/content/10.1101/2024.11.15.623899v1.full | Amphibian | Genome Assembly | Evolution | Omni-C | |
| De Novo Genome assembly of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine A Schoenle, et al.BioRxiv (Pre-print), 2024, October | De Novo Genome assembly of the Caucasian dwarf goby Knipowitschia cf. caucasica, a new alien Gobiidae invading the River Rhine | A Schoenle, et al. | BioRxiv (Pre-print) | 2024 | October | https://www.biorxiv.org/content/10.1101/2024.04.22.590508v2 | Fish | Genome Assembly | Evolution | Omni-C | |
| Two high quality chromosome-scale genome assemblies of female and male silver pomfret (Pampus argenteus) J Hu, et al.Scientific Data, 2024, October | Two high quality chromosome-scale genome assemblies of female and male silver pomfret (Pampus argenteus) | J Hu, et al. | Scientific Data | 2024 | October | https://www.nature.com/articles/s41597-024-03914-9 | Fish | Genome Assembly | Agricultural Biology | Hi-C | |
| Chromosomal-level reference genome and microRNAs of the ricefield flatsedge Cyperus iria SSK Tsang, et al.BioRxiv (Pre-print), 2024, October | Chromosomal-level reference genome and microRNAs of the ricefield flatsedge Cyperus iria | SSK Tsang, et al. | BioRxiv (Pre-print) | 2024 | October | https://www.biorxiv.org/content/10.1101/2024.10.18.619046v1.abstract | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Chromosomal-level genome assembly of the Antarctic sea urchin Sterechinus neumayeri, a model for Antarctic invertebrate biology JF WarnerGenome Biology and Evolution, 2024, October | Chromosomal-level genome assembly of the Antarctic sea urchin Sterechinus neumayeri, a model for Antarctic invertebrate biology | JF Warner | Genome Biology and Evolution | 2024 | October | https://academic.oup.com/gbe/advance-article/doi/10.1093/gbe/evae237/7852863 | Echinoderm | Genome Assembly | Conservation, Evolution | Omni-C | |
| Genomes of Microtus rodents highlight the importance of olfactory and immune systems in their fast radiation A Gouy, et al.Genome Biology and Evolution, 2024, October | Genomes of Microtus rodents highlight the importance of olfactory and immune systems in their fast radiation | A Gouy, et al. | Genome Biology and Evolution | 2024 | October | https://academic.oup.com/gbe/advance-article/doi/10.1093/gbe/evae233/7833669 | Mammal | Genome Assembly | Developmental Biology | Omni-C | |
| Reference genome for the endangered, genetically subdivided, northern tidewater goby, Eucyclogobius newberryi DK JacobsJournal of Heredity, 2024, October | Reference genome for the endangered, genetically subdivided, northern tidewater goby, Eucyclogobius newberryi | DK Jacobs | Journal of Heredity | 2024 | October | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esae053/7811874 | Fish | Genome Assembly | Conservation, Evolution | Omni-C | |
| De novo genome assemblies of two cryptodiran turtles with ZZ/ZW and XX/XY sex chromosomes provide insights into patterns of genome reshuffling and uncover novel 3D genome folding in amniotes B Bista, et al.Genome Research, 2024, October | De novo genome assemblies of two cryptodiran turtles with ZZ/ZW and XX/XY sex chromosomes provide insights into patterns of genome reshuffling and uncover novel 3D genome folding in amniotes | B Bista, et al. | Genome Research | 2024 | October | https://genome.cshlp.org/content/34/10/1553.short | Reptile | Genome Assembly, Epigenetics | Evolution | Hi-C, Chicago | |
| Expanding the Triangle of U: Comparative analysis of the Hirschfeldia incana genome provides insights into chromosomal evolution, phylogenomics and high photosynthesis-related traits NV Hoang, et al.Annals of Botany, 2024, October | Expanding the Triangle of U: Comparative analysis of the Hirschfeldia incana genome provides insights into chromosomal evolution, phylogenomics and high photosynthesis-related traits | NV Hoang, et al. | Annals of Botany | 2024 | October | https://academic.oup.com/aob/advance-article/doi/10.1093/aob/mcae179/7835482 | Plant | Genome Assembly | Evolution | Omni-C | |
| Novel Megaptera novaeangliae (Humpback whale) haplotype chromosome-level reference genome MV Carminati, et al.Scientific Data, 2024, October | Novel Megaptera novaeangliae (Humpback whale) haplotype chromosome-level reference genome | MV Carminati, et al. | Scientific Data | 2024 | October | https://www.nature.com/articles/s41597-024-03922-9 | Mammal | Genome Assembly | Conservation, Evolution | Omni-C | |
| Haplotype-resolved de novo assembly revealed unique characteristics of alternative lengthening of telomeres in mouse embryonic stem cells H Lee, et al.Nucleic Acids Research, 2024, October | Haplotype-resolved de novo assembly revealed unique characteristics of alternative lengthening of telomeres in mouse embryonic stem cells | H Lee, et al. | Nucleic Acids Research | 2024 | October | https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae842/7798794 | Mouse | Epigenetics | Stem Cell Research | Micro-C | |
| Chromatin interaction maps of human arterioles reveal new mechanisms for the genetic regulation of blood pressure Y Liu, et al.BioRxiv (Pre-print), 2024, October | Chromatin interaction maps of human arterioles reveal new mechanisms for the genetic regulation of blood pressure | Y Liu, et al. | BioRxiv (Pre-print) | 2024 | October | https://www.biorxiv.org/content/10.1101/2024.10.09.617511v1.full | Human | Epigenetics | Other Disease | Micro-C | |
| Haplotype-resolved genome assembly and resequencing analysis provide insights into genome evolution and allelic imbalance in Pinus densiflora MJ Jang, et al.Nature Genetics, 2024, October | Haplotype-resolved genome assembly and resequencing analysis provide insights into genome evolution and allelic imbalance in Pinus densiflora | MJ Jang, et al. | Nature Genetics | 2024 | October | https://www.nature.com/articles/s41588-024-01944-y | Plant | Genome Assembly | Evolution | Omni-C | |
| Comparative genomics points to ecological drivers of genomic divergence among intertidal limpets E Giles, et al.Authorea (Prepreint), 2024, September | Comparative genomics points to ecological drivers of genomic divergence among intertidal limpets | E Giles, et al. | Authorea (Prepreint) | 2024 | September | https://www.authorea.com/doi/full/10.22541/au.172471105.55985878/v1 | Mollusc | Genome Assembly | Evolution | Omni-C | |
| Chamaeleo calyptratus (veiled chameleon) chromosome-scale genome assembly and annotation provides insights into the evolution of reptiles and developmental mechanisms NA Shylo, et al.BioRviv (Preprint), 2024, September | Chamaeleo calyptratus (veiled chameleon) chromosome-scale genome assembly and annotation provides insights into the evolution of reptiles and developmental mechanisms | NA Shylo, et al. | BioRviv (Preprint) | 2024 | September | https://www.biorxiv.org/content/10.1101/2024.09.03.611012v1.abstract | Reptile | Genome Assembly | Evolution | Omni-C | |
| The Reference Genome Of The Kidnapper Ant, Polyergus Mexicanus EI Cash, et al.Journal Of Heredity, 2024, September | The Reference Genome Of The Kidnapper Ant, Polyergus Mexicanus | EI Cash, et al. | Journal Of Heredity | 2024 | September | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esae047/7753503 | Insect | Genome Assembly | Conservation | Omni-C | |
| Response strategies to acute and chronic environmental stress in the arctic breeding Lapland longspur (Calcarius lapponicus) Z Wu, et al.Nature Portfolio (under review), 2024, September | Response strategies to acute and chronic environmental stress in the arctic breeding Lapland longspur (Calcarius lapponicus) | Z Wu, et al. | Nature Portfolio (under review) | 2024 | September | https://www.researchsquare.com/article/rs-4565468/v1 | Bird | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| The Gongora gibba genome assembly provides new insights into the evolution of floral scent in male euglossine bee-pollinated orchids MFG Amador, et al.G3, 2024, September | The Gongora gibba genome assembly provides new insights into the evolution of floral scent in male euglossine bee-pollinated orchids | MFG Amador, et al. | G3 | 2024 | September | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkae211/7749359 | Plant | Genome Assembly | Evolution | Chicago | |
| Chromosome-scale reference genome and RAD-based genetic map of yellow starthistle (Centaurea solstitialis) reveal putative structural variation and QTL associated with invader traits B Reatini, et al.BioRxiv (Pre-print), 2024, September | Chromosome-scale reference genome and RAD-based genetic map of yellow starthistle (Centaurea solstitialis) reveal putative structural variation and QTL associated with invader traits | B Reatini, et al. | BioRxiv (Pre-print) | 2024 | September | https://www.biorxiv.org/content/10.1101/2022.09.28.509992v2 | Plant | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| A haplotype-resolved chromosome-level genome assembly of Urochloa decumbens cv. Basilisk resolves its allopolyploid ancestry and composition C Ryan, et al.BioRxiv (Pre-print), 2024, September | A haplotype-resolved chromosome-level genome assembly of Urochloa decumbens cv. Basilisk resolves its allopolyploid ancestry and composition | C Ryan, et al. | BioRxiv (Pre-print) | 2024 | September | https://www.biorxiv.org/content/10.1101/2024.09.25.614935v1 | Bird | Genome Assembly | Agricultural Biology | Omni-C | |
| The molecular arsenal of the key coastal bioturbator Hediste diversicolor faced with changing oceans K Beine, et al.BioRxiv (Pre-print), 2024, September | The molecular arsenal of the key coastal bioturbator Hediste diversicolor faced with changing oceans | K Beine, et al. | BioRxiv (Pre-print) | 2024 | September | https://www.biorxiv.org/content/10.1101/2024.09.20.614147v1 | Worm | Genome Assembly | Conservation | Omni-C | |
| Ancient developmental genes underlie evolutionary novelties in walking fish AL Herbert, et al.Current Biology, 2024, September | Ancient developmental genes underlie evolutionary novelties in walking fish | AL Herbert, et al. | Current Biology | 2024 | September | https://www.cell.com/current-biology/fulltext/S0960-9822(24)01157-6 | Fish | Genome Assembly | Evolution | Omni-C | |
| A chromosome-level genome assembly of the disco clam, Ctenoides ales KE McElroy, et al.G3, 2024, September | A chromosome-level genome assembly of the disco clam, Ctenoides ales | KE McElroy, et al. | G3 | 2024 | September | https://academic.oup.com/g3journal/article/14/9/jkae115/7684203 | Mollusc | Genome Assembly | Evolution | Omni-C | |
| Relics of interspecific hybridization retained in the genome of a drought-adapted peanut cultivar PP Grabowski, et al.G3, 2024, September | Relics of interspecific hybridization retained in the genome of a drought-adapted peanut cultivar | PP Grabowski, et al. | G3 | 2024 | September | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkae208/7746783 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| The Genome Architecture of the Copepod Eurytemora carolleeae, the Highly Invasive Atlantic Clade of the E. affinis Species Complex Z Du, et al.Genomics, Proteomics and Bioinformatics, 2024, September | The Genome Architecture of the Copepod Eurytemora carolleeae, the Highly Invasive Atlantic Clade of the E. affinis Species Complex | Z Du, et al. | Genomics, Proteomics and Bioinformatics | 2024 | September | https://academic.oup.com/gpb/advance-article/doi/10.1093/gpbjnl/qzae066/7781685 | Fish | Genome Assembly | Evolution, Conservation | Hi-C | |
| High-quality chromosome-level genome assembly of female Artemia franciscana reveals sex chromosome and Hox gene organization E Jo, et al.Heliyon, 2024, September | High-quality chromosome-level genome assembly of female Artemia franciscana reveals sex chromosome and Hox gene organization | E Jo, et al. | Heliyon | 2024 | September | https://www.sciencedirect.com/science/article/pii/S2405844024147184 | Crustacean | Genome Assembly | Evolution | Hi-C | |
| A genome assembly for the Chryxus Arctic (Oeneis chryxus),the highest butterfly in North America ZG MacDonald, et al.Journal of Heredity, 2024, September | A genome assembly for the Chryxus Arctic (Oeneis chryxus),the highest butterfly in North America | ZG MacDonald, et al. | Journal of Heredity | 2024 | September | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esae051/7756931 | Insect | Genome Assembly | Evolution, Conservation | Omni-C | |
| Super-silencer perturbation by EZH2 and REST inhibition leads to large loss of chromatin interactions and reduction in cancer growth Y Zhang, et al.Nature Structural and Molecular Biology, 2024, September | Super-silencer perturbation by EZH2 and REST inhibition leads to large loss of chromatin interactions and reduction in cancer growth | Y Zhang, et al. | Nature Structural and Molecular Biology | 2024 | September | https://www.nature.com/articles/s41594-024-01391-7 | Mouse | Epigenetics | Cancer, 3D Chromatin Topology | HiChIP | |
| The European Reference Genome Atlas: piloting a decentralised approach to equitable biodiversity genomics AMM Cartney, et al.npj Biodiversity, 2024, September | The European Reference Genome Atlas: piloting a decentralised approach to equitable biodiversity genomics | AMM Cartney, et al. | npj Biodiversity | 2024 | September | https://www.nature.com/articles/s44185-024-00054-6 | Multiple | Genome Assembly | Other | Omni-C | |
| The genome of Lupinus mutabilis: Evolution and genetics of an emerging bio-based crop F Pancaldi, et al.Plant Journal, 2024, September | The genome of Lupinus mutabilis: Evolution and genetics of an emerging bio-based crop | F Pancaldi, et al. | Plant Journal | 2024 | September | https://onlinelibrary.wiley.com/doi/10.1111/tpj.17021 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Chromosome-level genome assembly of the morabine grasshopper Vandiemenella viatica19 X Li, et al.Scientific Data, 2024, September | Chromosome-level genome assembly of the morabine grasshopper Vandiemenella viatica19 | X Li, et al. | Scientific Data | 2024 | September | https://www.nature.com/articles/s41597-024-03858-0 | Insect | Genome Assembly | Developmental Biology | Omni-C | |
| Multi-omic analysis of longitudinal acute myeloid leukemia patient samples reveals potential prognostic markers linked to disease progression N Ahmend, et al.Frontiers in Genetics, 2024, September | Multi-omic analysis of longitudinal acute myeloid leukemia patient samples reveals potential prognostic markers linked to disease progression | N Ahmend, et al. | Frontiers in Genetics | 2024 | September | https://www.frontiersin.org/journals/genetics/articles/10.3389/fgene.2024.1442539/full | Human | Epigenetics | Cancer | Omni-C | |
| Photosymbiosis Shaped Animal Genome Architecture and Gene Evolution as Revealed in Giant Clams R Li, et al.BioRxiv (Pre-print), 2024, September | Photosymbiosis Shaped Animal Genome Architecture and Gene Evolution as Revealed in Giant Clams | R Li, et al. | BioRxiv (Pre-print) | 2024 | September | https://www.biorxiv.org/content/10.1101/2024.09.27.615525v1.abstract | Mollusc | Genome Assembly | Evolution | Omni-C | |
| Chromosome-level genome assembly and annotation of the crested gecko, Correlophus ciliatus, a lizard incapable of tail regeneration MA Gumangan, et al.BioRxiv (Pre-print), 2024, September | Chromosome-level genome assembly and annotation of the crested gecko, Correlophus ciliatus, a lizard incapable of tail regeneration | MA Gumangan, et al. | BioRxiv (Pre-print) | 2024 | September | https://www.biorxiv.org/content/10.1101/2024.09.28.615630v1.abstract | Reptile | Genome Assembly | Evolution | Omni-C | |
| Developing a Microsatellite Polymerase Chain Reaction System for Small Yellow Croaker (Larimichthys polyactis) and Its Application in Parentage Assignment E Noh, et al.Biology, 2024, September | Developing a Microsatellite Polymerase Chain Reaction System for Small Yellow Croaker (Larimichthys polyactis) and Its Application in Parentage Assignment | E Noh, et al. | Biology | 2024 | September | https://www.mdpi.com/2079-7737/13/9/710 | FIsh | Genome Assembly | Agricultural Biology, Conservation | Omni-C | |
| Assembly, comparative analysis, and utilization of a single haplotype reference genome for soybean MJC Espina, et al.The Plant Journal, 2024, September | Assembly, comparative analysis, and utilization of a single haplotype reference genome for soybean | MJC Espina, et al. | The Plant Journal | 2024 | September | https://onlinelibrary.wiley.com/doi/full/10.1111/tpj.17026 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Clinging on the brink: Whole genomes reveal human-induced population declines and severe inbreeding in the Critically Endangered Emirati Leaf-toed Gecko (Asaccus caudivolvulus) B Burriel-Carranza, et al.Molecular Ecology, 2024, August | Clinging on the brink: Whole genomes reveal human-induced population declines and severe inbreeding in the Critically Endangered Emirati Leaf-toed Gecko (Asaccus caudivolvulus) | B Burriel-Carranza, et al. | Molecular Ecology | 2024 | August | https://onlinelibrary.wiley.com/doi/abs/10.1111/mec.17451 | Reptile | Genome Assembly | Conservation | Omni-C | |
| High-quality genome assemblies for nine non-model North American insect species representing six orders (Insecta: Coleoptera, Diptera, Hemiptera, Hymenoptera, Lepidoptera, Neuroptera) K Walden, et al.Molecular Ecology Resources, 2024, August | High-quality genome assemblies for nine non-model North American insect species representing six orders (Insecta: Coleoptera, Diptera, Hemiptera, Hymenoptera, Lepidoptera, Neuroptera) | K Walden, et al. | Molecular Ecology Resources | 2024 | August | https://onlinelibrary.wiley.com/doi/full/10.1111/1755-0998.14010 | Insect | Genome Assembly | Conservation | Omni-C | |
| Phylogenomic analyses of all species of swordtail fishes (genus Xiphophorus) show that hybridization preceded speciation K Du, et al.Nature Communications, 2024, August | Phylogenomic analyses of all species of swordtail fishes (genus Xiphophorus) show that hybridization preceded speciation | K Du, et al. | Nature Communications | 2024 | August | https://www.nature.com/articles/s41467-024-50852-6 | Fish | Genome Assembly | Evolution | Omni-C | |
| Super enhancer acquisition drives expression of oncogenic PPP1R15B that regulates protein homeostasis in multiple myeloma S Xiong, et al.Nature Communications, 2024, August | Super enhancer acquisition drives expression of oncogenic PPP1R15B that regulates protein homeostasis in multiple myeloma | S Xiong, et al. | Nature Communications | 2024 | August | https://www.nature.com/articles/s41467-024-50910-z | Human | Epigenetics | Cancer, Gene Expression | HiChIP | |
| Conservation of dichromatin organization along regional centromeres D Dubocanin, et al.BioRxiv (Pre-print), 2024, August | Conservation of dichromatin organization along regional centromeres | D Dubocanin, et al. | BioRxiv (Pre-print) | 2024 | August | https://www.biorxiv.org/content/10.1101/2023.04.20.537689v3 | Human | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Centromeric transposable elements and epigenetic status drive karyotypic variation in the eastern hoolock gibbon GA Hartley, et al.BioRxiv (Pre-print), 2024, August | Centromeric transposable elements and epigenetic status drive karyotypic variation in the eastern hoolock gibbon | GA Hartley, et al. | BioRxiv (Pre-print) | 2024 | August | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11384015/ | Mammal | Genome Assembly | 3D Chromatin Topology, Evolution | Omni-C | |
| Members of an array of zinc-finger proteins specify distinct Hox chromatin boundaries H Ortabozkoyun, et al.BioRxiv (Pre-print), 2024, August | Members of an array of zinc-finger proteins specify distinct Hox chromatin boundaries | H Ortabozkoyun, et al. | BioRxiv (Pre-print) | 2024 | August | https://www.biorxiv.org/content/10.1101/2023.04.25.538167v3 | Mouse | Epigenetics | Gene Expression, Developmental Biology | Micro-C | |
| Allopolyploidy expanded gene content but not pangenomic variation in the hexaploid oilseed Camelina sativa KA Bird, et al.BioRxiv (Pre-print), 2024, August | Allopolyploidy expanded gene content but not pangenomic variation in the hexaploid oilseed Camelina sativa | KA Bird, et al. | BioRxiv (Pre-print) | 2024 | August | https://www.biorxiv.org/content/10.1101/2024.08.13.607619v2 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Teosinte Pollen Drive guides maize diversification and domestication by RNAi B Berube, et al.Nature, 2024, August | Teosinte Pollen Drive guides maize diversification and domestication by RNAi | B Berube, et al. | Nature | 2024 | August | https://www.nature.com/articles/s41586-024-07788-0 | Plant | Genome Assembly | Agricultural Biology, Gene Expression | Omni-C | |
| Chromosome-scale pearl millet genomes reveal CLAMT1b as key determinant of strigolactone pattern and Striga susceptibility HNJ Kuijer, et al.Nature Communications, 2024, August | Chromosome-scale pearl millet genomes reveal CLAMT1b as key determinant of strigolactone pattern and Striga susceptibility | HNJ Kuijer, et al. | Nature Communications | 2024 | August | https://www.nature.com/articles/s41467-024-51189-w | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| De novo genome assembly of white clover (Trifolium repens L.) reveals the role of copy number variation in rapid environmental adaptation W Kuo, et al.BMC Biology, 2024, August | De novo genome assembly of white clover (Trifolium repens L.) reveals the role of copy number variation in rapid environmental adaptation | W Kuo, et al. | BMC Biology | 2024 | August | https://link.springer.com/article/10.1186/s12915-024-01962-6 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| EquCab_Finn: A new reference genome assembly for the domestic horse, Finnhorse K Pokharel, et al.Animal Genetics, 2024, July | EquCab_Finn: A new reference genome assembly for the domestic horse, Finnhorse | K Pokharel, et al. | Animal Genetics | 2024 | July | https://onlinelibrary.wiley.com/doi/full/10.1111/age.13463 | Mammal | Genome Assembly | Agricultural Biology, Conservation | Omni-C | |
| A genome assembly of the American black bear, Ursus americanus, from California MA Supple, et al.Jounral of Heredity, 2024, July | A genome assembly of the American black bear, Ursus americanus, from California | MA Supple, et al. | Jounral of Heredity | 2024 | July | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esae037/7713838 | Mammal | Genome Assembly | Conservation | Omni-C | |
| Extant and extinct bilby genomes combined with Indigenous knowledge improve conservation of a unique Australian marsupial CJ Hogg, et al.Nature Ecology & Evolution, 2024, July | Extant and extinct bilby genomes combined with Indigenous knowledge improve conservation of a unique Australian marsupial | CJ Hogg, et al. | Nature Ecology & Evolution | 2024 | July | https://www.nature.com/articles/s41559-024-02436-2 | Mammal | Genome Assembly | Conservation | Omni-C | |
| A high-quality genome assembly and annotation of Thielaviopsis punctulata DSM102798 GP Purayil, et al.Scientific Data, 2024, July | A high-quality genome assembly and annotation of Thielaviopsis punctulata DSM102798 | GP Purayil, et al. | Scientific Data | 2024 | July | https://www.nature.com/articles/s41597-024-03458-y | Fungi | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Transposable element accumulation drives genome size increase in Hylesia metabus (Lepidoptera: Saturniidae),an urticating moth species from South America C Perrier, et al.BioRxiv (Pre-print), 2024, July | Transposable element accumulation drives genome size increase in Hylesia metabus (Lepidoptera: Saturniidae),an urticating moth species from South America | C Perrier, et al. | BioRxiv (Pre-print) | 2024 | July | https://www.biorxiv.org/content/10.1101/2024.07.11.602864v1.abstract | Insect | Genome Assembly | Conservation | Omni-C | |
| Chromosome-level reference genome for the medically important Arabian horned viper (Cerastes gasperettii) G Mochales-Riano, et al.BioRxiv (Pre-print), 2024, July | Chromosome-level reference genome for the medically important Arabian horned viper (Cerastes gasperettii) | G Mochales-Riano, et al. | BioRxiv (Pre-print) | 2024 | July | https://www.biorxiv.org/content/10.1101/2024.07.29.605543v1.abstract | Reptile | Genome Assembly | Evolution | Omni-C | |
| A high-quality chromosome-level genome assembly of the endangered tree Kmeria septentrionalis CY Shi, et al.Scientific Data, 2024, July | A high-quality chromosome-level genome assembly of the endangered tree Kmeria septentrionalis | CY Shi, et al. | Scientific Data | 2024 | July | https://www.nature.com/articles/s41597-024-03617-1 | Plant | Genome Assembly | Conservation | Hi-C | |
| The heritability of fitness in a wild annual plant population with hierarchical size structure DJ Schoen, et al.Evolution, 2024, July | The heritability of fitness in a wild annual plant population with hierarchical size structure | DJ Schoen, et al. | Evolution | 2024 | July | https://academic.oup.com/evolut/advance-article-abstract/doi/10.1093/evolut/qpae112/7719260 | Plant | Genome Assembly | Conservation | ||
| A chromosome-level reference genome assembly and a full-length transcriptome assembly of the giant freshwater prawn (Macrobrachium rosenbergii) W Pootakham, et al.G3, 2024, July | A chromosome-level reference genome assembly and a full-length transcriptome assembly of the giant freshwater prawn (Macrobrachium rosenbergii) | W Pootakham, et al. | G3 | 2024 | July | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkae146/7709012 | Crustacean | Genome Assembly | Agricultural Biology | Hi-C | |
| Chromosome-Level Assembly and Annotation of the Genome of the Endangered Giant Patagonian Bumble Bee Bombus dahlbomii L Martinez, et al.Genome Biology and Evolution, 2024, July | Chromosome-Level Assembly and Annotation of the Genome of the Endangered Giant Patagonian Bumble Bee Bombus dahlbomii | L Martinez, et al. | Genome Biology and Evolution | 2024 | July | https://academic.oup.com/gbe/article/16/7/evae146/7708904 | Insect | Genome Assembly | Developmental Biology, Conservation | Omni-C | |
| Genomic evidence reveals three W-autosome fusions in Heliconius butterflies N Rueda-M, et al.PLOS Genetics, 2024, July | Genomic evidence reveals three W-autosome fusions in Heliconius butterflies | N Rueda-M, et al. | PLOS Genetics | 2024 | July | https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1011318 | Insect | Genome Assembly | Developmental Biology | Hi-C | |
| Senescent cells cluster CTCF on nuclear speckles to sustain their splicing program S Palikyras, et al.BioRxiv (Pre-print), 2024, July | Senescent cells cluster CTCF on nuclear speckles to sustain their splicing program | S Palikyras, et al. | BioRxiv (Pre-print) | 2024 | July | https://www.biorxiv.org/content/10.1101/2024.07.16.603680v1.abstract | Human | Epigenetics | 3D Chromatin Topology | Micro-C | |
| An atlas of transcribed enhancers across helper T cell diversity for decoding human diseases A Oguchi, et al.Science, 2024, July | An atlas of transcribed enhancers across helper T cell diversity for decoding human diseases | A Oguchi, et al. | Science | 2024 | July | https://www.science.org/doi/10.1126/science.add8394 | Human | Epigenetics | 3D Chromatin Topology | Micro-C | |
| ERGA-BGE genome of Valencia hispanica (Valenciennes, 1826): a critically endangered Iberian toothcarp M Ventura, et al.BioRviv (Preprint), 2024, July | ERGA-BGE genome of Valencia hispanica (Valenciennes, 1826): a critically endangered Iberian toothcarp | M Ventura, et al. | BioRviv (Preprint) | 2024 | July | https://www.biorxiv.org/content/10.1101/2024.07.31.604920v1.abstract | Fish | Genome Assembly | Conservation, Evolution | Omni-C | |
| Refinement of the Antarctic fur seal (Arctocephalus gazella) reference genome increases continuity and completeness K Hench, et al.G3, 2024, July | Refinement of the Antarctic fur seal (Arctocephalus gazella) reference genome increases continuity and completeness | K Hench, et al. | G3 | 2024 | July | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkae179/7724771 | Mammal | Genome Assembly | Evolution | Omni-C | |
| Evolutionary new centromeres in the snowy owl genome putatively seeded from a transposable element HT Baalsrud, et al.BioRxiv (Pre-print), 2024, July | Evolutionary new centromeres in the snowy owl genome putatively seeded from a transposable element | HT Baalsrud, et al. | BioRxiv (Pre-print) | 2024 | July | https://www.biorxiv.org/content/10.1101/2024.07.05.602039v1 | Bird | Genome Assembly | Evolution | Omni-C | |
| Chromosomal-level genome assembly and single-nucleotide polymorphism sites of black-faced spoonbill Platalea minor Hong Kong Biodiversity ConsortiumGigaByte, 2024, July | Chromosomal-level genome assembly and single-nucleotide polymorphism sites of black-faced spoonbill Platalea minor | Hong Kong Biodiversity Consortium | GigaByte | 2024 | July | https://pubmed.ncbi.nlm.nih.gov/39071178/ | Bird | Genome Assembly | Conservation | Omni-C | |
| The brittle star genome illuminates the genetic basis of animal appendage regeneration E Parey, et al.Nature Ecology & Evolution, 2024, July | The brittle star genome illuminates the genetic basis of animal appendage regeneration | E Parey, et al. | Nature Ecology & Evolution | 2024 | July | https://www.nature.com/articles/s41559-024-02456-y | Echinoderms | Genome Assembly | Evolution | Omni-C | |
| A haplotype-resolved chromosome-level assembly and annotation of European hazelnut (C. avellana cv. Jefferson) provides insight into mechanisms of eastern filbert blight resistance SC Talbot, et al.G3, 2024, June | A haplotype-resolved chromosome-level assembly and annotation of European hazelnut (C. avellana cv. Jefferson) provides insight into mechanisms of eastern filbert blight resistance | SC Talbot, et al. | G3 | 2024 | June | https://pubmed.ncbi.nlm.nih.gov/38325326/ | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A de novo genome assembly of Solanum bulbocastanum Dun., a Mexican diploid species reproductively isolated from the A-genome species, including cultivated potatoes AJ Hosaka, et al.G3, 2024, June | A de novo genome assembly of Solanum bulbocastanum Dun., a Mexican diploid species reproductively isolated from the A-genome species, including cultivated potatoes | AJ Hosaka, et al. | G3 | 2024 | June | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11152074/ | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Kcnh2 Expression Profile and Continuous EEG/ECG Monitoring in a Rabbit Model of Long QT Syndrome Type 2 L WilliamsState University of New York (Dissertation), 2024, June | Kcnh2 Expression Profile and Continuous EEG/ECG Monitoring in a Rabbit Model of Long QT Syndrome Type 2 | L Williams | State University of New York (Dissertation) | 2024 | June | https://soar.suny.edu/bitstream/handle/20.500.12648/14906/LauraWilliamsThesis2024.pdf?sequence=1&isAllowed=y | Mammal | Genome Assembly | Other Disease | Micro-C | |
| Multi-omics analysis of longitudinal patient samples reveals the molecular mechanism of AML progression N Ahmed, et al.BioRxiv (Pre-print), 2024, June | Multi-omics analysis of longitudinal patient samples reveals the molecular mechanism of AML progression | N Ahmed, et al. | BioRxiv (Pre-print) | 2024 | June | https://www.biorxiv.org/content/10.1101/2024.05.28.593678v1.full | Human | Epigenetics | Other Disease | Omni-C | |
| The reference genome of an endangered Asteraceae, Deinandra increscens subsp. villosa, endemic to the Central Coast of California SL McEvoy, et al.G3, 2024, June | The reference genome of an endangered Asteraceae, Deinandra increscens subsp. villosa, endemic to the Central Coast of California | SL McEvoy, et al. | G3 | 2024 | June | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkae117/7689275?login=false | Plant | Genome Assembly | Evolution, Conservation | Omni-C | |
| Chromosome-level genome assemblies of 2 hemichordates provide new insights into deuterostome origin and chromosome evolution CY Lin, et al.PLOS Biology, 2024, June | Chromosome-level genome assemblies of 2 hemichordates provide new insights into deuterostome origin and chromosome evolution | CY Lin, et al. | PLOS Biology | 2024 | June | https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.3002661 | Echinoderm | Genome Assembly | Evolution | Hi-C | |
| The DBD-_4 helix of EWS:: FLI is required for GGAA microsatellite binding that underlies genome regulation in Ewing sarcoma A Bayanjargal, et al.BioRxiv (Pre-print), 2024, June | The DBD-_4 helix of EWS:: FLI is required for GGAA microsatellite binding that underlies genome regulation in Ewing sarcoma | A Bayanjargal, et al. | BioRxiv (Pre-print) | 2024 | June | https://www.biorxiv.org/content/10.1101/2024.01.31.578127v2 | Human | Epigenetics | Cancer, Gene Expression | Micro-C | |
| De novo genome assembly and transcriptome sequencing in foot and mantle tissues of Megaustenia siamensis reveals components of adhesive substances W Chetruengchai, et al.Scientific Reports, 2024, June | De novo genome assembly and transcriptome sequencing in foot and mantle tissues of Megaustenia siamensis reveals components of adhesive substances | W Chetruengchai, et al. | Scientific Reports | 2024 | June | https://www.nature.com/articles/s41598-024-64425-6 | Mollusk | Genome Assembly | Developmental Biology | Omni-C | |
| The de novo, chromosome-level genome assembly of the sweet chestnut (Castanea sativa Mill.) Cv. Marrone Di Chiusa Pesio L Bianco, et al.BMC Genomic Data, 2024, June | The de novo, chromosome-level genome assembly of the sweet chestnut (Castanea sativa Mill.) Cv. Marrone Di Chiusa Pesio | L Bianco, et al. | BMC Genomic Data | 2024 | June | https://bmcgenomdata.biomedcentral.com/articles/10.1186/s12863-024-01245-7 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A chromosome-scale Mytilus edulis genome assembly for aquaculture, marine ecology, and evolution T Regan, et al.G3, 2024, June | A chromosome-scale Mytilus edulis genome assembly for aquaculture, marine ecology, and evolution | T Regan, et al. | G3 | 2024 | June | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkae138/7700256 | Mollusc | Genome Assembly | Agricultural Biology, Conservation | Omni-C | |
| Chromosome-scale genome assembly and gene annotation of the hydrothermal vent annelid Alvinella pompejana yield insight into animal evolution in extreme environments SE Hilali, et al.BioRxiv (Pre-print), 2024, June | Chromosome-scale genome assembly and gene annotation of the hydrothermal vent annelid Alvinella pompejana yield insight into animal evolution in extreme environments | SE Hilali, et al. | BioRxiv (Pre-print) | 2024 | June | https://www.biorxiv.org/content/10.1101/2024.06.25.600561v1.abstract | Worm | Genome Assembly | Evolution | Hi-C, Chicago | |
| The genomes of the aquarium sponges Tethya wilhelma and Tethya minuta (Porifera: Demospongiae) G Worheide, et al.F1000 Reearch, 2024, June | The genomes of the aquarium sponges Tethya wilhelma and Tethya minuta (Porifera: Demospongiae) | G Worheide, et al. | F1000 Reearch | 2024 | June | https://f1000research.com/articles/13-679?_ga=1819900011.1719964800 | Sponge | Genome Assembly | Evolution | Hi-C, Chicago | |
| Continent-wide genomic analysis of the African buffalo (Syncerus caffer) A Talenti, et al.Communications Biology, 2024, June | Continent-wide genomic analysis of the African buffalo (Syncerus caffer) | A Talenti, et al. | Communications Biology | 2024 | June | https://www.nature.com/articles/s42003-024-06481-2 | Mammal | Genome Assembly | Evolution, Conservation | Hi-C, HiRise | |
| A genome resource for the marine annelid Platynereis dumerilii KN Mutemi, et al.BioRxiv (Pre-print), 2024, June | A genome resource for the marine annelid Platynereis dumerilii | KN Mutemi, et al. | BioRxiv (Pre-print) | 2024 | June | https://www.biorxiv.org/content/10.1101/2024.06.21.600153v1.abstract | Worm | Genome Assembly | Conservation | Hi-C | |
| De novo whole-genome assembly and annotation of a high-quality coffee variety from the primary origin of coffee, Coffea arabica var. Geisha JF Medrano, et al.BioRxiv (Pre-print), 2024, June | De novo whole-genome assembly and annotation of a high-quality coffee variety from the primary origin of coffee, Coffea arabica var. Geisha | JF Medrano, et al. | BioRxiv (Pre-print) | 2024 | June | https://www.biorxiv.org/content/10.1101/2024.06.21.600137v1.abstract | Plant | Genome Assembly | Agricultural Biology | Hi-C, Chicago | |
| Mitochondrial genomes of three Melampus species (Ellobiidae; Gastropoda) and a proposed mitochondrial control region for Euthyneura T Inabnit, et al.BioRxiv (Pre-print), 2024, June | Mitochondrial genomes of three Melampus species (Ellobiidae; Gastropoda) and a proposed mitochondrial control region for Euthyneura | T Inabnit, et al. | BioRxiv (Pre-print) | 2024 | June | https://www.biorxiv.org/content/10.1101/2024.07.03.601860v1.abstract | Gastropod | Genome Assembly | Evolution | ||
| In a nutshell: pistachio genome and kernel development JA Adaskaveg, et al.BioRxiv (Pre-print), 2024, June | In a nutshell: pistachio genome and kernel development | JA Adaskaveg, et al. | BioRxiv (Pre-print) | 2024 | June | https://www.biorxiv.org/content/10.1101/2024.06.24.600444v1.abstract | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Chromosome-scale Elaeis guineensis and E. oleifera assemblies: Comparative genomics of oil palm and other Arecaceae EL Low, et al.G3, 2024, June | Chromosome-scale Elaeis guineensis and E. oleifera assemblies: Comparative genomics of oil palm and other Arecaceae | EL Low, et al. | G3 | 2024 | June | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkae135/7699123 | Plant | Genome Assembly | Evolution | Hi-C, Chicago | |
| THE GENETICS AND ECOLOGY OF ECOGEOGRAPHIC ISOLATION DESPITE INTROGRESSION JG HarencarUniversity of California Santa Cruz (Dissertation), 2024, June | THE GENETICS AND ECOLOGY OF ECOGEOGRAPHIC ISOLATION DESPITE INTROGRESSION | JG Harencar | University of California Santa Cruz (Dissertation) | 2024 | June | https://www.proquest.com/openview/6276856a982e31349cfcd5e0a4cda959/1?pq-origsite=gscholar&cbl=18750&diss=y | Plant | Genome Assembly | Agricultural Biology | HiRise | |
| Decoding the Centromeric Region with a Near Complete Genome Assembly of the Oshima Cherry Cerasus speciosa K Fujiwara, et al.BioRxiv (Pre-print), 2024, June | Decoding the Centromeric Region with a Near Complete Genome Assembly of the Oshima Cherry Cerasus speciosa | K Fujiwara, et al. | BioRxiv (Pre-print) | 2024 | June | https://www.biorxiv.org/content/10.1101/2024.06.17.599445v1 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Chromosome-level genome assembly and annotation of the black sea urchin Arbacia lixula (Linnaeus, 1758) C Galia-CampsDNA Research, 2024, June | Chromosome-level genome assembly and annotation of the black sea urchin Arbacia lixula (Linnaeus, 1758) | C Galia-Camps | DNA Research | 2024 | June | https://academic.oup.com/dnaresearch/article/31/4/dsae020/7697448 | Echinoderm | Genome Assembly | Conservation | Omni-C | |
| Genomes of multicellular algal sisters to land plants illuminate signaling network evolution X Feng, et alNature Genetics, 2024, May | Genomes of multicellular algal sisters to land plants illuminate signaling network evolution | X Feng, et al | Nature Genetics | 2024 | May | https://www.nature.com/articles/s41588-024-01737-3 | Algae | Genome Assembly | Evolution | Omni-C | |
| Acceleration of genome rearrangement in clitellate annelids DT Schultz, et al.BioRxiv (Pre-print), 2024, May | Acceleration of genome rearrangement in clitellate annelids | DT Schultz, et al. | BioRxiv (Pre-print) | 2024 | May | https://www.biorxiv.org/content/10.1101/2024.05.12.593736v1 | Worm | Epigenetics | Gene Expression | Hi-C, HiRise | |
| Patterns of presence-absence variation of NLRs across populations of Solanum chilense are clade-dependent and mainly shaped by past demographic history GA Silva-Arias, et al.BioRxiv (Pre-print), 2024, May | Patterns of presence-absence variation of NLRs across populations of Solanum chilense are clade-dependent and mainly shaped by past demographic history | GA Silva-Arias, et al. | BioRxiv (Pre-print) | 2024 | May | https://www.biorxiv.org/content/10.1101/2023.10.13.562278v2 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Evolution repeats itself in replicate long-term studies in the wild P Nosil, et al.Science Advances, 2024, May | Evolution repeats itself in replicate long-term studies in the wild | P Nosil, et al. | Science Advances | 2024 | May | https://www.science.org/doi/10.1126/sciadv.adl3149 | Insect | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| Expanding the Triangle of U: The genome assembly of Hirschfeldia incana provides insights into chromosomal evolution, phylogenomics and high photosynthesis-related traits NV Hoang, et al.BioRxiv (Pre-print), 2024, May | Expanding the Triangle of U: The genome assembly of Hirschfeldia incana provides insights into chromosomal evolution, phylogenomics and high photosynthesis-related traits | NV Hoang, et al. | BioRxiv (Pre-print) | 2024 | May | https://www.biorxiv.org/content/10.1101/2024.05.16.593662v1 | Plant | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| Genome assembly of the southern pine beetle (Dendroctonus frontalis Zimmerman) reveal the origins of gene content reduction in Dendroctonus M Copeland, et al.BioRxiv (Pre-print), 2024, May | Genome assembly of the southern pine beetle (Dendroctonus frontalis Zimmerman) reveal the origins of gene content reduction in Dendroctonus | M Copeland, et al. | BioRxiv (Pre-print) | 2024 | May | https://www.biorxiv.org/content/10.1101/2024.05.08.592785v1.full | Insect | Genome Assembly | Gene Expression | Omni-C | |
| How repeats rearrange chromosomes in deer mice L Gozashti, et al.BioRxiv (Pre-print), 2024, May | How repeats rearrange chromosomes in deer mice | L Gozashti, et al. | BioRxiv (Pre-print) | 2024 | May | https://www.biorxiv.org/content/10.1101/2024.05.29.596518v1.full.pdf | Mouse | Genome Assembly | Gene Expression | Omni-C | |
| PHF2 regulates genome topology and DNA replication in neural stem cells via cohesin J Feng, et al.Nucleic Acids Research, 2024, May | PHF2 regulates genome topology and DNA replication in neural stem cells via cohesin | J Feng, et al. | Nucleic Acids Research | 2024 | May | https://academic.oup.com/nar/advance-article/doi/10.1093/nar/gkae457/7684604?login=false | Human | Epigenetics | Gene Expression | TopoLink | |
| TWEAK/Fn14 signalling driven super-enhancer reprogramming promotes pro-metastatic metabolic rewiring in Triple-Negative Breast Cancer N Sim, et al.BioRxiv (Pre-print), 2024, May | TWEAK/Fn14 signalling driven super-enhancer reprogramming promotes pro-metastatic metabolic rewiring in Triple-Negative Breast Cancer | N Sim, et al. | BioRxiv (Pre-print) | 2024 | May | https://www.biorxiv.org/content/10.1101/2024.05.15.594291v1 | Human | Epigenetics | Cancer, Gene Expression | HiChIP | |
| The complete sequence and comparative analysis of ape sex chromosomes KD Makova, et al.Nature, 2024, May | The complete sequence and comparative analysis of ape sex chromosomes | KD Makova, et al. | Nature | 2024 | May | https://www.nature.com/articles/s41586-024-07473-2 | Mammal | Genome Assembly | Evolution, Conservation | Omni-C | |
| Genome of the endangered eastern quoll (Dasyurus viverrinus) reveals signatures of historical decline and pelage color evolution GA Hartley, et al.Communications Biology, 2024, May | Genome of the endangered eastern quoll (Dasyurus viverrinus) reveals signatures of historical decline and pelage color evolution | GA Hartley, et al. | Communications Biology | 2024 | May | https://www.nature.com/articles/s42003-024-06251-0 | Mammal | Genome Assembly | Evolution | Omni-C | |
| Whole-genome sequencing of Ganoderma boninense, the causal agent of basal stem rot disease in oil palm, via combined short- and long-read sequencing C Utomo, et al.Scientific Reports, 2024, May | Whole-genome sequencing of Ganoderma boninense, the causal agent of basal stem rot disease in oil palm, via combined short- and long-read sequencing | C Utomo, et al. | Scientific Reports | 2024 | May | https://www.nature.com/articles/s41598-024-60713-3 | Fungi | Genome Assembly | Agricultural Biology, Immunology | Chicago | |
| Advancing apple genetics research: Malus coronaria and Malus ioensis genomes and a gene family-based pangenome of native North America A Svara, et al.BioRxiv (Pre-print), 2024, May | Advancing apple genetics research: Malus coronaria and Malus ioensis genomes and a gene family-based pangenome of native North America | A Svara, et al. | BioRxiv (Pre-print) | 2024 | May | https://www.biorxiv.org/content/10.1101/2024.05.13.593769v1 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| De novo genome assembly for the coppery titi monkey (Plecturocebus cupreus) an emerging non-human primate model for behavioral research SP Pfeifer, et al.Genome Biology and Evolution, 2024, May | De novo genome assembly for the coppery titi monkey (Plecturocebus cupreus) an emerging non-human primate model for behavioral research | SP Pfeifer, et al. | Genome Biology and Evolution | 2024 | May | https://academic.oup.com/gbe/article/16/5/evae108/7675974?login=false | Mammal | Genome Assembly | Evolution | Omni-C | |
| THE DEVELOPMENT AND APPLICATION OF CHROMOSOME-SCALE GENOME ASSEMBLIES TO ELUCIDATE THE ROLE OF GENOME ARCHITECTURE AND CHROMOSOMAL REARRANGEMENTS IN SHAPING THE GENOMIC LANDSCAPE OF DIVERGENCE IN DAPHNIA ECOLOGICAL SPECIATION C JacksonIndiana University (Dissertation), 2024, May | THE DEVELOPMENT AND APPLICATION OF CHROMOSOME-SCALE GENOME ASSEMBLIES TO ELUCIDATE THE ROLE OF GENOME ARCHITECTURE AND CHROMOSOMAL REARRANGEMENTS IN SHAPING THE GENOMIC LANDSCAPE OF DIVERGENCE IN DAPHNIA ECOLOGICAL SPECIATION | C Jackson | Indiana University (Dissertation) | 2024 | May | https://www.proquest.com/openview/72866852d0d691f49837f77c7ad03024/1?pq-origsite=gscholar&cbl=18750&diss=y | Insect | Genome Assembly | Evolution | Hi-C, Chicago | |
| Physiological role and mechanisms of action for a long noncoding haplotype region H Xue, et al.BioRxiv (Pre-print), 2024, May | Physiological role and mechanisms of action for a long noncoding haplotype region | H Xue, et al. | BioRxiv (Pre-print) | 2024 | May | https://www.biorxiv.org/content/10.1101/2024.05.15.594413v1 | Mouse | Epigenetics | Gene Expression | Micro-C | |
| A fully phased, chromosome-scale genome of sugar beet line FC309 enables the discovery of Fusarium Yellows resistance QTL OE Todd, et al.BioRxiv (Pre-print), 2024, May | A fully phased, chromosome-scale genome of sugar beet line FC309 enables the discovery of Fusarium Yellows resistance QTL | OE Todd, et al. | BioRxiv (Pre-print) | 2024 | May | https://www.biorxiv.org/content/10.1101/2024.05.04.592522v1 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Domesticated cannabinoid synthases amid a wild mosaic cannabis pangenome RC Lynch, et al.BioRxiv (Pre-print), 2024, May | Domesticated cannabinoid synthases amid a wild mosaic cannabis pangenome | RC Lynch, et al. | BioRxiv (Pre-print) | 2024 | May | https://www.biorxiv.org/content/10.1101/2024.05.21.595196v1 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Integrating DNA Methylation and 3D-Genome Architecture to Identify Functional Regulatory Sequences in IDH-Mutant AML E WilsonWashington University (Dissertation), 2024, May | Integrating DNA Methylation and 3D-Genome Architecture to Identify Functional Regulatory Sequences in IDH-Mutant AML | E Wilson | Washington University (Dissertation) | 2024 | May | https://openscholarship.wustl.edu/cgi/viewcontent.cgi?article=4401&context=art_sci_etds | Human | Epigenetics | Cancer, Gene Expression | Micro-C | |
| Understanding Mechanisms of Local Adaptation in White Clover (Trifolium repens L.): Insights from a Phenotypic Cline and Population Genomics W KuoWashington University (Dissertation), 2024, May | Understanding Mechanisms of Local Adaptation in White Clover (Trifolium repens L.): Insights from a Phenotypic Cline and Population Genomics | W Kuo | Washington University (Dissertation) | 2024 | May | https://www.proquest.com/openview/3fa154e74b210c8fa4f0b6cde13765f0/1?pq-origsite=gscholar&cbl=18750&diss=y | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Harnessing clonal gametes in hybrid crops to engineer polyploid genomes Y Wang, et al.Nature Genetics, 2024, May | Harnessing clonal gametes in hybrid crops to engineer polyploid genomes | Y Wang, et al. | Nature Genetics | 2024 | May | https://www.nature.com/articles/s41588-024-01750-6 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Beyond NGS data sharing for plant ecological resilience and improvement of agronomic traits J Kwon, et al.Scientific Data, 2024, May | Beyond NGS data sharing for plant ecological resilience and improvement of agronomic traits | J Kwon, et al. | Scientific Data | 2024 | May | https://www.nature.com/articles/s41597-024-03305-0 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Elucidating the ecophysiology of soybean pod-sucking stinkbug Riptortus pedestris (Hemiptera: Alydidae) based on de novo genome assembly and transcriptome analysis C Li, et al.BMC Genomics, 2024, April | Elucidating the ecophysiology of soybean pod-sucking stinkbug Riptortus pedestris (Hemiptera: Alydidae) based on de novo genome assembly and transcriptome analysis | C Li, et al. | BMC Genomics | 2024 | April | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-024-10232-2 | Insect | Genome Assembly | Agricultural Biology | Omni-C | |
| A new high-quality genome assembly and annotation for the threatened Florida Scrub-Jay (Aphelocoma coerulescens) FG Romero, et al.BioRxiv (Pre-print), 2024, April | A new high-quality genome assembly and annotation for the threatened Florida Scrub-Jay (Aphelocoma coerulescens) | FG Romero, et al. | BioRxiv (Pre-print) | 2024 | April | https://www.biorxiv.org/content/10.1101/2024.04.05.588142v1 | Bird | Genome Assembly | Evolution, Conservation | Omni-C | |
| Adaptive introgression reveals the genetic basis of a sexually selected syndrome in wall lizards N Feiner, et al.Science Advances, 2024, April | Adaptive introgression reveals the genetic basis of a sexually selected syndrome in wall lizards | N Feiner, et al. | Science Advances | 2024 | April | https://www.science.org/doi/10.1126/sciadv.adk9315?url_ver=Z39.88-2003&rfr_id=ori:rid:crossref.org&rfr_dat=cr_pub%20%200pubmed | Reptile | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| CAM evolution is associated with gene family expansion in an explosive bromeliad radiation CG Crego, et al.The Plant Cell, 2024, April | CAM evolution is associated with gene family expansion in an explosive bromeliad radiation | CG Crego, et al. | The Plant Cell | 2024 | April | https://academic.oup.com/plcell/advance-article/doi/10.1093/plcell/koae130/7658667 | Plant | Genome Assembly | Evolution, Gene Expression | Hi-C, Chicago | |
| Chromosome-level genome assembly of the loach goby, Rhyacichthys aspro, reveals mechanisms underlying Gobioidei diversification TY Wang, et al.BioRxiv (Pre-print), 2024, April | Chromosome-level genome assembly of the loach goby, Rhyacichthys aspro, reveals mechanisms underlying Gobioidei diversification | TY Wang, et al. | BioRxiv (Pre-print) | 2024 | April | https://www.biorxiv.org/content/10.1101/2024.04.02.587698v1 | Fish | Genome Assembly | Evolution | Hi-C, Chicago | |
| Chromosome-scale genome assembly the tropical abalone (Haliotis asinina) R Barkan, et al.BioRxiv (Pre-print), 2024, April | Chromosome-scale genome assembly the tropical abalone (Haliotis asinina) | R Barkan, et al. | BioRxiv (Pre-print) | 2024 | April | https://www.biorxiv.org/content/10.1101/2024.04.02.587722v1 | Gastropod | Genome Assembly | Evolution, Conservation | Omni-C | |
| Genome of tropical bed bug Cimex hemipterus (Cimicidae, Hemiptera) reveals tetraspanin expanded in bed bug ancestor STS Law, et al.BioRxiv (Pre-print), 2024, April | Genome of tropical bed bug Cimex hemipterus (Cimicidae, Hemiptera) reveals tetraspanin expanded in bed bug ancestor | STS Law, et al. | BioRxiv (Pre-print) | 2024 | April | https://www.biorxiv.org/content/10.1101/2024.04.25.591052v1 | Insect | Genome Assembly | Evolution | Omni-C | |
| Remarkably high repeat content in the genomes of sparrows: the importance of genome assembly completeness for transposable element discovery PM Benham, et al.Genome Biology and Evolution, 2024, April | Remarkably high repeat content in the genomes of sparrows: the importance of genome assembly completeness for transposable element discovery | PM Benham, et al. | Genome Biology and Evolution | 2024 | April | https://academic.oup.com/gbe/article/16/4/evae067/7639431?login=false | Bird | Genome Assembly | Evolution | Omni-C | |
| The Fat/Hippo pathway drives photoperiod-induced wing length polyphenism E Gudmunds, et al.BioRxiv (Pre-print), 2024, April | The Fat/Hippo pathway drives photoperiod-induced wing length polyphenism | E Gudmunds, et al. | BioRxiv (Pre-print) | 2024 | April | https://www.biorxiv.org/content/10.1101/2024.04.05.588279v1 | Insect | Genome Assembly | Evolution, Gene Expression | Hi-C, HiRise | |
| Chromosome-level genome assembly of the common chiton, Liolophura japonica (Lischke, 1873) Hong Kong Biodiversity Genomics ConsortiumGigaByte, 2024, April | Chromosome-level genome assembly of the common chiton, Liolophura japonica (Lischke, 1873) | Hong Kong Biodiversity Genomics Consortium | GigaByte | 2024 | April | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11068029/ | Mollusc | Genome Assembly | Evolution | Omni-C | |
| Identification of a viral gene essential for the genome replication of a domesticated endogenous virus in ichneumonid parasitoid wasps A Lorenzi, et al.PLOS Pathogens, 2024, April | Identification of a viral gene essential for the genome replication of a domesticated endogenous virus in ichneumonid parasitoid wasps | A Lorenzi, et al. | PLOS Pathogens | 2024 | April | https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1011980#:~:text=We%20conclude%20that%20U16%20is | essential%20for%20IV%20virion%20production. | Insect | Genome Assembly | Developmental Biology | Omni-C |
| Emx2 underlies the development and evolution of marsupial gliding membranes JA Moreno, et al.Nature, 2024, April | Emx2 underlies the development and evolution of marsupial gliding membranes | JA Moreno, et al. | Nature | 2024 | April | https://www.nature.com/articles/s41586-024-07305-3 | Mammal | Genome Assembly | Evolution, Developmental Biology | Omni-C | |
| Three de novo assembled wild cacao genomes from the Upper Amazon O Nousias, et al.Scientific Data, 2024, April | Three de novo assembled wild cacao genomes from the Upper Amazon | O Nousias, et al. | Scientific Data | 2024 | April | https://www.nature.com/articles/s41597-024-03215-1 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| A draft reference genome assembly of California Pipevine, Aristolochia californica Torr S Chaturvedi, et al.Journal of Heredity, 2024, April | A draft reference genome assembly of California Pipevine, Aristolochia californica Torr | S Chaturvedi, et al. | Journal of Heredity | 2024 | April | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esae023/7645642?login=false | Plant | Genome Assembly | Evolution, Conservation | Omni-C | |
| A Haplotype-resolved, Chromosome-scale Genome for Malus domestica Borkh. ‘WA 38’ H Zhang, et al.BioRxiv (Pre-print), 2024, April | A Haplotype-resolved, Chromosome-scale Genome for Malus domestica Borkh. ‘WA 38’ | H Zhang, et al. | BioRxiv (Pre-print) | 2024 | April | https://www.biorxiv.org/content/10.1101/2024.01.10.574953v2.full | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A high-quality genome of the convergent lady beetle, Hippodamia convergens G Ang, et al.G3, 2024, April | A high-quality genome of the convergent lady beetle, Hippodamia convergens | G Ang, et al. | G3 | 2024 | April | https://academic.oup.com/g3journal/article/14/6/jkae083/7645970 | Insect | Genome Assembly | Agricultural Biology | Chicago | |
| A reference quality genome assembly for the jewel scarab Chrysina gloriosa T Sylvester, et al.G3, 2024, April | A reference quality genome assembly for the jewel scarab Chrysina gloriosa | T Sylvester, et al. | G3 | 2024 | April | https://academic.oup.com/g3journal/article/14/6/jkae084/7648819 | Insect | Genome Assembly | Conservation | Omni-C | |
| Identification and characterization of innate immunity in Actinidia melanandra in response to Pseudomonas syringae pv. actinidiae LM Hemara, et al.BioRxiv (Pre-print), 2024, April | Identification and characterization of innate immunity in Actinidia melanandra in response to Pseudomonas syringae pv. actinidiae | LM Hemara, et al. | BioRxiv (Pre-print) | 2024 | April | https://www.biorxiv.org/content/10.1101/2024.04.16.589833v1 | Plant | Genome Assembly | Agricultural Biology, Immunology | Hi-C | |
| Phased Assembly of Neo-Sex Chromosomes Reveals Extensive Y Degeneration and Rapid Genome Evolution in Rumex hastatulus M Wilson, et al.Molecular Biology and Evolution, 2024, April | Phased Assembly of Neo-Sex Chromosomes Reveals Extensive Y Degeneration and Rapid Genome Evolution in Rumex hastatulus | M Wilson, et al. | Molecular Biology and Evolution | 2024 | April | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11057207/ | Plant | Genome Assembly | Evolution | Omni-C | |
| The transcription factor ZNF469 regulates collagen production in liver fibrosis S Steinhauser, et al.BioRxiv (Pre-print), 2024, April | The transcription factor ZNF469 regulates collagen production in liver fibrosis | S Steinhauser, et al. | BioRxiv (Pre-print) | 2024 | April | https://www.biorxiv.org/content/10.1101/2024.04.25.591188v1.full | Human | Epigenetics | Other Disease, Gene Expression | Micro-C, Promoter Capture | |
| Parameterizing Pantherinae: de novo mutation rate estimates from Panthera and Neofelis pedigrees EE Armstrong, et al.BioRxiv (Pre-print), 2024, April | Parameterizing Pantherinae: de novo mutation rate estimates from Panthera and Neofelis pedigrees | EE Armstrong, et al. | BioRxiv (Pre-print) | 2024 | April | https://www.biorxiv.org/content/10.1101/2024.04.06.587788v1 | Mammal | Genome Assembly | Evolution | Omni-C | |
| Chromosomal-level genome assembly of the long-spined sea urchin Diadema setosum (Leske, 1778) Hong Kong Biodiversity ConsortiumGigaByte, 2024, April | Chromosomal-level genome assembly of the long-spined sea urchin Diadema setosum (Leske, 1778) | Hong Kong Biodiversity Consortium | GigaByte | 2024 | April | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11066563/pdf/gigabyte-2024-121.pdf | Echinoderm | Genome Assembly | Evolution | Omni-C | |
| Chromosomal-level genome assembly of golden birdwing Troides aeacus (Felder & Felder, 1860) Hong Kong Biodiversity ConsortiumGigaByte, 2024, April | Chromosomal-level genome assembly of golden birdwing Troides aeacus (Felder & Felder, 1860) | Hong Kong Biodiversity Consortium | GigaByte | 2024 | April | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11068028/ | Insect | Genome Assembly | Developmental Biology, Conservation | Omni-C | |
| Genome assembly of the milky mangrove Excoecaria agallocha Hong Kong Biodiversity ConsortiumGigaByte, 2024, April | Genome assembly of the milky mangrove Excoecaria agallocha | Hong Kong Biodiversity Consortium | GigaByte | 2024 | April | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11066562/ | Plant | Genome Assembly | Developmental Biology | Omni-C | |
| Genome assembly of the edible jelly fungus Dacryopinax spathularia (Dacrymycetaceae) Hong Kong Biodiversity ConsortiumGigaByte, 2024, April | Genome assembly of the edible jelly fungus Dacryopinax spathularia (Dacrymycetaceae) | Hong Kong Biodiversity Consortium | GigaByte | 2024 | April | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC11066560/ | Fungi | Genome Assembly | Agricultural Biology | Omni-C | |
| Chromosomal-level genome of fish mint Houttuynia cordata Thunb. (Saururaceae) STS Law, et al.BioRxiv (Pre-print), 2024, April | Chromosomal-level genome of fish mint Houttuynia cordata Thunb. (Saururaceae) | STS Law, et al. | BioRxiv (Pre-print) | 2024 | April | https://www.biorxiv.org/content/10.1101/2024.04.25.590851v1.abstract | Plant | Genome Assembly | Evolution | Omni-C | |
| IDENTIFYING GENETIC AND EPIGENETIC CHANGES UNDERLYING ACUTE MYELOID LEUKEMIA PROGRESSION N AhmedHamad Bin Khalifa University (Dissertation), 2024, April | IDENTIFYING GENETIC AND EPIGENETIC CHANGES UNDERLYING ACUTE MYELOID LEUKEMIA PROGRESSION | N Ahmed | Hamad Bin Khalifa University (Dissertation) | 2024 | April | https://www.proquest.com/openview/3d8e9bc8923b2eb76a859300bce47808/1?pq-origsite=gscholar&cbl=2026366&diss=y | Human | Genome Assembly, Epigenetics | Cancer, Gene Expression | Omni-C | |
| De novo assembly and annotation of the Patagonian toothfish (Dissostichus eleginoides) genome D Ryder, et al.BMC Genomics, 2024, March | De novo assembly and annotation of the Patagonian toothfish (Dissostichus eleginoides) genome | D Ryder, et al. | BMC Genomics | 2024 | March | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-024-10141-4 | Fish | Genome Assembly | Evolution | Omni-C | |
| Genomic evidence reveals three sequential W-autosome fusions in Heliconius butterflies N Rueda-M, et al.BioRiv (pre-print), 2024, March | Genomic evidence reveals three sequential W-autosome fusions in Heliconius butterflies | N Rueda-M, et al. | BioRiv (pre-print) | 2024 | March | https://www.biorxiv.org/content/10.1101/2023.03.06.531374v4 | Insect | Genome Assembly | Evolution | Omni-C | |
| A view of the pan-genome of domesticated Cowpea (Vigna unguiculata [L.] Walp.) Q Liang, et al.Plant Genome, 2024, March | A view of the pan-genome of domesticated Cowpea (Vigna unguiculata [L.] Walp.) | Q Liang, et al. | Plant Genome | 2024 | March | https://acsess.onlinelibrary.wiley.com/doi/10.1002/tpg2.20319 | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| A first look at the genome structure of hexaploid'Black Mitcham'peppermint (Mentha piperita L.) S Talbot, et al.BioRxiv (Pre-print), 2024, March | A first look at the genome structure of hexaploid'Black Mitcham'peppermint (Mentha piperita L.) | S Talbot, et al. | BioRxiv (Pre-print) | 2024 | March | https://www.biorxiv.org/content/10.1101/2024.03.15.585188v1.full | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A genome sequence for the threatened whitebark pine DB Neale, et al.G3, 2024, March | A genome sequence for the threatened whitebark pine | DB Neale, et al. | G3 | 2024 | March | https://academic.oup.com/g3journal/article/14/5/jkae061/7634524 | Plant | Genome Assembly | Conservation | Omni-C, HiRise | |
| Deciphering omics atlases to aid stony corals in response to global change C He, et al.Research Square (Pre-print), 2024, March | Deciphering omics atlases to aid stony corals in response to global change | C He, et al. | Research Square (Pre-print) | 2024 | March | https://www.researchsquare.com/article/rs-4037544/v1 | Coral | Genome Assembly | Evolution, Conservation | Hi-C | |
| Integration of CTCF Loops, Methylome, and Transcriptome in Differentiating LUHMES as a Model for Imprinting Dynamics of the 15q11-q13 Locus in Human Neurons OJG Fugon, et al.BioRxiv (Pre-print), 2024, March | Integration of CTCF Loops, Methylome, and Transcriptome in Differentiating LUHMES as a Model for Imprinting Dynamics of the 15q11-q13 Locus in Human Neurons | OJG Fugon, et al. | BioRxiv (Pre-print) | 2024 | March | https://www.biorxiv.org/content/10.1101/2024.03.26.586689v1.full | Human | Epigenetics | Gene Expression, Other Disease | HiChIP | |
| The dynamic genomes of Hydra and the anciently active repeat complement of animal chromosomes K Kon-Nanjo, et al.BioRxiv (Pre-print), 2024, March | The dynamic genomes of Hydra and the anciently active repeat complement of animal chromosomes | K Kon-Nanjo, et al. | BioRxiv (Pre-print) | 2024 | March | https://www.biorxiv.org/content/10.1101/2024.03.13.584568v1 | Cnidaria | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| The genome of the colonial hydroid Hydractinia reveals that their stem cells use a toolkit of evolutionarily shared genes with all animals CE Schnitzler, et al.Genome Research, 2024, March | The genome of the colonial hydroid Hydractinia reveals that their stem cells use a toolkit of evolutionarily shared genes with all animals | CE Schnitzler, et al. | Genome Research | 2024 | March | https://genome.cshlp.org/content/34/3/498 | Cnidaria | Genome Assembly | Evolution, Stem Cell Research | Chicago, HiRise | |
| The hitchhiker's guide to sequencing data types and volumes for population-scale pangenome construction P Sarashetti, et al.BioRxiv (Pre-print), 2024, March | The hitchhiker's guide to sequencing data types and volumes for population-scale pangenome construction | P Sarashetti, et al. | BioRxiv (Pre-print) | 2024 | March | https://www.biorxiv.org/content/10.1101/2024.03.14.585029v1.full | Human | Genome Assembly | Genetic Analysis | Omni-C | |
| High genetic load without purging in caribou, a diverse species at risk RS Taylor, et al.Current Biology, 2024, March | High genetic load without purging in caribou, a diverse species at risk | RS Taylor, et al. | Current Biology | 2024 | March | https://www.sciencedirect.com/science/article/pii/S0960982224001441 | Mammal | Genome Assembly | Evolution | Omni-C | |
| Genome evolution and divergence in cis-regulatory architecture is associated with condition-responsive development in horned dung beetles PL Davidson, et al.PLOS Genetics, 2024, March | Genome evolution and divergence in cis-regulatory architecture is associated with condition-responsive development in horned dung beetles | PL Davidson, et al. | PLOS Genetics | 2024 | March | https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1011165 | Insect | Epigenetics | Evolution, Gene Expression | Omni-C | |
| Selection of Catechin Biosynthesis-Related Genes and Functional Analysis from Chromosome-Level Genome Assembly in C. sinensis L. Variety 'Sangmok' DJ Lee, et al.International Journal of Molecular Sciences, 2024, March | Selection of Catechin Biosynthesis-Related Genes and Functional Analysis from Chromosome-Level Genome Assembly in C. sinensis L. Variety 'Sangmok' | DJ Lee, et al. | International Journal of Molecular Sciences | 2024 | March | https://www.mdpi.com/1422-0067/25/7/3634 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C, HiRise | |
| The genome of Haberlea rhodopensis provides insights into the mechanisms for tolerance to multiple extreme environments S Gupta, et al.Cell and Molecular Life Sciences, 2024, March | The genome of Haberlea rhodopensis provides insights into the mechanisms for tolerance to multiple extreme environments | S Gupta, et al. | Cell and Molecular Life Sciences | 2024 | March | https://link.springer.com/article/10.1007/s00018-024-05140-3 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Genome sequences of four Ixodes species expands understanding of tick evolution AC de Araujo, et al.BioRxiv (Pre-print), 2024, March | Genome sequences of four Ixodes species expands understanding of tick evolution | AC de Araujo, et al. | BioRxiv (Pre-print) | 2024 | March | https://www.biorxiv.org/content/10.1101/2024.02.29.581698v2 | Insect | Genome Assembly | Evolution | Hi-C, Chicago | |
| Reference genome of Townsend’s big-eared bat, Corynorhinus townsendii SLR Capel, et al.Journal of Heredity, 2024, March | Reference genome of Townsend’s big-eared bat, Corynorhinus townsendii | SLR Capel, et al. | Journal of Heredity | 2024 | March | https://academic.oup.com/jhered/article/115/2/203/7471953 | Mammal | Genome Assembly | Conservation | Omni-C | |
| Uncovering genetic changes underlying adaptation in southern African dwarf chameleons (Bradypodion) JM TaftWits University (Dissertation), 2024, March | Uncovering genetic changes underlying adaptation in southern African dwarf chameleons (Bradypodion) | JM Taft | Wits University (Dissertation) | 2024 | March | https://wiredspace.wits.ac.za/server/api/core/bitstreams/0a08ef37-705f-42f4-ac85-a158dcc3d9e4/content | Genome Assembly | Evolution | Omni-C | ||
| Chromosome-Level Assembly and Annotation of the Pearly Heath Coenonympha arcania Butterfly Genome F Legeai, et al.Genome Biology and Evolution, 2024, March | Chromosome-Level Assembly and Annotation of the Pearly Heath Coenonympha arcania Butterfly Genome | F Legeai, et al. | Genome Biology and Evolution | 2024 | March | https://academic.oup.com/gbe/article/16/3/evae055/7630412 | Insect | Genome Assembly | Conservation | Omni-C | |
| KDM3B inhibitors disrupt PAX3-FOXO1 oncogenic activity in fusion positive rhabdomyosarcoma. YY Kim, et al.Nature Communications, 2024, February | KDM3B inhibitors disrupt PAX3-FOXO1 oncogenic activity in fusion positive rhabdomyosarcoma. | YY Kim, et al. | Nature Communications | 2024 | February | https://www.nature.com/articles/s41467-024-45902-y | Human | Epigenetics | Cancer | Micro-C | |
| A high-quality blue whale genome, segmental duplications, and historical demography YV Bukhman, et al.Molecular Biology and Evolution, 2024, February | A high-quality blue whale genome, segmental duplications, and historical demography | YV Bukhman, et al. | Molecular Biology and Evolution | 2024 | February | https://academic.oup.com/mbe/article/41/3/msae036/7611405 | Mammal | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Genome Report: A blue mussel chromosome-scale genome assembly for aquaculture, marine ecology and evolution T Regan, et al.BioRiv (pre-print), 2024, February | Genome Report: A blue mussel chromosome-scale genome assembly for aquaculture, marine ecology and evolution | T Regan, et al. | BioRiv (pre-print) | 2024 | February | https://www.biorxiv.org/content/10.1101/2022.11.17.516937.abstract | Mollusc | Genome Assembly | Evolution | Omni-C | |
| A haplotype-like, chromosome-level assembled and annotated genome of Biomphalaria glabrata, an important intermediate host of schistosomiasis and the best studied model of schistosomiasis vector snails D Zhong, et al.PLOS Neglected Tropical Diseases, 2024, February | A haplotype-like, chromosome-level assembled and annotated genome of Biomphalaria glabrata, an important intermediate host of schistosomiasis and the best studied model of schistosomiasis vector snails | D Zhong, et al. | PLOS Neglected Tropical Diseases | 2024 | February | https://journals.plos.org/plosntds/article?id=10.1371/journal.pntd.0011983 | Mollusc | Genome Assembly | Immunology | Omni-C | |
| The American Cherimoya Genome Reveals Insights into the Intra-Specific Divergence, the Evolution of Magnoliales, and a Putative Gene Cluster for Acetogenin Biosynthesis T Li, et al.Plants, 2024, February | The American Cherimoya Genome Reveals Insights into the Intra-Specific Divergence, the Evolution of Magnoliales, and a Putative Gene Cluster for Acetogenin Biosynthesis | T Li, et al. | Plants | 2024 | February | https://www.mdpi.com/2223-7747/13/5/636 | Plant | Genome Assembly | Agricultural Biology | Omni-C, HiRise | |
| A highly contiguous genome assembly for the Yellow Warbler (Setophaga petechia) WLE Tsai, et al.Journal of Heredity, 2024, February | A highly contiguous genome assembly for the Yellow Warbler (Setophaga petechia) | WLE Tsai, et al. | Journal of Heredity | 2024 | February | https://academic.oup.com/jhered/article/115/3/317/7613800 | Bird | Genome Assembly | Evolution, Conservation | Omni-C | |
| A single giant cell at the origin of an evolutionary innovation A Badiane, et al.BioRxiv (Pre-print), 2024, February | A single giant cell at the origin of an evolutionary innovation | A Badiane, et al. | BioRxiv (Pre-print) | 2024 | February | https://www.biorxiv.org/content/10.1101/2024.02.08.579433v1 | Insect | Genome Assembly | Gene Expression, Developmental Biology | Omni-C | |
| Syntrichia ruralis: emerging model moss genome reveals a conserved and previously unknown regulator of desiccation in flowering plants X Zhang, et al.New Phytologist, 2024, February | Syntrichia ruralis: emerging model moss genome reveals a conserved and previously unknown regulator of desiccation in flowering plants | X Zhang, et al. | New Phytologist | 2024 | February | https://nph.onlinelibrary.wiley.com/doi/10.1111/nph.19620 | Moss | Genome Assembly | Evolution | Chicago, Hi-C | |
| The genome assembly of Island Oak (Quercus tomentella),a relictual island tree species A Mead, et al.Journal of Heredity, 2024, February | The genome assembly of Island Oak (Quercus tomentella),a relictual island tree species | A Mead, et al. | Journal of Heredity | 2024 | February | https://academic.oup.com/jhered/article/115/2/221/7596578?login=false | Plant | Genome Assembly | Conservation | Omni-C | |
| Haplotype-specific assembly of shattered chromosomes in esophageal adenocarcinomas J Ijaz, et al.Cell Genomics, 2024, February | Haplotype-specific assembly of shattered chromosomes in esophageal adenocarcinomas | J Ijaz, et al. | Cell Genomics | 2024 | February | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10879010/ | Human | Epigenetics | Cancer, Gene Expression | Hi-C | |
| De Novo Genome Assembly at Chromosome-Scale of Hermetia illucens (Diptera Stratiomyidae) via PacBio and Omni-C Proximity Ligation Technology S Costagli, et al.Insects, 2024, February | De Novo Genome Assembly at Chromosome-Scale of Hermetia illucens (Diptera Stratiomyidae) via PacBio and Omni-C Proximity Ligation Technology | S Costagli, et al. | Insects | 2024 | February | https://www.mdpi.com/2075-4450/15/2/133 | Insect | Genome Assembly | Evolution | Omni-C | |
| Chromosome-level assembly of the gray fox (Urocyon cinereoargenteus) confirms the basal loss of PRDM9 in Canidae EE Armstrong, et al.G3, 2024, February | Chromosome-level assembly of the gray fox (Urocyon cinereoargenteus) confirms the basal loss of PRDM9 in Canidae | EE Armstrong, et al. | G3 | 2024 | February | https://academic.oup.com/g3journal/article/14/4/jkae034/7608880 | Mammal | Genome Assembly | Evolution | Omni-C | |
| A chromosome-level genome assembly of a model conifer plant, the Japanese cedar, Cryptomeria japonica D. Don T Fujino, et al.BioRxiv (Pre-print), 2024, February | A chromosome-level genome assembly of a model conifer plant, the Japanese cedar, Cryptomeria japonica D. Don | T Fujino, et al. | BioRxiv (Pre-print) | 2024 | February | https://www.biorxiv.org/content/10.1101/2023.02.24.529822v1 | Plant | Genome Assembly | Conservation | Omni-C | |
| Meiotic recombination dynamics in plants with repeat-based holocentromeres shed light on the primary drivers of crossover patterning M Castellani, et al.Nature Plants, 2024, February | Meiotic recombination dynamics in plants with repeat-based holocentromeres shed light on the primary drivers of crossover patterning | M Castellani, et al. | Nature Plants | 2024 | February | https://www.nature.com/articles/s41477-024-01625-y | Plant | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Adaptive diversification through structural variation in barley M Jayakodi, et al.BioRxiv (Pre-print), 2024, February | Adaptive diversification through structural variation in barley | M Jayakodi, et al. | BioRxiv (Pre-print) | 2024 | February | https://www.biorxiv.org/content/10.1101/2024.02.14.580266v1.abstract | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Allodiploid hybridization, loss-of-heterozygosity and aneuploidy in the green alga Auxenochlorella, an emerging model for discovery research and bioengineering RJ Craig, et al.BioRxiv (Pre-print), 2024, February | Allodiploid hybridization, loss-of-heterozygosity and aneuploidy in the green alga Auxenochlorella, an emerging model for discovery research and bioengineering | RJ Craig, et al. | BioRxiv (Pre-print) | 2024 | February | https://www.biorxiv.org/content/10.1101/2025.02.07.637104v1.full | Algae | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| Phylogenetic relationships among wild and cultivated species of the genus Beta and genome wide association mapping of agronomically important traits A DhimanChristian-Albrechts-University of Kiel (Dissertation), 2024, February | Phylogenetic relationships among wild and cultivated species of the genus Beta and genome wide association mapping of agronomically important traits | A Dhiman | Christian-Albrechts-University of Kiel (Dissertation) | 2024 | February | https://macau.uni-kiel.de/receive/macau_mods_00005676 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Reference genome of the bicolored carpenter ant, Camponotus vicinus PS Ward, et al.Journal of Heredity, 2024, January | Reference genome of the bicolored carpenter ant, Camponotus vicinus | PS Ward, et al. | Journal of Heredity | 2024 | January | https://academic.oup.com/jhered/article/115/1/120/7282457 | Insect | Genome Assembly | Evolution | Omni-C | |
| Barley MLA3 recognizes the host-specificity effector Pwl2 from Magnaporthe oryzae HJ Brabham, et al.Plant Cell, 2024, January | Barley MLA3 recognizes the host-specificity effector Pwl2 from Magnaporthe oryzae | HJ Brabham, et al. | Plant Cell | 2024 | January | https://academic.oup.com/plcell/article-lookup/doi/10.1093/plcell/koad266 | Plant | Genetic Analysis, Genome Assembly | Agricultural Biology | Chicago, HiRise, Selva | |
| Hagfish genome elucidates vertebrate whole-genome duplication events and their evolutionary consequences D Yu, et al.Nature Ecology & Evolution, 2024, January | Hagfish genome elucidates vertebrate whole-genome duplication events and their evolutionary consequences | D Yu, et al. | Nature Ecology & Evolution | 2024 | January | https://www.nature.com/articles/s41559-023-02299-z | Fish | Genome Assembly | Evolution | Omni-C | |
| Conserved chromatin and repetitive patterns reveal slow genome evolution in frogs JV Bredeson, et al.Nature, 2024, January | Conserved chromatin and repetitive patterns reveal slow genome evolution in frogs | JV Bredeson, et al. | Nature | 2024 | January | https://www.nature.com/articles/s41467-023-43012-9 | Amphibian | Genome Assembly | 3D Chromatin Topology, Evolution | Omni-C | |
| A chromosome-level genome for the nudibranch gastropod Berghia stephanieae helps parse clade-specific gene expression in novel and conserved phenotypes JA Goodheart, et al.BMC Biology, 2024, January | A chromosome-level genome for the nudibranch gastropod Berghia stephanieae helps parse clade-specific gene expression in novel and conserved phenotypes | JA Goodheart, et al. | BMC Biology | 2024 | January | https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-024-01814-3 | Mollusc | Genome Assembly | Conservation, Evolution | Omni-C | |
| A chromosome-level genome assembly for the dugong (Dugong dugon) DN Baker, et al.Journal of Heredity, 2024, January | A chromosome-level genome assembly for the dugong (Dugong dugon) | DN Baker, et al. | Journal of Heredity | 2024 | January | https://academic.oup.com/jhered/article/115/2/212/7584762 | Mammal | Genome Assembly | Evolution, Conservation | Omni-C | |
| A chromosome-scale assembly for 'd'Anjou'pear A Yocca, et al.G3, 2024, January | A chromosome-scale assembly for 'd'Anjou'pear | A Yocca, et al. | G3 | 2024 | January | https://academic.oup.com/g3journal/article/14/3/jkae003/7513133 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Evolutionary insights into 3D genome organization and epigenetic landscape of Vigna mungo A Junaid, et al.Life Science Alliance, 2024, January | Evolutionary insights into 3D genome organization and epigenetic landscape of Vigna mungo | A Junaid, et al. | Life Science Alliance | 2024 | January | https://www.life-science-alliance.org/content/7/1/e202302074 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Highly Contiguous Genome Assembly of Drosophila prolongata-a Model for Evolution of Sexual Dimorphism and Male-specific Innovations D Luecke, et al.BioRxiv (Pre-print), 2024, January | Highly Contiguous Genome Assembly of Drosophila prolongata-a Model for Evolution of Sexual Dimorphism and Male-specific Innovations | D Luecke, et al. | BioRxiv (Pre-print) | 2024 | January | https://www.biorxiv.org/content/10.1101/2024.01.29.577853v1 | Insect, Plant | Genome Assembly | Evolution | Hi-C | |
| Rapid and synchronous chemical induction of replicative_like senescence via a small molecule inhibitor S Palikyras, et al.Aging Cell, 2024, January | Rapid and synchronous chemical induction of replicative_like senescence via a small molecule inhibitor | S Palikyras, et al. | Aging Cell | 2024 | January | https://onlinelibrary.wiley.com/doi/10.1111/acel.14083 | Human | Epigenetics | Gene Expression, Developmental Biology | Micro-C | |
| Reference genome for the Northern bat (Eptesicus nilssonii),a most northern bat species VN Laine, et al.Journal of Heredity, 2024, January | Reference genome for the Northern bat (Eptesicus nilssonii),a most northern bat species | VN Laine, et al. | Journal of Heredity | 2024 | January | https://academic.oup.com/jhered/article/115/1/149/7288784?login=false | Mammal | Genome Assembly | Evolution, Conservation | Omni-C | |
| Supergene evolution via gain of auto-regulation NW VanKuren, et al.BioRxiv (Pre-print), 2024, January | Supergene evolution via gain of auto-regulation | NW VanKuren, et al. | BioRxiv (Pre-print) | 2024 | January | https://www.biorxiv.org/content/10.1101/2024.01.09.574839v1 | Insect | Genome Assembly | Evolution, Developmental Biology | Omni-C | |
| The chromosome-level genome of the ctenophore Mnemiopsis leidyi A. Agassiz, 1865 reveals a unique immune gene repertoire V Koutsouveli, et al.BioRxiv (Pre-print), 2024, January | The chromosome-level genome of the ctenophore Mnemiopsis leidyi A. Agassiz, 1865 reveals a unique immune gene repertoire | V Koutsouveli, et al. | BioRxiv (Pre-print) | 2024 | January | https://www.biorxiv.org/content/10.1101/2024.01.21.574862v1 | Marine Invertebrate | Genome Assembly | Evolution, Immunology | Omni-C | |
| A chromosome-level genome assembly of a free-living white-crowned sparrow (Zonotrichia leucophrys gambelii) Z Wu, et al.Scientific Data, 2024, January | A chromosome-level genome assembly of a free-living white-crowned sparrow (Zonotrichia leucophrys gambelii) | Z Wu, et al. | Scientific Data | 2024 | January | https://www.nature.com/articles/s41597-024-02929-6 | Bird | Genome Assembly | Conservation, Evolution | Omni-C | |
| Mapping nucleosome-resolution chromatin organization and enhancer-promoter loops in plants using Micro-C-XL L Sun, et al.Nature Communications, 2024, January | Mapping nucleosome-resolution chromatin organization and enhancer-promoter loops in plants using Micro-C-XL | L Sun, et al. | Nature Communications | 2024 | January | https://www.nature.com/articles/s41467-023-44347-z | Insect, Plant | Epigenetics | Gene Expression | Micro-C | |
| Highly resolved genome assembly and comparative transcriptome profiling reveal genes related to developmental stages of tapeworm Ligula intestinalis M Nazarizadeh, et al.Proceedings of the Royal Society B, 2024, January | Highly resolved genome assembly and comparative transcriptome profiling reveal genes related to developmental stages of tapeworm Ligula intestinalis | M Nazarizadeh, et al. | Proceedings of the Royal Society B | 2024 | January | https://royalsocietypublishing.org/doi/10.1098/rspb.2023.2563 | Worm | Genome Assembly | Gene Expression | Omni-C | |
| Phylogenomics analyses of all species of Swordtails (Genus Xiphophorus ) highlights hybridization precedes speciation K Du, et al.BioRxiv (Pre-print), 2024, January | Phylogenomics analyses of all species of Swordtails (Genus Xiphophorus ) highlights hybridization precedes speciation | K Du, et al. | BioRxiv (Pre-print) | 2024 | January | https://www.biorxiv.org/content/10.1101/2023.12.30.573732v1.full | Fish | Genome Assembly | Evolution | Omni-C | |
| Evolutionary and Developmental Mechanisms of Mammalian Skin Adaptations J A MorenoPrinceton University (Dissertation), 2024, January | Evolutionary and Developmental Mechanisms of Mammalian Skin Adaptations | J A Moreno | Princeton University (Dissertation) | 2024 | January | https://www.proquest.com/openview/2a10926527e439567adb6b9bd9486230/1?pq-origsite=gscholar&cbl=18750&diss=y | Mammals | Epigenetics | Gene Expression | Micro-C | |
| Genomic richness enables worldwide invasive success CG Camps, et al.ResearchGate (Pre-print), 2024, January | Genomic richness enables worldwide invasive success | CG Camps, et al. | ResearchGate (Pre-print) | 2024 | January | https://www.researchgate.net/publication/378582287_Genomic_richness_enables_worldwide_invasive_success | Other | Genome Assembly | Evolution | Omni-C | |
| Near-chromosomal-level genome of the red palm weevil (Rhynchophorus ferrugineus),a potential resource for genome-based pest control N Sudalaimuthuasari, et al.Scientific Data, 2024, January | Near-chromosomal-level genome of the red palm weevil (Rhynchophorus ferrugineus),a potential resource for genome-based pest control | N Sudalaimuthuasari, et al. | Scientific Data | 2024 | January | https://www.nature.com/articles/s41597-024-02910-3 | Insect | Genome Assembly | Agricultural Biology | Omni-C | |
| Loss-of-function mutations in ASIP and MC1R are associated with coat colour variation in marsupials R Sauermann, et al.BioRxiv (Pre-print), 2024, January | Loss-of-function mutations in ASIP and MC1R are associated with coat colour variation in marsupials | R Sauermann, et al. | BioRxiv (Pre-print) | 2024 | January | https://www.biorxiv.org/content/10.1101/2025.01.22.633987v2.abstract | Mammals | Genome Assembly | Gene Expression | Omni-C | |
| ERGA-BGE genome of Stigmatoteuthis arcturi Robson, 1948: the jewelled squid FA Fernandez-Alvarez, et al.BioRxiv (Pre-print), 2024, January | ERGA-BGE genome of Stigmatoteuthis arcturi Robson, 1948: the jewelled squid | FA Fernandez-Alvarez, et al. | BioRxiv (Pre-print) | 2024 | January | https://www.biorxiv.org/content/10.1101/2025.01.13.632676v1.abstract | Marine Invertebrate | Genome Assembly | Evolution | Omni-C | |
| Hookworms dynamically respond to loss of Type 2 immune pressure AA Ferguson, et al.PLOS Pathogens, 2023, December | Hookworms dynamically respond to loss of Type 2 immune pressure | AA Ferguson, et al. | PLOS Pathogens | 2023 | December | https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1011797 | Worm | Genome Assembly | Immunology, Evolution | Omni-C | |
| Margaritiferidae: from" pearls" to genomes AMG dos SantosUniversity of Porto (Dissertation), 2023, na | Margaritiferidae: from" pearls" to genomes | AMG dos Santos | University of Porto (Dissertation) | 2023 | na | https://repositorio-aberto.up.pt/bitstream/10216/149074/2/621107.pdf | Mollusc | Genome Assembly | Evolution | Chicago | |
| Chromosome-level genome of the transformable northern wattle, Acacia crassicarpa I Massaro, et al.G3, 2023, December | Chromosome-level genome of the transformable northern wattle, Acacia crassicarpa | I Massaro, et al. | G3 | 2023 | December | https://academic.oup.com/g3journal/article/14/3/jkad284/7473315?login=false | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Clapper rail demography and population genomics EC ElizondoUniversity of Delaware, 2023, na | Clapper rail demography and population genomics | EC Elizondo | University of Delaware | 2023 | na | https://search.proquest.com/openview/ad2a9d13c08db5142b063e34c00ed76f/1?pq-origsite=gscholar&cbl=18750&diss=y | Bird | Genome Assembly | Conservation | Chicago, HiRise | |
| Chromosome-level genome assembly of the aster leafhopper (Macrosteles quadrilineatus) reveals the role of environment and microbial symbiosis in shaping pest insect genome evolution YM Vasquez, et al.Molecular Ecology Resources, 2023, December | Chromosome-level genome assembly of the aster leafhopper (Macrosteles quadrilineatus) reveals the role of environment and microbial symbiosis in shaping pest insect genome evolution | YM Vasquez, et al. | Molecular Ecology Resources | 2023 | December | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13919 | Insect | Genome Assembly | Evolution | Omni-C, HiRise | |
| Genome assemblies and genetic maps highlight chromosome-scale macrosynteny in Atlantic acroporids NS Locatelli, et al.BioRxiv (Pre-print), 2023, December | Genome assemblies and genetic maps highlight chromosome-scale macrosynteny in Atlantic acroporids | NS Locatelli, et al. | BioRxiv (Pre-print) | 2023 | December | https://www.biorxiv.org/content/10.1101/2023.12.22.573044v1 | Coral | Genome Assembly | Evolution, Conservation | Chicago, HiRise | |
| Genomic divergence and introgression between cryptic species of a widespread North American songbird KK Askelson, et al.Molecular Ecology, 2023, December | Genomic divergence and introgression between cryptic species of a widespread North American songbird | KK Askelson, et al. | Molecular Ecology | 2023 | December | https://onlinelibrary.wiley.com/share/author/KGMCYEJFJKDCCQARDJJY?target=10.1111/mec.17169 | Bird | Genome Assembly | Evolution | Hi-C | |
| Introgression, recombination, and genomic differentiation in a cryptic species complex of North American passerines K Askelson, et al.University of British Columbia (Dissertation), 2023, December | Introgression, recombination, and genomic differentiation in a cryptic species complex of North American passerines | K Askelson, et al. | University of British Columbia (Dissertation) | 2023 | December | https://open.library.ubc.ca/soa/cIRcle/collections/ubctheses/24/items/1.0438308 | Bird | Genome Assembly | Evolution | Chicago, HiRise | |
| Investigating the impact of whole genome duplication on transposable element evolution in ray-finned fishes R Mallik, et al.BioRxiv (Pre-print), 2023, December | Investigating the impact of whole genome duplication on transposable element evolution in ray-finned fishes | R Mallik, et al. | BioRxiv (Pre-print) | 2023 | December | https://www.biorxiv.org/content/10.1101/2023.12.22.572151v1.full | FIsh | Genome Assembly | Evolution | Chicago, HiRise | |
| Phylogenomics resolves key relationships in Rumex and uncovers a dynamic history of independently evolving sex chromosomes MS Hibbins, et al.BioRxiv (Pre-print), 2023, December | Phylogenomics resolves key relationships in Rumex and uncovers a dynamic history of independently evolving sex chromosomes | MS Hibbins, et al. | BioRxiv (Pre-print) | 2023 | December | https://www.biorxiv.org/content/10.1101/2023.12.13.571571v1 | Plant | Genome Assembly | Evolution | Omni-C | |
| A Novel Approach to Epigenomic Profiling of Transposable Elements D TaylorQueen Mary University of London (Dissertation), 2023, na | A Novel Approach to Epigenomic Profiling of Transposable Elements | D Taylor | Queen Mary University of London (Dissertation) | 2023 | na | https://qmro.qmul.ac.uk/xmlui/handle/123456789/89518 | Mouse | Epigenetics | Gene Expression, Genetic Analysis | HiChIP, Micro-C | |
| Adaptation Signals Across the Genome of the Desert Horned Lizard, Phrynosoma Platyrhinos N GodfreyMiami University (Dissertation), 2023, na | Adaptation Signals Across the Genome of the Desert Horned Lizard, Phrynosoma Platyrhinos | N Godfrey | Miami University (Dissertation) | 2023 | na | https://etd.ohiolink.edu/acprod/odb_etd/ws/send_file/send?accession=miami1681342777986488&disposition=inline | Reptile | Genome Assembly | Evolution, Gene Expression | Hi-C, Chicago | |
| Comparative Genomics of Chemosensory Gene Families Among Members of the Heliothinae R GuoUniversity of Maryland (Dissertation), 2023, na | Comparative Genomics of Chemosensory Gene Families Among Members of the Heliothinae | R Guo | University of Maryland (Dissertation) | 2023 | na | https://www.proquest.com/openview/b52df94d468fe0ef10ead243d39d3f93/1?pq-origsite=gscholar&cbl=18750&diss=y | Plant | Genome Assembly | Evolution | Omni-C | |
| Investigating the regulation of early development of the amphipod crustacean Parhyale hawaiensis SE RawasUniversity of Oxford (Dissertation), 2023, na | Investigating the regulation of early development of the amphipod crustacean Parhyale hawaiensis | SE Rawas | University of Oxford (Dissertation) | 2023 | na | https://ora.ox.ac.uk/objects/uuid:0bdaf08b-1877-46ba-baeb-6931e02c072f/files/dfq977v499 | Crustacean | Genome Assembly | Developmental Biology | Chicago, Hi-C | |
| Reference genome and population genomics of Mytilus californianus LX PaggeotUniversity of California Merced (Dissertation), 2023, na | Reference genome and population genomics of Mytilus californianus | LX Paggeot | University of California Merced (Dissertation) | 2023 | na | https://escholarship.org/uc/item/1nw4z7bc | Mollusc | Genome Assembly | Conservation | Omni-C | |
| Applying Conservation Genomic Methods to Understand Spatial and Temporal Variation of Four Aquatic Mammals D N BakerUC Santa Cruz (Dissertation), 2023, December | Applying Conservation Genomic Methods to Understand Spatial and Temporal Variation of Four Aquatic Mammals | D N Baker | UC Santa Cruz (Dissertation) | 2023 | December | https://escholarship.org/uc/item/5dc1k61d | Mammal | Genome Assembly | Conservation, Evolution | Omni-C | |
| A chromosome-scale assembly of the quinoa genome provides insights into the structure and dynamics of its subgenomes E Ray, et al.Communications Biology, 2023, December | A chromosome-scale assembly of the quinoa genome provides insights into the structure and dynamics of its subgenomes | E Ray, et al. | Communications Biology | 2023 | December | https://www.nature.com/articles/s42003-023-05613-4 | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| Reference genome of the nutrition-rich orphan crop chia (Salvia hispanica) and its implications for future breeding P Gupta, et al.Frontiers in Plant Science, 2023, December | Reference genome of the nutrition-rich orphan crop chia (Salvia hispanica) and its implications for future breeding | P Gupta, et al. | Frontiers in Plant Science | 2023 | December | https://www.frontiersin.org/journals/plant-science/articles/10.3389/fpls.2023.1272966/full | Plant | Genome Assembly | Agricultural Biology | Omni-C, HiRise | |
| Topological structures and syntenic conservation in sea anemone genomes B Zimmermann, et al.Nature Communications, 2023, December | Topological structures and syntenic conservation in sea anemone genomes | B Zimmermann, et al. | Nature Communications | 2023 | December | https://www.nature.com/articles/s41467-023-44080-7 | Anemone | Genome Assembly | Evolution | Chicago | |
| Coevolution of leafhoppers and their microbial symbionts YM VasquezUC Merced (Dissertation), 2023, na | Coevolution of leafhoppers and their microbial symbionts | YM Vasquez | UC Merced (Dissertation) | 2023 | na | https://escholarship.org/uc/item/7j47d3t6 | Insect | Genome Assembly | Evolution | Omni-C | |
| Physiological and Molecular Processes Driving Fruit Quality during Tomato and Pistachio Fruit Ripening JA AdaskavegUC Davis (Dissertation), 2023, na | Physiological and Molecular Processes Driving Fruit Quality during Tomato and Pistachio Fruit Ripening | JA Adaskaveg | UC Davis (Dissertation) | 2023 | na | https://escholarship.org/content/qt7wm127v7/qt7wm127v7.pdf?t=s1absp&v=lg | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Chromosomal-level assembly of Tokudaia osimensis, Tokudaia tokunoshimensis, and Tokudaia muenninki genomes M Okuno, et al.Scientific Data, 2023, December | Chromosomal-level assembly of Tokudaia osimensis, Tokudaia tokunoshimensis, and Tokudaia muenninki genomes | M Okuno, et al. | Scientific Data | 2023 | December | https://www.nature.com/articles/s41597-023-02845-1 | Mouse | Genome Assembly | Evolution | Omni-C | |
| Chromosome-level genome assembly and annotation of the Antarctica whitefin plunderfish Pogonophryne albipinna E Jo, et al.Scientific Data, 2023, December | Chromosome-level genome assembly and annotation of the Antarctica whitefin plunderfish Pogonophryne albipinna | E Jo, et al. | Scientific Data | 2023 | December | https://www.nature.com/articles/s41597-023-02811-x | Fish | Genome Assembly | Evolution | Hi-C | |
| MYOD-SKP2 axis boosts tumorigenesis in fusion negative rhabdomyosarcoma by preventing differentiation through p57Kip2 targeting S Pomella, et al.Nature Communications, 2023, December | MYOD-SKP2 axis boosts tumorigenesis in fusion negative rhabdomyosarcoma by preventing differentiation through p57Kip2 targeting | S Pomella, et al. | Nature Communications | 2023 | December | https://www.nature.com/articles/s41467-023-44130-0 | Human | Epigenetics | Cancer, Gene Expression | HiChIP | |
| Chromosome-Level Genome Assembly of the Blacktail Brush Lizard, Urosaurus nigricaudus, Reveals Dosage Compensation in an Endemic Lizard E Davalos-Dehullu, et al.Genome Biology and Evolution, 2023, December | Chromosome-Level Genome Assembly of the Blacktail Brush Lizard, Urosaurus nigricaudus, Reveals Dosage Compensation in an Endemic Lizard | E Davalos-Dehullu, et al. | Genome Biology and Evolution | 2023 | December | https://academic.oup.com/gbe/article/15/12/evad210/7459609 | Reptile | Genome Assembly | Gene Expression | Omni-C, HiRise | |
| Promoter insertion leads to polyembryony in mango — a case of convergent evolution with citrus CB Yadav, et al.Horticulture Research, 2023, December | Promoter insertion leads to polyembryony in mango — a case of convergent evolution with citrus | CB Yadav, et al. | Horticulture Research | 2023 | December | https://academic.oup.com/hr/article/10/12/uhad227/7380785 | Plant | Genome Assembly | Evolution, Gene Expression | Chicago, HiRise | |
| The chromosome-scale genome and the genetic resistance machinery against insect herbivores of the Mexican toloache, Datura stramonium IM De-la-Cruz, et al.G3, 2023, December | The chromosome-scale genome and the genetic resistance machinery against insect herbivores of the Mexican toloache, Datura stramonium | IM De-la-Cruz, et al. | G3 | 2023 | December | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10849327/ | Plant | Genome Assembly | Evolution | Omni-C | |
| The first chromosome-level annotated reference genome for Chrosomus eos, the northern redbelly dace B Schultz, et al.BioRxiv (Pre-print), 2023, December | The first chromosome-level annotated reference genome for Chrosomus eos, the northern redbelly dace | B Schultz, et al. | BioRxiv (Pre-print) | 2023 | December | https://www.biorxiv.org/content/10.1101/2023.12.21.572839v1.full | Fish | Genome Assembly | Evolution | Omni-C | |
| Chromosome_level genome assembly of the aster leafhopper (Macrosteles quadrilineatus) reveals the role of environment and microbial symbiosis in shaping pest insect genome evolution YM Vasquez, et al.Molecular Ecology Resources, 2023, December | Chromosome_level genome assembly of the aster leafhopper (Macrosteles quadrilineatus) reveals the role of environment and microbial symbiosis in shaping pest insect genome evolution | YM Vasquez, et al. | Molecular Ecology Resources | 2023 | December | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13919 | Insect | Genome Assembly | Agricultural Biology, evolution | Omni-C | |
| Gillenia trifoliata: a tool to understand the genetic regulation of apple flesh development HS IrelandThe University of Auckland (Dissertation), 2023, na | Gillenia trifoliata: a tool to understand the genetic regulation of apple flesh development | HS Ireland | The University of Auckland (Dissertation) | 2023 | na | https://researchspace.auckland.ac.nz/handle/2292/65108 | Plant | Genome Assembly | Agricultural Biology, Developmental Biology | Hi-C | |
| BRD9 determines the cell fate of hematopoietic stem cells by regulating chromatin state M Xiao, et al.Nature Communications, 2023, December | BRD9 determines the cell fate of hematopoietic stem cells by regulating chromatin state | M Xiao, et al. | Nature Communications | 2023 | December | https://www.nature.com/articles/s41467-023-44081-6 | Human | Genome Assembly | 3D Chromatin Topology, Gene Expression, Stem Cell Research | Omni-C | |
| PAX3-FOXO1 uses its activation domain to recruit CBP/P300 and shape RNA Pol2 cluster distribution Y Asante, et al.Nature Communications, 2023, December | PAX3-FOXO1 uses its activation domain to recruit CBP/P300 and shape RNA Pol2 cluster distribution | Y Asante, et al. | Nature Communications | 2023 | December | https://www.nature.com/articles/s41467-023-43780-4 | Mouse | Epigenetics | Cancer, 3D Chromatin Topology | HiChIP | |
| Histone binding of ASF1 is required for fruiting body development but not for genome stability in the filamentous fungus Sordaria macrospora J Breuer, et al.Genetics and Molecular Biology, 2023, December | Histone binding of ASF1 is required for fruiting body development but not for genome stability in the filamentous fungus Sordaria macrospora | J Breuer, et al. | Genetics and Molecular Biology | 2023 | December | https://journals.asm.org/doi/full/10.1128/mbio.02896-23 | Fungi | Genome Assembly | Evolution | Omni-C | |
| Transposon wave remodelled the epigenomic landscape in the rapid evolution of a novel X chromosome dosage compensation mechanism DCH Metzger, et al.Genome Research, 2023, November | Transposon wave remodelled the epigenomic landscape in the rapid evolution of a novel X chromosome dosage compensation mechanism | DCH Metzger, et al. | Genome Research | 2023 | November | https://genome.cshlp.org/content/33/11/1917.long | Fish | Genome Assembly, Epigenetics | Gene Expression | Omni-C | |
| Tracing cancer evolution and heterogeneity using Hi-C DD Erdmann-Pham, et al.Nature, 2023, November | Tracing cancer evolution and heterogeneity using Hi-C | DD Erdmann-Pham, et al. | Nature | 2023 | November | https://www.nature.com/articles/s41467-023-42651-2 | Human | Genetic Analysis, Genome Assembly | Cancer | Fix-C | |
| Subgenome dominance shapes novel gene evolution in the decaploid pitcher plant Nepenthes gracilis F Saul, et al.Nature Plants, 2023, November | Subgenome dominance shapes novel gene evolution in the decaploid pitcher plant Nepenthes gracilis | F Saul, et al. | Nature Plants | 2023 | November | https://www.nature.com/articles/s41477-023-01562-2 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| A chromosome-level genome assembly for the smoky rubyspot damselfly (Hetaerina titia) CW Patterson, et al.Journal of Heredity, 2023, November | A chromosome-level genome assembly for the smoky rubyspot damselfly (Hetaerina titia) | CW Patterson, et al. | Journal of Heredity | 2023 | November | https://academic.oup.com/jhered/article/115/1/103/7439586 | Insect | Genome Assembly | Evolution | Omni-C | |
| Building a Portuguese Coalition for Biodiversity Genomics JP Marques, et al.EcoEvoRxiv (Pre-print), 2023, November | Building a Portuguese Coalition for Biodiversity Genomics | JP Marques, et al. | EcoEvoRxiv (Pre-print) | 2023 | November | https://ecoevorxiv.org/repository/view/5672/ | Multiple | Genome Assembly | Conservation | Omni-C | |
| Chromosome-level genome assemblies of two hemichordates provide new insights into deuterostome origin and chromosome evolution C Lin, et al.BioRxiv (Pre-print), 2023, November | Chromosome-level genome assemblies of two hemichordates provide new insights into deuterostome origin and chromosome evolution | C Lin, et al. | BioRxiv (Pre-print) | 2023 | November | https://www.biorxiv.org/content/10.1101/2023.11.01.564642v1 | Other | Genome Assembly | Evolution | Hi-C, HiRise | |
| Continent-wide genomic analysis of the African buffalo (Syncerus caffer). A Talenti, et al.BioRxiv (Pre-print), 2023, November | Continent-wide genomic analysis of the African buffalo (Syncerus caffer). | A Talenti, et al. | BioRxiv (Pre-print) | 2023 | November | https://www.biorxiv.org/content/10.1101/2023.11.12.566748v1 | Mammal | Genome Assembly | Evolution, Conservation | Hi-C, HiRise | |
| Convolutional Neural Network-Based Gene Prediction Using Buffalograss as a Model System M MorikoneUniversity of Nebraska (Dissertation), 2023, November | Convolutional Neural Network-Based Gene Prediction Using Buffalograss as a Model System | M Morikone | University of Nebraska (Dissertation) | 2023 | November | https://digitalcommons.unl.edu/complexbiosysdiss/1/ | Plant | Genome Assembly | Genetic Analysis | Omni-C | |
| Origin and evolution of the bread wheat D genome E Cavalet-Giorsa, et al.BioRxiv (Pre-print), 2023, November | Origin and evolution of the bread wheat D genome | E Cavalet-Giorsa, et al. | BioRxiv (Pre-print) | 2023 | November | https://www.biorxiv.org/content/10.1101/2023.11.29.568958v1 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| The genomes and epigenomes of aquatic plants (Lemnaceae) promote triploid hybridization and clonal reproduction E Ernst, et al.BioRxiv (Pre-print), 2023, November | The genomes and epigenomes of aquatic plants (Lemnaceae) promote triploid hybridization and clonal reproduction | E Ernst, et al. | BioRxiv (Pre-print) | 2023 | November | https://www.biorxiv.org/content/10.1101/2023.08.02.551673v2.full | Plant | Genome Assembly | Evolution, Gene Expression | Hi-C | |
| Unraveling Diverse Mechanisms of Complex Structural Variant Interactions through Multiomic Data in Multiple Myeloma E Liu, et al.Blood, 2023, November | Unraveling Diverse Mechanisms of Complex Structural Variant Interactions through Multiomic Data in Multiple Myeloma | E Liu, et al. | Blood | 2023 | November | https://www.sciencedirect.com/science/article/abs/pii/S000649712305245X | Human | Epigenetics | Cancer, Gene Expression | Micro-C | |
| Unravelling climate and high elevation adaptation in the American pika (Ochotona princeps) through a comparative genomics framework B SjodinUniversity of British Columbia (Dissertation), 2023, November | Unravelling climate and high elevation adaptation in the American pika (Ochotona princeps) through a comparative genomics framework | B Sjodin | University of British Columbia (Dissertation) | 2023 | November | https://open.library.ubc.ca/media/stream/pdf/24/1.0435902/4 | Mammal | Genome Assembly | Evolution, Conservation | Chicago, HiRise | |
| 3-D chromatin conformation, accessibility, and gene expression profiling of triple-negative breast cancer P Llinas-Arias, et al.BMC Genomic Data, 2023, November | 3-D chromatin conformation, accessibility, and gene expression profiling of triple-negative breast cancer | P Llinas-Arias, et al. | BMC Genomic Data | 2023 | November | https://pubmed.ncbi.nlm.nih.gov/37919672/ | Human | Epigenetics | Cancer | Omni-C | |
| The 3D Chromatin Landscape of B-Cell Precursor Childhood Acute Lymphoblastic Leukemia LH Moura-Castro, et al.Blood, 2023, November | The 3D Chromatin Landscape of B-Cell Precursor Childhood Acute Lymphoblastic Leukemia | LH Moura-Castro, et al. | Blood | 2023 | November | https://www.postersessiononline.eu/173580348_eu/congresos/ASH2023/aula/-MON_4151_ASH2023.pdf | Human | Epigenetics | Cancer, Gene Expression | Micro-C | |
| Wheat Chromosomal Resources and Their Role in Wheat Research H Simkova, et al.The Wheat Genome, 2023, November | Wheat Chromosomal Resources and Their Role in Wheat Research | H Simkova, et al. | The Wheat Genome | 2023 | November | https://link.springer.com/chapter/10.1007/978-3-031-38294-9_3 | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| Symmetric expression of ohnologs encoding conserved antiviral responses in tetraploid common carp suggest absence of subgenome dominance after whole genome duplication A Blasweiler, et al.Genomics, 2023, November | Symmetric expression of ohnologs encoding conserved antiviral responses in tetraploid common carp suggest absence of subgenome dominance after whole genome duplication | A Blasweiler, et al. | Genomics | 2023 | November | https://www.sciencedirect.com/science/article/pii/S0888754323001672 | Fish | Genome Assembly | Gene Expression | Omni-C | |
| Contrasting new and available reference genomes to highlight uncertainties in assemblies and areas for future improvement: an example with monodontid species TT Bringloe, et al.BMC Genomics, 2023, November | Contrasting new and available reference genomes to highlight uncertainties in assemblies and areas for future improvement: an example with monodontid species | TT Bringloe, et al. | BMC Genomics | 2023 | November | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-023-09779-3 | Mammal | Genome Assembly | Evolution | Omni-C | |
| Genomic insights into the mystery of mouse mummies on the summits of Atacama volcanoes JF Storz, et al.Current Biology, 2023, October | Genomic insights into the mystery of mouse mummies on the summits of Atacama volcanoes | JF Storz, et al. | Current Biology | 2023 | October | https://www.cell.com/current-biology/abstract/S0960-9822(23)01161-2?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0960982223011612%3Fshowall%3Dtrue | Mammal | Genome Assembly | Evolution | Omni-C | |
| A chromosome-level reference genome for the common octopus, Octopus vulgaris (Cuvier, 1797) D Destanovic, et al.G3, 2023, October | A chromosome-level reference genome for the common octopus, Octopus vulgaris (Cuvier, 1797) | D Destanovic, et al. | G3 | 2023 | October | https://www.biorxiv.org/content/10.1101/2023.05.16.540928.abstract | Mollusc | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Conservation genomics of an endangered montane amphibian reveals low population structure, low genomic diversity, and selection pressure from disease D Trumbo, et al.Molecular Ecology, 2023, October | Conservation genomics of an endangered montane amphibian reveals low population structure, low genomic diversity, and selection pressure from disease | D Trumbo, et al. | Molecular Ecology | 2023 | October | https://onlinelibrary.wiley.com/doi/10.1111/mec.17175 | Amphibian | Genome Assembly | Conservation, Evolution | Omni-C | |
| Prioritizing Endangered Species in Genome Sequencing: Conservation Genomics in Action with the First Platinum-Standard Reference-Quality Genome of the Critically Endangered European Mink Mustela lutreola L., 1761 J Skorupski, et al.International Journal of Molecular Sciences, 2023, October | Prioritizing Endangered Species in Genome Sequencing: Conservation Genomics in Action with the First Platinum-Standard Reference-Quality Genome of the Critically Endangered European Mink Mustela lutreola L., 1761 | J Skorupski, et al. | International Journal of Molecular Sciences | 2023 | October | https://www.mdpi.com/1422-0067/24/19/14816 | Mammal | Genome Assembly | Conservation | Omni-C | |
| A high-quality genome for the slender anole (Anolis apletophallus): an emerging model for field studies of tropical ecology and evolution RM Pirani, et al.G3, 2023, October | A high-quality genome for the slender anole (Anolis apletophallus): an emerging model for field studies of tropical ecology and evolution | RM Pirani, et al. | G3 | 2023 | October | https://academic.oup.com/g3journal/article/14/1/jkad248/7329278 | Reptile | Genome Assembly | Evolution | Omni-C | |
| Chromosome-scale Genome Assembly of Lewis Flax (Linum lewisii Pursh.) PA Innes, et al.BioRxiv (Pre-print), 2023, October | Chromosome-scale Genome Assembly of Lewis Flax (Linum lewisii Pursh.) | PA Innes, et al. | BioRxiv (Pre-print) | 2023 | October | https://www.biorxiv.org/content/10.1101/2023.10.10.561607v1.full | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Functional genomic diversity is correlated with neutral genomic diversity in populations of an endangered rattlesnake S Mathur, et al.Evolution, 2023, October | Functional genomic diversity is correlated with neutral genomic diversity in populations of an endangered rattlesnake | S Mathur, et al. | Evolution | 2023 | October | https://www.pnas.org/doi/full/10.1073/pnas.2303043120#:~:text=We%20used%20genomic%20data%20to | levels%20of%20neutral%20diversity%20versus | Reptile | Genome Assembly | Evolution, Conservation | Omni-C |
| Integrative metabolomics, genomics, and transcriptomics analysis unravels anti-cancer potential of secondary metabolites in Dillenia Suffruticosa N Ahmad, et al.Research Square (Pre-print), 2023, October | Integrative metabolomics, genomics, and transcriptomics analysis unravels anti-cancer potential of secondary metabolites in Dillenia Suffruticosa | N Ahmad, et al. | Research Square (Pre-print) | 2023 | October | https://www.researchgate.net/publication/374827397_Integrative_Metabolomics_Genomics_and_Transcriptomics_Analysis_Unravels_Anti-Cancer_Potential_of_Secondary_Metabolites_in_Dillenia_Suffruticosa | Plant | Genome Assembly | Cancer | Omni-C | |
| Low-cost camera-based estrous tracking enables transgenesis in Peromyscus leucopus, the primary reservoir for Lyme disease J Buchthal, et al.BioRxiv (Pre-print), 2023, October | Low-cost camera-based estrous tracking enables transgenesis in Peromyscus leucopus, the primary reservoir for Lyme disease | J Buchthal, et al. | BioRxiv (Pre-print) | 2023 | October | https://www.biorxiv.org/content/10.1101/2023.10.20.563285v1 | Mouse | Genome Assembly | Other Disease | Omni-C | |
| Non-coding variants impact cis-regulatory coordination in a cell type-specific manner O Pushkarev, et al.BioRxiv (Pre-print), 2023, October | Non-coding variants impact cis-regulatory coordination in a cell type-specific manner | O Pushkarev, et al. | BioRxiv (Pre-print) | 2023 | October | https://www.biorxiv.org/content/10.1101/2023.10.11.561870v1 | Human | Epigenetics | Genetic Analysis | Micro-C | |
| The CLAMP GA-binding transcription factor regulates heat stress-induced transcriptional repression by associating with 3D loop anchors. J Aguilera, et al.BioRxiv (Pre-print), 2023, October | The CLAMP GA-binding transcription factor regulates heat stress-induced transcriptional repression by associating with 3D loop anchors. | J Aguilera, et al. | BioRxiv (Pre-print) | 2023 | October | https://www.biorxiv.org/content/10.1101/2023.10.08.561401v1.full | Insect | Epigenetics | Gene Expression | HiChIP | |
| The highly improved genome of Ixodes scapularis with X and Y pseudochromosomes AB Nuss, et al.Life Science Alliance, 2023, October | The highly improved genome of Ixodes scapularis with X and Y pseudochromosomes | AB Nuss, et al. | Life Science Alliance | 2023 | October | https://www.life-science-alliance.org/content/6/12/e202302109 | Insect | Genome Assembly | Other Disease | Hi-C, Chicago | |
| De-novo whole genome assembly of the orange jewelweed, Impatiens capensis Meerb.(Balsaminaceae) using nanopore long-read sequencing SR Gadagkar, et al.Plant Biology, 2023, October | De-novo whole genome assembly of the orange jewelweed, Impatiens capensis Meerb.(Balsaminaceae) using nanopore long-read sequencing | SR Gadagkar, et al. | Plant Biology | 2023 | October | https://peerj.com/articles/16328/ | Plant | Genome Assembly | Evolution | Omni-C, HiRise | |
| High-resolution CTCF footprinting reveals impact of chromatin state on cohesin extrusion dynamics CE Sept, et al.BioRxiv (Pre-print), 2023, October | High-resolution CTCF footprinting reveals impact of chromatin state on cohesin extrusion dynamics | CE Sept, et al. | BioRxiv (Pre-print) | 2023 | October | https://pubmed.ncbi.nlm.nih.gov/37961446/ | Human | Epigenetics | Gene Expression | HiChIP | |
| Range-wide and temporal genomic analyses reveal the consequences of near-extinction in Swedish moose N Dussex, et al.Communications Biology, 2023, October | Range-wide and temporal genomic analyses reveal the consequences of near-extinction in Swedish moose | N Dussex, et al. | Communications Biology | 2023 | October | https://www.nature.com/articles/s42003-023-05385-x | Mammal | Genome Assembly | Evolution | Omni-C | |
| The genetic basis of novel trait gain in walking fish AL Herbert, et al.BioRxiv (Pre-print), 2023, October | The genetic basis of novel trait gain in walking fish | AL Herbert, et al. | BioRxiv (Pre-print) | 2023 | October | https://www.biorxiv.org/content/10.1101/2023.10.14.562356v1.full | Fish | Genome Assembly | Evolution | Omni-C | |
| Chromosome-scale assembly of the wild wheat relative Aegilops umbellulata M Abrouk, et al.Scientific Data, 2023, October | Chromosome-scale assembly of the wild wheat relative Aegilops umbellulata | M Abrouk, et al. | Scientific Data | 2023 | October | https://www.nature.com/articles/s41597-023-02658-2 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Fully resolved assembly of Fusarium proliferatum DSM106835 genome GP Purayil, et al.Scientific Data, 2023, October | Fully resolved assembly of Fusarium proliferatum DSM106835 genome | GP Purayil, et al. | Scientific Data | 2023 | October | https://www.nature.com/articles/s41597-023-02610-4 | Fungi | Genome Assembly | Agricultural Biology, Immunology | Omni-C | |
| Genome sequence of Hemileia vastatrix Berk. and Br. (Race I),the causal agent of coffee leaf rust, isolate from Risaralda, Colombia CA Angel, et al.Plant Microbiology, 2023, October | Genome sequence of Hemileia vastatrix Berk. and Br. (Race I),the causal agent of coffee leaf rust, isolate from Risaralda, Colombia | CA Angel, et al. | Plant Microbiology | 2023 | October | https://journals.asm.org/doi/10.1128/mra.00444-23 | Fungi | Genome Assembly | Agricultural Biology, Immunology | Omni-C | |
| The genome of the deep-sea anemone Actinernus sp. contains a mega-array of ANTP-class homeobox genes STS Law, et al.Proceedings of the Royal Society B, 2023, October | The genome of the deep-sea anemone Actinernus sp. contains a mega-array of ANTP-class homeobox genes | STS Law, et al. | Proceedings of the Royal Society B | 2023 | October | https://royalsocietypublishing.org/doi/10.1098/rspb.2023.1563 | Cnidaria | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| Conservation genomics of an endangered montane amphibian reveals low population structure, low genomic diversity and selection pressure from disease DR Trumbo, et al.Molecular Ecology, 2023, October | Conservation genomics of an endangered montane amphibian reveals low population structure, low genomic diversity and selection pressure from disease | DR Trumbo, et al. | Molecular Ecology | 2023 | October | https://onlinelibrary.wiley.com/doi/10.1111/mec.17175 | Amphibian | Genome Assembly | Conservation | Omni-C | |
| Lateral gene transfer generates accessory genes that accumulate at different rates within a grass lineage P Raimondeau, et al.New Phytologist, 2023, October | Lateral gene transfer generates accessory genes that accumulate at different rates within a grass lineage | P Raimondeau, et al. | New Phytologist | 2023 | October | https://nph.onlinelibrary.wiley.com/doi/10.1111/nph.19272 | Plant | Genome Assembly | Evolution | Chicago, Hi-C | |
| TET2 modulates spatial relocalization of heterochromatin in aged hematopoietic stem and progenitor cells T Hong, et al.Nature Aging, 2023, October | TET2 modulates spatial relocalization of heterochromatin in aged hematopoietic stem and progenitor cells | T Hong, et al. | Nature Aging | 2023 | October | https://www.nature.com/articles/s43587-023-00505-y | Mouse | Epigenetics | Stem Cell Research | Micro-C | |
| A highly contiguous genome assembly for the pocket mouse Perognathus longimembris longimembris KM Kozak, et al.Journal of Heredity, 2023, October | A highly contiguous genome assembly for the pocket mouse Perognathus longimembris longimembris | KM Kozak, et al. | Journal of Heredity | 2023 | October | https://academic.oup.com/jhered/article/115/1/130/7289088 | Mouse | Genome Assembly | Conservation | Omni-C | |
| Genome architecture of an exceptionally invasive copepod crossing salinity boundaries Z Du, et al.Research Square (Preprint), 2023, September | Genome architecture of an exceptionally invasive copepod crossing salinity boundaries | Z Du, et al. | Research Square (Preprint) | 2023 | September | https://www.researchsquare.com/article/rs-3002580/latest | Crustacean | Genome Assembly | Evolution | Omni-C | |
| Characteristics of the spiny dogfish (Squalus acanthias) nuclear genome CI Wagner, et al.G3, 2023, September | Characteristics of the spiny dogfish (Squalus acanthias) nuclear genome | CI Wagner, et al. | G3 | 2023 | September | https://academic.oup.com/g3journal/article/13/9/jkad146/7217137 | Fish | Genome Assembly | Gene Expression | Omni-C | |
| Genome assembly and analysis of Lactuca virosa: implications for lettuce breeding W Xiong, et al.G3, 2023, September | Genome assembly and analysis of Lactuca virosa: implications for lettuce breeding | W Xiong, et al. | G3 | 2023 | September | https://academic.oup.com/g3journal/article/13/11/jkad204/7281067 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A reference genome assembly for the continentally distributed ring-necked snake, Diadophis punctatus EP Westeen, et al.Journal of Heredity, 2023, September | A reference genome assembly for the continentally distributed ring-necked snake, Diadophis punctatus | EP Westeen, et al. | Journal of Heredity | 2023 | September | https://academic.oup.com/jhered/article/114/6/690/7265052 | Reptile | Genome Assembly | Evolution, Conservation | Omni-C | |
| Post-meiotic mechanism of facultative parthenogenesis in gonochoristic whiptail lizard species. DV Ho, et al.BioRxiv (Pre-print), 2023, September | Post-meiotic mechanism of facultative parthenogenesis in gonochoristic whiptail lizard species. | DV Ho, et al. | BioRxiv (Pre-print) | 2023 | September | https://www.biorxiv.org/content/10.1101/2023.09.21.558237v1 | Reptile | Genome Assembly | Developmental Biology | Chicago, HiRise | |
| Improved pearl millet genomes representing the global heterotic pool offer a framework for molecular breeding applications P Ramu, et al.Communications Biology, 2023, September | Improved pearl millet genomes representing the global heterotic pool offer a framework for molecular breeding applications | P Ramu, et al. | Communications Biology | 2023 | September | https://www.nature.com/articles/s42003-023-05258-3 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Neuronal DNA double-strand breaks lead to genome structural variations and 3D genome disruption in neurodegeneration V Dileep, et al.Cell, 2023, September | Neuronal DNA double-strand breaks lead to genome structural variations and 3D genome disruption in neurodegeneration | V Dileep, et al. | Cell | 2023 | September | https://www.cell.com/cell/fulltext/S0092-8674(23)00972-8?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS0092867423009728%3Fshowall%3Dtrue | Mouse | Epigenetics | Other Disease | Hi-C | |
| A chromosome-level reference genome of the Antarctic blackfin icefish Chaenocephalus aceratus SJ Lee, et al.Scientific Data, 2023, September | A chromosome-level reference genome of the Antarctic blackfin icefish Chaenocephalus aceratus | SJ Lee, et al. | Scientific Data | 2023 | September | https://www.nature.com/articles/s41597-023-02561-w | Fish | Genome Assembly | Conservation | Hi-C, HiRise | |
| Viral Prevalence and Genomic Xenology in the Coevolution of HzNV-2 (Nudiviridae) with Host Helicoverpa zea (Lepidoptera: Noctuidae) LR Tembrock, et al.Insects, 2023, September | Viral Prevalence and Genomic Xenology in the Coevolution of HzNV-2 (Nudiviridae) with Host Helicoverpa zea (Lepidoptera: Noctuidae) | LR Tembrock, et al. | Insects | 2023 | September | https://www.mdpi.com/2075-4450/14/10/797 | Insect | Genome Assembly | Agricultural Biology, Immunology | Chicago, HiRise | |
| A genome assembly of the Yuma myotis bat, Myotis yumanensi JN Curti, et al.Journal of Heredity, 2023, September | A genome assembly of the Yuma myotis bat, Myotis yumanensi | JN Curti, et al. | Journal of Heredity | 2023 | September | https://academic.oup.com/jhered/article/115/1/139/7274366 | Mammal | Genome Assembly | Evolution, Conservation | Omni-C | |
| Chromosome-level genome of the venomous snail Kalloconus canariensis: a valuable model for venomics and comparative genomics A Herraez-Perez, et al.GigaScience, 2023, September | Chromosome-level genome of the venomous snail Kalloconus canariensis: a valuable model for venomics and comparative genomics | A Herraez-Perez, et al. | GigaScience | 2023 | September | https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giad075/7287059 | Gastropod | Genome Assembly | Evolution | Omni-C | |
| Genomic comparison of the temperate coral Astrangia poculata with tropical corals yields insights into winter quiescence, innate immunity, and sexual reproduction KH Stankiewicz, et al.BioRxiv (Pre-print), 2023, September | Genomic comparison of the temperate coral Astrangia poculata with tropical corals yields insights into winter quiescence, innate immunity, and sexual reproduction | KH Stankiewicz, et al. | BioRxiv (Pre-print) | 2023 | September | https://www.biorxiv.org/content/10.1101/2023.09.22.558704v1 | Coral | Genome Assembly | Developmental Biology | Hi-C | |
| The reference genome assembly of the bright cobblestone lichen, Acarospora socialis JN Adams, et al.Journal of Heredity, 2023, September | The reference genome assembly of the bright cobblestone lichen, Acarospora socialis | JN Adams, et al. | Journal of Heredity | 2023 | September | https://academic.oup.com/jhered/article/114/6/707/7262908 | Lichen | Genome Assembly | Conservation | Omni-C | |
| Whole genome assessment of a declining game bird reveals cryptic genetic structure and insights for population management LW Luna, et al.Molecular Ecology, 2023, September | Whole genome assessment of a declining game bird reveals cryptic genetic structure and insights for population management | LW Luna, et al. | Molecular Ecology | 2023 | September | https://onlinelibrary.wiley.com/doi/10.1111/mec.17129 | Bird | Genome Assembly | Agricultural Biology | Omni-C | |
| NFIB facilitates replication licensing by acting as a genome organizer W Zhang, et al.Nature Communications, 2023, August | NFIB facilitates replication licensing by acting as a genome organizer | W Zhang, et al. | Nature Communications | 2023 | August | https://www.nature.com/articles/s41467-023-40846-1 | Human | Epigenetics | 3D Chromatin Topology, Cancer | Micro-C | |
| High-quality haploid genomes corroborate 29 chromosomes and highly conserved synteny of genes in Hyles hawkmoths (Lepidoptera: Sphingidae) AK Hundsdoerfer, et al.BMC Genomics, 2023, August | High-quality haploid genomes corroborate 29 chromosomes and highly conserved synteny of genes in Hyles hawkmoths (Lepidoptera: Sphingidae) | AK Hundsdoerfer, et al. | BMC Genomics | 2023 | August | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-023-09506-y | Insect | Genome Assembly | 3D Chromatin Topology, Evolution | Omni-C | |
| Identification of grapevine clones via high-throughput amplicon sequencing: a proof-of-concept study C Urra, et al.G3, 2023, August | Identification of grapevine clones via high-throughput amplicon sequencing: a proof-of-concept study | C Urra, et al. | G3 | 2023 | August | https://academic.oup.com/g3journal/advance-article-abstract/doi/10.1093/g3journal/jkad145/7217130 | Plant | Genome Assembly | Gene Expression | Omni-C | |
| Chromosome-level reference genome of stinkwort, Dittrichia graveolens (L.) Greuter: A resource for studies on invasion, range expansion, and evolutionary adaptation under global change S McEvoy, et al.Journal of Heredity, 2023, August | Chromosome-level reference genome of stinkwort, Dittrichia graveolens (L.) Greuter: A resource for studies on invasion, range expansion, and evolutionary adaptation under global change | S McEvoy, et al. | Journal of Heredity | 2023 | August | https://academic.oup.com/jhered/article/114/5/561/7188233?login=false | Plant | Genome Assembly | Evolution | Omni-C | |
| Haplotype-Resolved, Chromosome-Level Assembly of White Clover (Trifolium repens L., Fabaceae) JS Santangelo, et al.Genome Biology and Evolution, 2023, August | Haplotype-Resolved, Chromosome-Level Assembly of White Clover (Trifolium repens L., Fabaceae) | JS Santangelo, et al. | Genome Biology and Evolution | 2023 | August | https://academic.oup.com/gbe/article/15/8/evad146/7237765 | Plant | Genome Assembly | Evolution | Omni-C | |
| Assembly of the largest squamate reference genome to date: the western fence lizard, Sceloporus occidentalis AP Bishop, et al.Journal of Heredity, 2023, August | Assembly of the largest squamate reference genome to date: the western fence lizard, Sceloporus occidentalis | AP Bishop, et al. | Journal of Heredity | 2023 | August | https://academic.oup.com/jhered/advance-article-abstract/doi/10.1093/jhered/esad037/7202031 | Reptile | Genome Assembly | Evolution | Omni-C | |
| A high quality de novo genome assembly for clapper rail (Rallus crepitans) EC Elizondo, et al.G3, 2023, August | A high quality de novo genome assembly for clapper rail (Rallus crepitans) | EC Elizondo, et al. | G3 | 2023 | August | https://academic.oup.com/g3journal/advance-article-abstract/doi/10.1093/g3journal/jkad097/7148140 | Bird | Genome Assembly | Evolution | Chicago, HiRise | |
| Phylloxera and aphids show distinct features of genome evolution despite similar reproductive modes Z Li, et al.BioRxiv (Pre-print), 2023, August | Phylloxera and aphids show distinct features of genome evolution despite similar reproductive modes | Z Li, et al. | BioRxiv (Pre-print) | 2023 | August | https://www.biorxiv.org/content/10.1101/2023.08.28.555181v1 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| The genome of the colonial hydroid Hydractinia reveals their stem cells utilize a toolkit of evolutionarily shared genes with all animals CE Schnitzler, et al.BioRxiv (Pre-print), 2023, August | The genome of the colonial hydroid Hydractinia reveals their stem cells utilize a toolkit of evolutionarily shared genes with all animals | CE Schnitzler, et al. | BioRxiv (Pre-print) | 2023 | August | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10541594/#:~:text=These%20results%20indicate%20that%20Hydractinia's | cell%20biology%20and%20regenerative%20medicine. | Cnidaria | Genome Assembly | Stem Cell Research | Chicago, HiRise |
| Multiple genes in a single GWAS risk locus synergistically mediate aberrant synaptic development and function in human neurons S Zhang, et al.Cell Genomics, 2023, August | Multiple genes in a single GWAS risk locus synergistically mediate aberrant synaptic development and function in human neurons | S Zhang, et al. | Cell Genomics | 2023 | August | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10504676/ | Human | Epigenetics | Stem Cell Research, Gene Expression, Other Disease | Promoter Capture | |
| MacroH2A restricts inflammatory gene expression in melanoma cancer-associated fibroblasts by coordinating chromatin looping D Filipescu, et al.Nature Cell Biology, 2023, August | MacroH2A restricts inflammatory gene expression in melanoma cancer-associated fibroblasts by coordinating chromatin looping | D Filipescu, et al. | Nature Cell Biology | 2023 | August | https://www.nature.com/articles/s41556-023-01208-7 | Human | Epigenetics | Cancer, Gene Expression | Micro-C | |
| De novo assembly of a chromosome-level reference genome for the California Scrub-Jay DA DeRaad, et al.Journal of Heredity, 2023, August | De novo assembly of a chromosome-level reference genome for the California Scrub-Jay | DA DeRaad, et al. | Journal of Heredity | 2023 | August | https://academic.oup.com/jhered/article/114/6/669/7243675 | Bird | Genome Assembly | Evolution | Omni-C | |
| Einkorn genomics sheds light on history of the oldest domesticated wheat HI Ahmed, et al.Nature, 2023, August | Einkorn genomics sheds light on history of the oldest domesticated wheat | HI Ahmed, et al. | Nature | 2023 | August | https://www.nature.com/articles/s41586-023-06389-7 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Whole Genome Duplication and Gene Evolution in the Hyperdiverse Venomous Gastropods S Farhat, et al.Molecular Biology and Evolution, 2023, August | Whole Genome Duplication and Gene Evolution in the Hyperdiverse Venomous Gastropods | S Farhat, et al. | Molecular Biology and Evolution | 2023 | August | https://academic.oup.com/mbe/article/40/8/msad171/7231442 | Mollusc | Genome Assembly | Stem Cell Research | Omni-C | |
| A new haplotype-resolved turkey genome to enable turkey genetics and genomics research CP Barros, et al.GigaScience, 2023, July | A new haplotype-resolved turkey genome to enable turkey genetics and genomics research | CP Barros, et al. | GigaScience | 2023 | July | https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giad051/7227510 | Bird | Genome Assembly | Evolution | Omni-C | |
| A chromosome-level genome assembly of longnose gar, Lepisosteus osseus R Mallik, et al.G3, 2023, July | A chromosome-level genome assembly of longnose gar, Lepisosteus osseus | R Mallik, et al. | G3 | 2023 | July | https://academic.oup.com/g3journal/article-abstract/13/7/jkad095/7147212 | Fish | Genome Assembly | Evolution | Chicago | |
| Rapid evolution, rearrangements and whole mitogenome duplication in the Australian stingless bees Tetragonula (Hymenoptera: Apidae): A steppingstone towards understanding mitochondrial function and evolution E Francoso, et al.International Journal of Biological Macromolecules, 2023, July | Rapid evolution, rearrangements and whole mitogenome duplication in the Australian stingless bees Tetragonula (Hymenoptera: Apidae): A steppingstone towards understanding mitochondrial function and evolution | E Francoso, et al. | International Journal of Biological Macromolecules | 2023 | July | https://www.sciencedirect.com/science/article/pii/S0141813023014629?via%3Dihub | Insect | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| A draft reference genome assembly of the Pipevine Swallowtail butterfly, Battus philenor hirsuta S Chaturvedi, et al.Journal of Heredity, 2023, July | A draft reference genome assembly of the Pipevine Swallowtail butterfly, Battus philenor hirsuta | S Chaturvedi, et al. | Journal of Heredity | 2023 | July | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esad043/7222331 | Insect | Genome Assembly | Evolution | Omni-C | |
| Hybridisation has shaped a recent radiation of grass-feeding aphids TC Mathers, et al.BMC Biology, 2023, July | Hybridisation has shaped a recent radiation of grass-feeding aphids | TC Mathers, et al. | BMC Biology | 2023 | July | https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-023-01649-4 | Insect | Genome Assembly | Evolution | Omni-C | |
| A Citrullus genus super-pangenome reveals extensive variations in wild and cultivated watermelons and sheds light on watermelon evolution and domestication S Wu, et al.Plant Biotechnology Journal, 2023, July | A Citrullus genus super-pangenome reveals extensive variations in wild and cultivated watermelons and sheds light on watermelon evolution and domestication | S Wu, et al. | Plant Biotechnology Journal | 2023 | July | https://onlinelibrary.wiley.com/doi/10.1111/pbi.14120 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| The genome of Lactuca saligna, a wild relative of lettuce, provides insight into non-host resistance to the downy mildew Bremia lactucae W Xiong, et al.Plant Journal, 2023, July | The genome of Lactuca saligna, a wild relative of lettuce, provides insight into non-host resistance to the downy mildew Bremia lactucae | W Xiong, et al. | Plant Journal | 2023 | July | https://onlinelibrary.wiley.com/doi/10.1111/tpj.16212 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Pumping Iron: A Multi-omics Analysis of Two Extremophilic Algae Reveals Iron Economy Management L Davidi, et al.PNAS, 2023, July | Pumping Iron: A Multi-omics Analysis of Two Extremophilic Algae Reveals Iron Economy Management | L Davidi, et al. | PNAS | 2023 | July | https://www.pnas.org/doi/abs/10.1073/pnas.2305495120 | Algae | Genome Assembly | Gene Expression | Omni-C | |
| The Rhodoexplorer platform for red algal genomics and whole genome assemblies for several Gracilaria species AP Lipinska, et al.Genome Biology and Evolution, 2023, July | The Rhodoexplorer platform for red algal genomics and whole genome assemblies for several Gracilaria species | AP Lipinska, et al. | Genome Biology and Evolution | 2023 | July | https://academic.oup.com/gbe/article/15/7/evad124/7229277 | Algae | Genome Assembly | Gene Expression, Evolution | Omni-C | |
| Reference genome of the black rail, Laterallus jamaicensis LA Hall, et al.Journal of Heredity, 2023, July | Reference genome of the black rail, Laterallus jamaicensis | LA Hall, et al. | Journal of Heredity | 2023 | July | https://academic.oup.com/jhered/article-abstract/114/4/436/7146896 | Bird | Genome Assembly | Conservation | Omni-C | |
| Reference genome of the Virginia rail, Rallus limicola LA Hall, et al.Journal of Heredity, 2023, July | Reference genome of the Virginia rail, Rallus limicola | LA Hall, et al. | Journal of Heredity | 2023 | July | https://academic.oup.com/jhered/article-abstract/114/4/428/7146174 | Bird | Genome Assembly | Evolution, Conservation | Omni-C | |
| A highly contiguous reference genome for the Steller's jay (Cyanocitta stelleri) PM Benham, et al.Journal of Heredity, 2023, July | A highly contiguous reference genome for the Steller's jay (Cyanocitta stelleri) | PM Benham, et al. | Journal of Heredity | 2023 | July | https://academic.oup.com/jhered/advance-article-abstract/doi/10.1093/jhered/esad042/7217111 | Bird | Genome Assembly | Evolution | Omni-C | |
| Chromosomal-level reference genome of a wild North American mallard (Anas platyrhynchos) P Lavretsky, et al.G3, 2023, July | Chromosomal-level reference genome of a wild North American mallard (Anas platyrhynchos) | P Lavretsky, et al. | G3 | 2023 | July | https://academic.oup.com/g3journal/article/13/10/jkad171/7234309 | Bird | Genome Assembly | Evolution, Conservation | Hi-C, Chicago | |
| Chromosome-level reference genomes of two imperiled desert fishes: spikedace (Meda fulgida) and loach minnow (Tiaroga cobitis) NM Alexandre, et al.G3, 2023, July | Chromosome-level reference genomes of two imperiled desert fishes: spikedace (Meda fulgida) and loach minnow (Tiaroga cobitis) | NM Alexandre, et al. | G3 | 2023 | July | https://academic.oup.com/g3journal/article/13/10/jkad157/7226357 | Fish | Genome Assembly | Genetic Analysis | Omni-C | |
| Dependency of 3D chromatin folding on RNA polymerase II at different cell cycle stages N Ubelmesser, et al.Georg-August Unviersity of Science (Dissertation), 2023, July | Dependency of 3D chromatin folding on RNA polymerase II at different cell cycle stages | N Ubelmesser, et al. | Georg-August Unviersity of Science (Dissertation) | 2023 | July | https://ediss.uni-goettingen.de/handle/11858/14779 | Human | Epigenetics | Gene Expression | Micro-C | |
| Haplotype-resolved chromosomal-level assembly of wasabi (Eutrema japonicum) genome H Tanaka, et al.Scientific Data, 2023, July | Haplotype-resolved chromosomal-level assembly of wasabi (Eutrema japonicum) genome | H Tanaka, et al. | Scientific Data | 2023 | July | https://www.nature.com/articles/s41597-023-02356-z | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| Rapid gene content turnover on the germline-restricted chromosome in songbirds S Schlebusch, et al.Nature Communications, 2023, July | Rapid gene content turnover on the germline-restricted chromosome in songbirds | S Schlebusch, et al. | Nature Communications | 2023 | July | https://www.nature.com/articles/s41467-023-40308-8 | Bird | Genome Assembly | Evolution | Omni-C | |
| The progression in developing genomic resources for crop improvement P Ruperao, et al.Life, 2023, July | The progression in developing genomic resources for crop improvement | P Ruperao, et al. | Life | 2023 | July | https://www.mdpi.com/2075-1729/13/8/1668 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A genome assembly for the southern Pacific rattlesnake, Crotalus oreganus helleri, in the western rattlesnake species complex EP Westeen, et al.Journal of Heredity, 2023, July | A genome assembly for the southern Pacific rattlesnake, Crotalus oreganus helleri, in the western rattlesnake species complex | EP Westeen, et al. | Journal of Heredity | 2023 | July | https://academic.oup.com/jhered/article/114/6/681/7231217 | Reptile | Genome Assembly | Evolution, Conservation | Omni-C | |
| Genome assemblies of Vigna reflexo-pilosa (créole bean) and its progenitors, Vigna hirtella and Vigna trinervia, revealed homoeolog expression bias and expression-level dominance in the allotetraploid W Pootakham, et al.GigaScience, 2023, July | Genome assemblies of Vigna reflexo-pilosa (créole bean) and its progenitors, Vigna hirtella and Vigna trinervia, revealed homoeolog expression bias and expression-level dominance in the allotetraploid | W Pootakham, et al. | GigaScience | 2023 | July | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10357499/ | Plant | Genome Assembly | Agricultural Biology, Evolution | Hi-C, HiRise | |
| Chromosome level assembly of wild spinach provides insights into the divergence of homo- and heteromorphic plant sex-chromosomes EI Severing, et al.BioRxiv (Pre-print), 2023, July | Chromosome level assembly of wild spinach provides insights into the divergence of homo- and heteromorphic plant sex-chromosomes | EI Severing, et al. | BioRxiv (Pre-print) | 2023 | July | https://www.biorxiv.org/content/10.1101/2023.07.17.549201v1 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Forkhead box protein D2 suppresses colorectal cancer by reprogramming enhancer interactions H Kim, et al.Nucleic Acids Research, 2023, July | Forkhead box protein D2 suppresses colorectal cancer by reprogramming enhancer interactions | H Kim, et al. | Nucleic Acids Research | 2023 | July | https://academic.oup.com/nar/article/51/12/6143/7157519 | Mouse | Epigenetics | Cancer, Gene Expression | HiChIP | |
| Transition to Self-compatibility Associated With Dominant S-allele in a Diploid Siberian Progenitor of Allotetraploid Arabidopsis kamchatica Revealed by Arabidopsis lyrata Genomes UK Kolesnikova, et al.Molecular Biology and Evolution, 2023, July | Transition to Self-compatibility Associated With Dominant S-allele in a Diploid Siberian Progenitor of Allotetraploid Arabidopsis kamchatica Revealed by Arabidopsis lyrata Genomes | UK Kolesnikova, et al. | Molecular Biology and Evolution | 2023 | July | https://academic.oup.com/mbe/article/40/7/msad122/7222474 | Plant | Genome Assembly | Evolution | Omni-C | |
| Near-Chromosomal-Level Genome Assembly of the Sea Urchin Echinometra lucunter, a Model for Speciation in the Sea PL Davidson, et al.Genome Biology Evolution, 2023, June | Near-Chromosomal-Level Genome Assembly of the Sea Urchin Echinometra lucunter, a Model for Speciation in the Sea | PL Davidson, et al. | Genome Biology Evolution | 2023 | June | https://academic.oup.com/gbe/article-abstract/15/6/evad093/7190441 | Echinoderm | Genome Assembly | Evolution | Chicago | |
| Evolution of chemosensory and detoxification gene families across herbivorous Drosophilidae JN Pelaez, et al.G3, 2023, June | Evolution of chemosensory and detoxification gene families across herbivorous Drosophilidae | JN Pelaez, et al. | G3 | 2023 | June | https://academic.oup.com/g3journal/article/13/8/jkad133/7198261 | Insect | Genome Assembly | Conservation, Evolution | Omni-C | |
| Genome of the Lord Howe Island stick insect reveals a highly conserved Phasmid X chromosome OP Stuart, et al.Genome Biology Evolution, 2023, June | Genome of the Lord Howe Island stick insect reveals a highly conserved Phasmid X chromosome | OP Stuart, et al. | Genome Biology Evolution | 2023 | June | https://academic.oup.com/gbe/article-abstract/15/6/evad104/7190050 | Insect | Genome Assembly | Evolution | Omni-C | |
| A Chromosome scale assembly of the tarnished plant bug, Lygus lineolaris (Palisot de Beauvois),genome OP Perera, et al.BMC Research Notes, 2023, June | A Chromosome scale assembly of the tarnished plant bug, Lygus lineolaris (Palisot de Beauvois),genome | OP Perera, et al. | BMC Research Notes | 2023 | June | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10303854/ | Insect | Genome Assembly | Conservation | Omni-C | |
| Haploid-resolved and chromosome-scale genome assembly in Citrus unshiu and its parental species, C. nobilis and C. kinokuni S Isobe, et al.BioRiv (pre-print), 2023, June | Haploid-resolved and chromosome-scale genome assembly in Citrus unshiu and its parental species, C. nobilis and C. kinokuni | S Isobe, et al. | BioRiv (pre-print) | 2023 | June | https://www.biorxiv.org/content/10.1101/2023.06.02.543356.abstract | Plant | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Homoeologous evolution of the allotetraploid genome of Poa annua L. CW Benson, et al.BMC Genomics, 2023, June | Homoeologous evolution of the allotetraploid genome of Poa annua L. | CW Benson, et al. | BMC Genomics | 2023 | June | https://link.springer.com/article/10.1186/s12864-023-09456-5 | Plant | Genome Assembly | Evolution | Omni-C | |
| Reference genome of California walnut, Juglans californica, and resemblance with other genomes in the order Fagales S Fitz-Gibbon, et al.Journal of Heredity, 2023, June | Reference genome of California walnut, Juglans californica, and resemblance with other genomes in the order Fagales | S Fitz-Gibbon, et al. | Journal of Heredity | 2023 | June | https://academic.oup.com/jhered/advance-article-abstract/doi/10.1093/jhered/esad036/7202009 | Plant | Genome Assembly | Evolution | Omni-C | |
| An annotated chromosome-scale reference genome for Eastern black-eared wheatear (Oenanthe melanoleuca) V Peona, et al.G3, 2023, June | An annotated chromosome-scale reference genome for Eastern black-eared wheatear (Oenanthe melanoleuca) | V Peona, et al. | G3 | 2023 | June | https://academic.oup.com/g3journal/article/13/6/jkad088/7141353 | Bird | Genome Assembly | Evolution | Omni-C | |
| Enhancer-promoter contact formation requires RNAPII and antagonizes loop extrusion S Zhang, et al.Nature Genetics, 2023, May | Enhancer-promoter contact formation requires RNAPII and antagonizes loop extrusion | S Zhang, et al. | Nature Genetics | 2023 | May | https://www.nature.com/articles/s41588-023-01364-4 | Mammal | Epigenetics | 3D Chromatin Topology | Micro-C | |
| A draft human pangenome reference WW Liao, et al.Nature, 2023, May | A draft human pangenome reference | WW Liao, et al. | Nature | 2023 | May | https://www.nature.com/articles/s41586-023-05896-x | Human | Genome Assembly | Evolution | Omni-C | |
| Reference genome for the American rubyspot damselfly, Hetaerina americana GF Grether, et al.Journal of Heredity, 2023, May | Reference genome for the American rubyspot damselfly, Hetaerina americana | GF Grether, et al. | Journal of Heredity | 2023 | May | https://academic.oup.com/jhered/article-abstract/114/4/385/7169151 | Insect | Genome Assembly | Evolution | Omni-C | |
| A chromosome-assigned Mongolian gerbil genome with sequenced centromeres provides evidence of a new chromosome TD Brekke, et al.Molecular Biology and Evolution, 2023, May | A chromosome-assigned Mongolian gerbil genome with sequenced centromeres provides evidence of a new chromosome | TD Brekke, et al. | Molecular Biology and Evolution | 2023 | May | https://academic.oup.com/mbe/article/40/5/msad115/7162499?login=false | Mammal | Genome Assembly | Evolution | Omni-C | |
| Genomic resources for Asian (Elephas maximus) and African savannah elephant (Loxodonta africana) conservation and health research NA Prado, et al.Journal of Heredity, 2023, May | Genomic resources for Asian (Elephas maximus) and African savannah elephant (Loxodonta africana) conservation and health research | NA Prado, et al. | Journal of Heredity | 2023 | May | https://academic.oup.com/jhered/article/114/5/529/7185168 | Mammal | Genome Assembly | Conservation | Omni-C | |
| Pistachio genomes provide insights into nut tree domestication and ZW sex chromosome evolution S Kafkas, et al.Plant Communications, 2023, May | Pistachio genomes provide insights into nut tree domestication and ZW sex chromosome evolution | S Kafkas, et al. | Plant Communications | 2023 | May | https://www.cell.com/plant-communications/pdf/S2590-3462(22)00344-3.pdf | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Genome assemblies and comparison of two Neotropical spiral gingers: Costus pulverulentus and C. lasius Journal of Heredity, 2023, May | Genome assemblies and comparison of two Neotropical spiral gingers: Costus pulverulentus and C. lasius | Journal of Heredity | 2023 | May | https://academic.oup.com/jhered/article-abstract/114/3/286/7078863 | Plant | Genome Assembly | Evolution | Chicago, HiRise | ||
| Genome assembly of an Australian native grass species reveals a recent whole-genome duplication and biased gene retention of genes involved in stress response NP De Silva, et al.GigaScience, 2023, May | Genome assembly of an Australian native grass species reveals a recent whole-genome duplication and biased gene retention of genes involved in stress response | NP De Silva, et al. | GigaScience | 2023 | May | https://academic.oup.com/gigascience/article-abstract/doi/10.1093/gigascience/giad034/7160702 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Reference genome of an iconic lizard in western North America, Blainville's horned lizard Phrynosoma blainvillii JQ Richmond, et al.Journal of Heredity, 2023, May | Reference genome of an iconic lizard in western North America, Blainville's horned lizard Phrynosoma blainvillii | JQ Richmond, et al. | Journal of Heredity | 2023 | May | https://academic.oup.com/jhered/article-abstract/114/4/410/7169128 | Reptile | Genome Assembly | Evolution | Omni-C | |
| A Chromosome-Level Genome Assembly for the Rock Ptarmigan (Lagopus muta) TE Squires, et al.G3, 2023, May | A Chromosome-Level Genome Assembly for the Rock Ptarmigan (Lagopus muta) | TE Squires, et al. | G3 | 2023 | May | https://www.biorxiv.org/content/10.1101/2023.01.31.526508.abstract | Bird | Genome Assembly | Evolution | Omni-C | |
| Systematic characterization of regulatory variants of blood pressure genes W Oliveros, et al.Cell Genomics, 2023, May | Systematic characterization of regulatory variants of blood pressure genes | W Oliveros, et al. | Cell Genomics | 2023 | May | https://www.cell.com/cell-genomics/pdf/S2666-979X(23)00098-8.pdf | Human | Genome Assembly | Gene Expression | Omni-C | |
| Chromosome-level genome assembly of Lilford's wall lizard, Podarcis lilfordi (Günther, 1874) from the Balearic Islands (Spain) J Gomez-Garrido, et al.DNA Research, 2023, May | Chromosome-level genome assembly of Lilford's wall lizard, Podarcis lilfordi (Günther, 1874) from the Balearic Islands (Spain) | J Gomez-Garrido, et al. | DNA Research | 2023 | May | https://academic.oup.com/dnaresearch/article/30/3/dsad008/7151100?login=false | Reptile | Genome Assembly | Evolution, Conservation | Omni-C | |
| The fine-scale recombination rate variation and associations with genomic features in a butterfly API Torres, et al.Genome Research, 2023, May | The fine-scale recombination rate variation and associations with genomic features in a butterfly | API Torres, et al. | Genome Research | 2023 | May | https://genome.cshlp.org/content/33/5/810.long | Insect | Genome Assembly | Evolution | Omni-C | |
| Towards the Investigation of the Adaptive Divergence in a Species of Exceptional Ecological Plasticity: Chromosome-Scale Genome Assembly of Chouardia litardierei (Hyacinthaceae) I Radosavljevic, et al.International Journal of Molecular Sciences, 2023, May | Towards the Investigation of the Adaptive Divergence in a Species of Exceptional Ecological Plasticity: Chromosome-Scale Genome Assembly of Chouardia litardierei (Hyacinthaceae) | I Radosavljevic, et al. | International Journal of Molecular Sciences | 2023 | May | https://www.mdpi.com/1422-0067/24/13/10755 | Plant | Genome Assembly | Evolution | Omni-C | |
| Chromosome-level genome assembly of Hydractinia symbiolongicarpus K Kon-Nanjo, et al.G3, 2023, May | Chromosome-level genome assembly of Hydractinia symbiolongicarpus | K Kon-Nanjo, et al. | G3 | 2023 | May | https://academic.oup.com/g3journal/article/13/8/jkad107/7170730 | Hydractinia | Genome Assembly | Stem Cell Research | Omni-C | |
| Supporting crop plant resilience during climate change Y Yuan, et al.Crop Science, 2023, May | Supporting crop plant resilience during climate change | Y Yuan, et al. | Crop Science | 2023 | May | https://acsess.onlinelibrary.wiley.com/doi/full/10.1002/csc2.21019 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| The Gynandropsis gynandra genome provides insights into whole-genome duplications and the evolution of C4 photosynthesis in Cleomaceae NV Hoang, et al.Plant Cell, 2023, April | The Gynandropsis gynandra genome provides insights into whole-genome duplications and the evolution of C4 photosynthesis in Cleomaceae | NV Hoang, et al. | Plant Cell | 2023 | April | https://academic.oup.com/plcell/article-abstract/35/5/1334/7000028 | Plant | Genome Assembly | Evolution | Omni-C | |
| Analysis of the P. lividus sea urchin genome highlights contrasting trends of genomic and regulatory evolution in deuterostomes F Marletaz, et al.Cell Genomics, 2023, April | Analysis of the P. lividus sea urchin genome highlights contrasting trends of genomic and regulatory evolution in deuterostomes | F Marletaz, et al. | Cell Genomics | 2023 | April | https://www.cell.com/cell-genomics/pdf/S2666-979X(23)00061-7.pdf | Echinoderm | Genome Assembly | Evolution | Chicago, HiRise | |
| The little skate genome and the evolutionary emergence of wing-like fin appendages F Marletaz, et al.Nature, 2023, April | The little skate genome and the evolutionary emergence of wing-like fin appendages | F Marletaz, et al. | Nature | 2023 | April | https://www.nature.com/articles/s41586-023-05868-1 | Fish | Epigenetics, Genome Assembly | Evolution, Developmental Biology | Chicago, HiRise, HiChIP | |
| The expansion of agriculture has shaped the recent evolutionary history of a specialized squash pollinator NS Pope, et al.PNAS Evolution, 2023, April | The expansion of agriculture has shaped the recent evolutionary history of a specialized squash pollinator | NS Pope, et al. | PNAS Evolution | 2023 | April | https://www.pnas.org/doi/abs/10.1073/pnas.2208116120 | Insect | Genome Assembly | Evolution, Agricultural Biology | Omni-C | |
| Genome assembly and annotation of Periplaneta americana reveal a comprehensive cockroach allergen profile L Wang, et al.Allergy, 2023, April | Genome assembly and annotation of Periplaneta americana reveal a comprehensive cockroach allergen profile | L Wang, et al. | Allergy | 2023 | April | https://onlinelibrary.wiley.com/doi/abs/10.1111/all.15531 | Insect | Genome Assembly | Evolution | Chicago, HiRise | |
| Standing genetic variation fuels rapid evolution of herbicide resistance in blackgrass S Kersten, et al.PNAS Agricultural Sciences, 2023, April | Standing genetic variation fuels rapid evolution of herbicide resistance in blackgrass | S Kersten, et al. | PNAS Agricultural Sciences | 2023 | April | https://www.pnas.org/doi/abs/10.1073/pnas.2206808120 | Plant | Genome Assembly | Agricultural Biology, Evolution | Omni-C | |
| A chromosome-scale and haplotype-resolved genome assembly of tetraploid blackberry (Rubus L. subgenus Rubus Watson) D Paudel, et al.BioRiv (pre-print), 2023, April | A chromosome-scale and haplotype-resolved genome assembly of tetraploid blackberry (Rubus L. subgenus Rubus Watson) | D Paudel, et al. | BioRiv (pre-print) | 2023 | April | https://www.biorxiv.org/content/10.1101/2023.04.24.538158.abstract | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Reference genome of the long-jawed orb-weaver, Tetragnatha versicolor (Araneae: Tetragnathidae) SA Adams, et al.Journal of Heredity, 2023, April | Reference genome of the long-jawed orb-weaver, Tetragnatha versicolor (Araneae: Tetragnathidae) | SA Adams, et al. | Journal of Heredity | 2023 | April | https://academic.oup.com/jhered/article-abstract/114/4/395/7115827 | Arachnid | Genome Assembly | Conservation | Omni-C | |
| The complete genome assemblies of 19 insect pests of worldwide importance to agriculture R King, et al.Pesticide Biochemistry and Physiology, 2023, April | The complete genome assemblies of 19 insect pests of worldwide importance to agriculture | R King, et al. | Pesticide Biochemistry and Physiology | 2023 | April | https://www.sciencedirect.com/science/article/abs/pii/S0048357523000044?via%3Dihub | Insect | Genome Assembly | Agricultural Biology | Omni-C | |
| A hyper-quiescent chromatin state formed during aging is reversed by regeneration N Yang, et al.Molecular Cell, 2023, April | A hyper-quiescent chromatin state formed during aging is reversed by regeneration | N Yang, et al. | Molecular Cell | 2023 | April | https://www.cell.com/molecular-cell/fulltext/S1097-2765(23)00249-6?_returnURL=https%3A%2F%2Flinkinghub.elsevier.com%2Fretrieve%2Fpii%2FS1097276523002496%3Fshowall%3Dtrue | Mouse | Epigenetics | Gene Expression, Developmental Biology | Micro-C | |
| Igh and Igk loci use different folding principles for V gene recombination due to distinct chromosomal architectures of pro-B and pre-B cells L Hill, et al.Nature Communications, 2023, April | Igh and Igk loci use different folding principles for V gene recombination due to distinct chromosomal architectures of pro-B and pre-B cells | L Hill, et al. | Nature Communications | 2023 | April | https://www.nature.com/articles/s41467-023-37994-9 | Mouse | Epigenetics | Gene Expression, 3D Chromatin Topology | Micro-C | |
| Abstract 4716: Characterization of 3D genome in nasopharyngeal carcinoma (NPC) D Chung, et al.Cancer Research, 2023, April | Abstract 4716: Characterization of 3D genome in nasopharyngeal carcinoma (NPC) | D Chung, et al. | Cancer Research | 2023 | April | https://aacrjournals.org/cancerres/article/83/7_Supplement/4716/722688/Abstract-4716-Characterization-of-3D-genome-in | Human | Epigenetics | Other Disease | Omni-C | |
| Highly connected 3D chromatin networks established by an oncogenic fusion protein shape tumor cell identity R Sanalkumar, et al.Science Advances, 2023, March | Highly connected 3D chromatin networks established by an oncogenic fusion protein shape tumor cell identity | R Sanalkumar, et al. | Science Advances | 2023 | March | https://www.science.org/doi/10.1126/sciadv.abo3789 | Human | Epigenetics | 3D Chromatin Topology | Micro-C | |
| Genomic insights into clonal diversity in UK populations of the Potato aphid, Macrosiphum euphorbiae MA Whitehead, et al.BioRiv (pre-print), 2023, March | Genomic insights into clonal diversity in UK populations of the Potato aphid, Macrosiphum euphorbiae | MA Whitehead, et al. | BioRiv (pre-print) | 2023 | March | https://www.biorxiv.org/content/10.1101/2023.05.28.542558.abstract | Insects | Genome Assembly | Evolution | Omni-C | |
| The genomics of linkage drag in inbred lines of sunflower K Huang, et al.PNAS Agricultural Sciences, 2023, March | The genomics of linkage drag in inbred lines of sunflower | K Huang, et al. | PNAS Agricultural Sciences | 2023 | March | https://www.pnas.org/doi/abs/10.1073/pnas.2205783119 | Plant | Genome Assembly | Evolution | Omni-C | |
| A reference genome for Bluegill (Centrarchidae: Lepomis macrochirus) WB Ludt, et al.G3, 2023, March | A reference genome for Bluegill (Centrarchidae: Lepomis macrochirus) | WB Ludt, et al. | G3 | 2023 | March | https://academic.oup.com/g3journal/article-abstract/13/3/jkad019/6997878 | Fish | Genome Assembly | Evolution | Omni-C | |
| Novel gene-intergenic fusion involving ubiquitin E3 ligase UBE3C causes distal hereditary motor neuropathy A Cutrupi, et al.Brain, 2023, March | Novel gene-intergenic fusion involving ubiquitin E3 ligase UBE3C causes distal hereditary motor neuropathy | A Cutrupi, et al. | Brain | 2023 | March | Novel gene-intergenic fusion involving ubiquitin E3 ligase UBE3C causes distal hereditary motor neuropathy | Human | Epigenetics | Inherited Disease | Micro-C | |
| A Chromosome-Scale Genome Assembly of a Helicoverpa zea Strain Resistant to Bacillus thuringiensis Cry1Ac Insecticidal Protein AR Stahlke, et al.Genome Biology Evolution, 2023, March | A Chromosome-Scale Genome Assembly of a Helicoverpa zea Strain Resistant to Bacillus thuringiensis Cry1Ac Insecticidal Protein | AR Stahlke, et al. | Genome Biology Evolution | 2023 | March | https://academic.oup.com/gbe/article-abstract/15/3/evac131/6661454 | Insect | Genome Assembly | Agricultural Biology, Gene Expression | Omni-C | |
| Genome and Genetic Engineering of the House Cricket (Acheta domesticus): A Resource for Sustainable Agriculture AT Dossey, et al.Biomolecules, 2023, March | Genome and Genetic Engineering of the House Cricket (Acheta domesticus): A Resource for Sustainable Agriculture | AT Dossey, et al. | Biomolecules | 2023 | March | https://www.mdpi.com/2218-273X/13/4/589 | Insect | Genome Assembly | Evolution | Chicago, HiRise | |
| Medicago truncatula resources to study legume biology and symbiotic nitrogen fixation RS Nandety, et al.Fundamental Research, 2023, March | Medicago truncatula resources to study legume biology and symbiotic nitrogen fixation | RS Nandety, et al. | Fundamental Research | 2023 | March | https://www.sciencedirect.com/science/article/pii/S2667325822002904 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Large haploblocks underlie rapid adaptation in the invasive weed Ambrosia artemisiifolia P Battlay, et al.Nature Communications, 2023, March | Large haploblocks underlie rapid adaptation in the invasive weed Ambrosia artemisiifolia | P Battlay, et al. | Nature Communications | 2023 | March | https://www.nature.com/articles/s41467-023-37303-4 | Plant | Genome Assembly | Evolution | Omni-C | |
| Preadapted to adapt: underpinnings of adaptive plasticity revealed by the downy brome genome SR Revolinski, et al.Communications Biology, 2023, March | Preadapted to adapt: underpinnings of adaptive plasticity revealed by the downy brome genome | SR Revolinski, et al. | Communications Biology | 2023 | March | https://www.nature.com/articles/s42003-023-04620-9 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Genome Sequence and Analysis of Nicotiana benthamiana, the Model Plant for Interactions between Organisms K Kurotani, et al.Plant Cell Physiology, 2023, March | Genome Sequence and Analysis of Nicotiana benthamiana, the Model Plant for Interactions between Organisms | K Kurotani, et al. | Plant Cell Physiology | 2023 | March | https://academic.oup.com/pcp/article-abstract/64/2/248/7031347 | Plant | Genome Assembly | Evolution | Omni-C | |
| The genome of the oomycete Peronosclerospora sorghi, a cosmopolitan pathogen of maize and sorghum, is inflated with dispersed pseudogenes K Fletcher, et al.G3, 2023, March | The genome of the oomycete Peronosclerospora sorghi, a cosmopolitan pathogen of maize and sorghum, is inflated with dispersed pseudogenes | K Fletcher, et al. | G3 | 2023 | March | https://academic.oup.com/g3journal/article-abstract/13/3/jkac340/6967065 | Plant | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| The revised reference genome of the leopard gecko (Eublepharis macularius) provides insight into the considerations of genome phasing and assembly BJ Pinto, et al.Journal of Heredity, 2023, March | The revised reference genome of the leopard gecko (Eublepharis macularius) provides insight into the considerations of genome phasing and assembly | BJ Pinto, et al. | Journal of Heredity | 2023 | March | https://academic.oup.com/jhered/article/114/5/513/7069308 | Reptile | Genome Assembly | Evolution | Omni-C | |
| The genetic basis of plumage coloration and elevation adaptation in a clade of recently diverged alpine and arctic songbirds ER Funk, et al.Evolution, 2023, March | The genetic basis of plumage coloration and elevation adaptation in a clade of recently diverged alpine and arctic songbirds | ER Funk, et al. | Evolution | 2023 | March | https://academic.oup.com/evolut/article-abstract/77/3/705/6948175 | Bird | Genome Assembly | Evolution | Omni-C | |
| The giant diploid faba genome unlocks variation in a global protein crop M Jayakodi, et al.Nature, 2023, March | The giant diploid faba genome unlocks variation in a global protein crop | M Jayakodi, et al. | Nature | 2023 | March | https://www.nature.com/articles/s41586-023-05791-5 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Large haploblocks underlie rapid adaptation in an invasive weed P Battlay, et al.Nature Communications, 2023, March | Large haploblocks underlie rapid adaptation in an invasive weed | P Battlay, et al. | Nature Communications | 2023 | March | https://www.nature.com/articles/s41467-023-37303-4 | Plant | Genome Assembly | Evolution | Omni-C | |
| A non-genetic switch triggers alternative telomere lengthening and cellular immortalization in ATRX deficient cells TK Turkalo, et al.Nature Communications, 2023, February | A non-genetic switch triggers alternative telomere lengthening and cellular immortalization in ATRX deficient cells | TK Turkalo, et al. | Nature Communications | 2023 | February | https://www.nature.com/articles/s41467-023-36294-6 | Human | Epigenetics | Cancer | Micro-C | |
| Complete chromosome-level genome assembly data from the tawny crazy ant, Nylanderia fulva (Mayr)(Hymenoptera: Formicidae) ML Allen, et al.Data in Brief, 2023, February | Complete chromosome-level genome assembly data from the tawny crazy ant, Nylanderia fulva (Mayr)(Hymenoptera: Formicidae) | ML Allen, et al. | Data in Brief | 2023 | February | https://www.sciencedirect.com/science/article/pii/S2352340922010368 | Insect | Genome Assembly | Evolution | Omni-C | |
| Mitochondrial genome sequencing and analysis of the invasive Microstegium vimineum: a resource for systematics, invasion history, and management CF Barrett, et al.International Journal of Plant Sciences, 2023, February | Mitochondrial genome sequencing and analysis of the invasive Microstegium vimineum: a resource for systematics, invasion history, and management | CF Barrett, et al. | International Journal of Plant Sciences | 2023 | February | https://www.journals.uchicago.edu/doi/pdf/10.1086/726005 | Plant | Genome Assembly | Evolution | Omni-C | |
| Whole-genome sequence of synthetically derived Brassica napus inbred cultivar Da-Ae JT Davis, et al.G3, 2023, February | Whole-genome sequence of synthetically derived Brassica napus inbred cultivar Da-Ae | JT Davis, et al. | G3 | 2023 | February | https://academic.oup.com/g3journal/article-pdf/13/4/jkad026/49809110/jkad026.pdf | Plant | Genome Assembly | Gene Expression, Agricultural Biology | Omni-C | |
| A contiguous de novo genome assembly of sugar beet EL10 (Beta vulgaris L.) JM McGrath, et al.DNA Research, 2023, February | A contiguous de novo genome assembly of sugar beet EL10 (Beta vulgaris L.) | JM McGrath, et al. | DNA Research | 2023 | February | https://academic.oup.com/dnaresearch/advance-article/doi/10.1093/dnares/dsac033/6748264 | Plant | Genome Assembly | Evolution, Agricultural Biology | Omni-C, Chicago, HiRise | |
| Chromosome-level genome and the identification of sex chromosomes in Uloborus diversus J Miller, et al.Giga Science, 2023, February | Chromosome-level genome and the identification of sex chromosomes in Uloborus diversus | J Miller, et al. | Giga Science | 2023 | February | https://academic.oup.com/gigascience/article-abstract/doi/10.1093/gigascience/giad002/7033993 | Arachnid | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| A reference genome for ecological restoration of the sunflower sea star, Pycnopodia helianthoides LM Schiebelhut, et al.Journal of Heredity, 2023, February | A reference genome for ecological restoration of the sunflower sea star, Pycnopodia helianthoides | LM Schiebelhut, et al. | Journal of Heredity | 2023 | February | https://academic.oup.com/jhered/article-abstract/115/1/86/7279103?redirectedFrom=fulltext&login=false | Echinoderm | Genome Assembly | Evolution, Conservation | Omni-C | |
| Chromosome-Level Genome Assembly of the Cape Cliff Lizard (Hemicordylus capensis) HG Leitao, et al.Genome Biology and Evolution, 2023, February | Chromosome-Level Genome Assembly of the Cape Cliff Lizard (Hemicordylus capensis) | HG Leitao, et al. | Genome Biology and Evolution | 2023 | February | https://pubmed.ncbi.nlm.nih.gov/36624992/ | Reptile | Genome Assembly | Evolution, Developmental Biology | Omni-C | |
| Nuclear condensates of YAP fusion proteins alter transcription to drive ependymoma tumourigenesis X Hu, et al.Nature Cell Biology, 2023, February | Nuclear condensates of YAP fusion proteins alter transcription to drive ependymoma tumourigenesis | X Hu, et al. | Nature Cell Biology | 2023 | February | https://www.nature.com/articles/s41556-022-01069-6 | Human | Epigenetics | Cancer, Gene Expression | HiChIP | |
| Mutations in coral soma and sperm imply lifelong stem cell renewal and cell lineage selection The Royal Society, 2023, January | Mutations in coral soma and sperm imply lifelong stem cell renewal and cell lineage selection | The Royal Society | 2023 | January | https://royalsocietypublishing.org/doi/abs/10.1098/rspb.2022.1766 | Coral | Genome Assembly | Stem Cell Research | Omni-C | ||
| Reference genome of the Monkeyface Prickleback, Cebidichthys violaceus DB Wright, et al.Journal of Heredity, 2023, January | Reference genome of the Monkeyface Prickleback, Cebidichthys violaceus | DB Wright, et al. | Journal of Heredity | 2023 | January | https://academic.oup.com/jhered/article-abstract/114/1/52/6793819 | Fish | Genome Assembly | Evolution | Omni-C | |
| A chromosome-scale reference genome assembly of the great sand eel, Hyperoplus lanceolatus S Winter, et al.Journal of Heredity, 2023, January | A chromosome-scale reference genome assembly of the great sand eel, Hyperoplus lanceolatus | S Winter, et al. | Journal of Heredity | 2023 | January | https://academic.oup.com/jhered/article-pdf/114/2/189/49784466/esad003.pdf | Fish | Genome Assembly | Evolution | Omni-C | |
| Genomes of endangered great hammerhead and shortfin mako sharks reveal historic population declines and high levels of inbreeding in great hammerhead MJ Stanhope, et al.iScience, 2023, January | Genomes of endangered great hammerhead and shortfin mako sharks reveal historic population declines and high levels of inbreeding in great hammerhead | MJ Stanhope, et al. | iScience | 2023 | January | https://www.cell.com/iscience/pdf/S2589-0042(22)02088-0.pdf | Fish | Genome Assembly | Evolution | Omni-C | |
| Chromosomal-level assembly of Bactericera cockerelli reveals rampant gene family expansions impacting genome structure, function and insect-microbe-plant-interactions Y Kwak, et al.Molecular Ecology Resources, 2023, January | Chromosomal-level assembly of Bactericera cockerelli reveals rampant gene family expansions impacting genome structure, function and insect-microbe-plant-interactions | Y Kwak, et al. | Molecular Ecology Resources | 2023 | January | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13693 | Insect | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| A draft Diabrotica virgifera virgifera genome: insights into control and host plant adaption by a major maize pest insect BS Coates, et al.BMC Genomics, 2023, January | A draft Diabrotica virgifera virgifera genome: insights into control and host plant adaption by a major maize pest insect | BS Coates, et al. | BMC Genomics | 2023 | January | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-022-08990-y | Insect | Genome Assembly | Gene Expression, Agricultural Biology | Chicago, HiRise | |
| Complex evolutionary processes maintain an ancient chromosomal inversion P Nosil, et al.PNAS Evolution, 2023, January | Complex evolutionary processes maintain an ancient chromosomal inversion | P Nosil, et al. | PNAS Evolution | 2023 | January | https://www.pnas.org/doi/abs/10.1073/pnas.2300673120 | Insect | Genome Assembly | Evolution | Chicago, HiRise | |
| Genetic analysis of North American Phragmites australis guides management approaches DL Lindsay, et al.Aquatic Botany, 2023, January | Genetic analysis of North American Phragmites australis guides management approaches | DL Lindsay, et al. | Aquatic Botany | 2023 | January | https://www.sciencedirect.com/science/article/pii/S0304377022001012 | Plant | Genome Assembly | Evolution | Omni-C | |
| A major locus confers triclabendazole resistance in Fasciola hepatica and shows dominant inheritance NJ Beesley, et al.PLOS Pathogens, 2023, January | A major locus confers triclabendazole resistance in Fasciola hepatica and shows dominant inheritance | NJ Beesley, et al. | PLOS Pathogens | 2023 | January | https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1011081 | Worm | Genome Assembly | Agricultural Biology, Immunology | Omni-C | |
| Near chromosome-level and highly repetitive genome assembly of the snake pipefish Entelurus aequoreus (Syngnathiformes: Syngnathidae) M Wolf, et al.GigaByte, 2023, January | Near chromosome-level and highly repetitive genome assembly of the snake pipefish Entelurus aequoreus (Syngnathiformes: Syngnathidae) | M Wolf, et al. | GigaByte | 2023 | January | https://pubmed.ncbi.nlm.nih.gov/38239770/ | Fish | Genome Assembly | Developmental Biology | Omni-C | |
| Evolution of centromere and meiosis in plants G Thangavel, et al.University of Cologne (Dissertation), 2023, January | Evolution of centromere and meiosis in plants | G Thangavel, et al. | University of Cologne (Dissertation) | 2023 | January | https://kups.ub.uni-koeln.de/70699/ | Plant | Genome Assembly | Evolution | Omni-C | |
| Inferring Protein-DNA Binding Profiles at Interspersed Repeats Using HiChIP and PAtChER D Taylor, et al.Springer Link, 2022, December | Inferring Protein-DNA Binding Profiles at Interspersed Repeats Using HiChIP and PAtChER | D Taylor, et al. | Springer Link | 2022 | December | https://link.springer.com/protocol/10.1007/978-1-0716-2883-6_11_ | Human | Epigenetics | 3D Chromatin Topology | HiChIP | |
| Characterizing chromatin interactions of regulatory elements and nucleosome positions, using Hi-C, Micro-C, and promoter capture Micro-C BH Lee, et al.Epigenetics and Chromatin, 2022, December | Characterizing chromatin interactions of regulatory elements and nucleosome positions, using Hi-C, Micro-C, and promoter capture Micro-C | BH Lee, et al. | Epigenetics and Chromatin | 2022 | December | https://epigeneticsandchromatin.biomedcentral.com/articles/10.1186/s13072-022-00473-4 | Human | Epigenetics | 3D Chromatin Topology, Cancer | Micro-C, Promoter Capture | |
| Two distinct population clusters of northern sand lance (Ammodytes dubius) on the northwest Atlantic shelf revealed by whole genome sequencing LF Jones, et al.ICES Journal of Marine Science, 2022, December | Two distinct population clusters of northern sand lance (Ammodytes dubius) on the northwest Atlantic shelf revealed by whole genome sequencing | LF Jones, et al. | ICES Journal of Marine Science | 2022 | December | https://academic.oup.com/icesjms/article-abstract/80/1/122/6872753 | Fish | Genome Assembly | Evolution | Omni-C | |
| Reference Genome of the Black Surfperch, Embiotoca jacksoni (Embiotocidae, Perciformes),a California Kelp Forest Fish That Lacks a Pelagic Larval Stage G Bernardi, et al.Journal of Heredity, 2022, December | Reference Genome of the Black Surfperch, Embiotoca jacksoni (Embiotocidae, Perciformes),a California Kelp Forest Fish That Lacks a Pelagic Larval Stage | G Bernardi, et al. | Journal of Heredity | 2022 | December | https://academic.oup.com/jhered/article-abstract/113/6/657/6637776 | Fish | Genome Assembly | Evolution | Omni-C | |
| Reference Genome of the California Sheephead, Semicossyphus pulcher (Labridae, Perciformes),A Keystone Fish Predator in Kelp Forest Ecosystems G Bernardi, et al.Journal of Heredity, 2022, December | Reference Genome of the California Sheephead, Semicossyphus pulcher (Labridae, Perciformes),A Keystone Fish Predator in Kelp Forest Ecosystems | G Bernardi, et al. | Journal of Heredity | 2022 | December | https://academic.oup.com/jhered/article-abstract/113/6/649/6626057 | Fish | Genome Assembly | Evolution | Omni-C | |
| Structural variant analysis of a cancer reference cell line sample using multiple sequencing technologies K Talsania, et al.Genome Biology, 2022, December | Structural variant analysis of a cancer reference cell line sample using multiple sequencing technologies | K Talsania, et al. | Genome Biology | 2022 | December | https://genomebiology.biomedcentral.com/articles/10.1186/s13059-022-02816-6 | Human | Genetic Analysis, Genome Assembly | Cancer | Selva | |
| Near-chromosomal de novo assembly of Bengal tiger genome reveals genetic hallmarks of apex predation H Shukla, et al.GigaScience, 2022, December | Near-chromosomal de novo assembly of Bengal tiger genome reveals genetic hallmarks of apex predation | H Shukla, et al. | GigaScience | 2022 | December | https://academic.oup.com/gigascience/article-abstract/doi/10.1093/gigascience/giac112/6963323 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| Data Driven Methods for Scaffolding Genomes with Hi-C A SurUniversity of Washington (Dissertation), 2022, na | Data Driven Methods for Scaffolding Genomes with Hi-C | A Sur | University of Washington (Dissertation) | 2022 | na | https://search.proquest.com/openview/107bc51c7890d59d70283cc4123c6890/1?pq-origsite=gscholar&cbl=18750&diss=y | Multiple | Genome Assembly, Genetic Analysis | 3D Chromatin Topology | Omni-C | |
| Interspecific introgression patterns reveal the origins of worldwide cultivated bananas in New Guinea G Martin, et al.Plant Journal, 2022, December | Interspecific introgression patterns reveal the origins of worldwide cultivated bananas in New Guinea | G Martin, et al. | Plant Journal | 2022 | December | https://onlinelibrary.wiley.com/doi/abs/10.1111/tpj.16086 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| An improved assembly of the "Cascade" hop (Humulus lupulus) genome uncovers signatures of molecular evolution and refines time of divergence estimates for the Cannabaceae family LK Padgitt-CobbHorticulture Research, 2022, December | An improved assembly of the "Cascade" hop (Humulus lupulus) genome uncovers signatures of molecular evolution and refines time of divergence estimates for the Cannabaceae family | LK Padgitt-Cobb | Horticulture Research | 2022 | December | https://academic.oup.com/hr/article/10/2/uhac281/6957044?login=false | Plant | Genome Assembly | Evolution | Omni-C | |
| Chromosome-Scale Genome Assembly and Annotation of Allotetraploid Annual Bluegrass (Poa annua L.) MD Robbins, et al.Genome Biology and Evolution, 2022, December | Chromosome-Scale Genome Assembly and Annotation of Allotetraploid Annual Bluegrass (Poa annua L.) | MD Robbins, et al. | Genome Biology and Evolution | 2022 | December | https://academic.oup.com/gbe/article-abstract/15/1/evac180/6961776 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Genome assembly and association tests identify interacting loci associated with vigor, precocity, and sex in interspecific pistachio rootstocks W Palmer, et al.G3, 2022, December | Genome assembly and association tests identify interacting loci associated with vigor, precocity, and sex in interspecific pistachio rootstocks | W Palmer, et al. | G3 | 2022 | December | https://academic.oup.com/g3journal/article-abstract/13/2/jkac317/6861913 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Reference genome of the rubber boa, Charina bottae (Serpentes: Boidae) JL Grismer, et al.Journal of Heredity, 2022, December | Reference genome of the rubber boa, Charina bottae (Serpentes: Boidae) | JL Grismer, et al. | Journal of Heredity | 2022 | December | https://academic.oup.com/jhered/article-abstract/113/6/641/6691355 | Reptile | Genome Assembly | Evolution | Omni-C | |
| New insights into Xenopus sex chromosome genomics from the Marsabit clawed frog X. borealis BJ Evans, et al.Journal of Evolutionary Biology, 2022, December | New insights into Xenopus sex chromosome genomics from the Marsabit clawed frog X. borealis | BJ Evans, et al. | Journal of Evolutionary Biology | 2022 | December | https://academic.oup.com/jeb/article-abstract/35/12/1777/7317944?redirectedFrom=fulltext&login=false | Amphibian | Genome Assembly | Evolution | Chicago, HiRise | |
| Developing Transcriptional Markers for Detecting Infection with the Novel Tuberculosis Pathogen, Mycobacterium mungi, in Free-Ranging Banded Mongoose (Mungos mungo) NM SybertsVirginia Tech (Dissertation), 2022, na | Developing Transcriptional Markers for Detecting Infection with the Novel Tuberculosis Pathogen, Mycobacterium mungi, in Free-Ranging Banded Mongoose (Mungos mungo) | NM Syberts | Virginia Tech (Dissertation) | 2022 | na | https://vtechworks.lib.vt.edu/items/2c7afa6d-30bb-4a6f-9ab9-1324a4357b82 | Mammal | Genome Assembly | Immunology | Omni-C | |
| A Chromosome-level assembly of the Japanese eel genome, insights into gene duplication and chromosomal reorganization H Wang, et al.GigaScience, 2022, December | A Chromosome-level assembly of the Japanese eel genome, insights into gene duplication and chromosomal reorganization | H Wang, et al. | GigaScience | 2022 | December | https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giac120/6883318 | Fish | Genome Assembly | Evolution, Conservation | Omni-C | |
| A chromosome-level reference genome for the giant pink sea star, Pisaster brevispinus, a species severely impacted by wasting MB DeBiasse, et al.Journal of Heredity, 2022, December | A chromosome-level reference genome for the giant pink sea star, Pisaster brevispinus, a species severely impacted by wasting | MB DeBiasse, et al. | Journal of Heredity | 2022 | December | https://academic.oup.com/jhered/article/113/6/689/6679504 | Echinoderm | Genome Assembly | Conservation | Omni-C | |
| Broad-Scale Structural Evolution in Invertebrate Genomes and the Population Genomics of Jewel Scarabs in the Southwestern US TP SylvesterTexas A&M University (Dissertation), 2022, December | Broad-Scale Structural Evolution in Invertebrate Genomes and the Population Genomics of Jewel Scarabs in the Southwestern US | TP Sylvester | Texas A&M University (Dissertation) | 2022 | December | https://oaktrust.library.tamu.edu/server/api/core/bitstreams/0f1e9e7e-a81f-459f-83c6-0098f429d2ba/content | Insect | Genome Assembly | Evolution, Conservation | Omni-C | |
| CTCF mediates the Activity-by-contact derived cis-regulatory hubs G Anene Nzelu, et al.Bioriv (pre-print), 2022, November | CTCF mediates the Activity-by-contact derived cis-regulatory hubs | G Anene Nzelu, et al. | Bioriv (pre-print) | 2022 | November | https://www.biorxiv.org/content/10.1101/2022.11.04.515249.abstract | Mammal | Epigenetics | Gene Expression | HiChIP | |
| Adaptive duplication and genetic diversification of protein kinase R contribute to the specificity of bat-virus interactions S Jacquet, et al.Science Advances, 2022, November | Adaptive duplication and genetic diversification of protein kinase R contribute to the specificity of bat-virus interactions | S Jacquet, et al. | Science Advances | 2022 | November | https://www.science.org/doi/abs/10.1126/sciadv.add7540 | Mammal | Genome Assembly | 3D Chromatin Topology, Immunology | Omni-C | |
| Kinship and genetic variation in aquarium-spawned Acropora hyacinthus corals Frontiers, 2022, November | Kinship and genetic variation in aquarium-spawned Acropora hyacinthus corals | Frontiers | 2022 | November | https://www.frontiersin.org/articles/10.3389/fmars.2022.961106/full | Coral | Genome Assembly | Evolution | Other | ||
| High-quality genome assemblies from key Hawaiian coral species TG Stephens, et al.GigaScience, 2022, November | High-quality genome assemblies from key Hawaiian coral species | TG Stephens, et al. | GigaScience | 2022 | November | https://academic.oup.com/gigascience/article-abstract/doi/10.1093/gigascience/giac098/6815755 | Coral | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Complete mitochondrial genomes and updated divergence time of the two freshwater clupeids endemic to Lake Tanganyika (Africa) suggest intralacustrine speciation L Milec, et al.BMC Ecology and Evolution, 2022, November | Complete mitochondrial genomes and updated divergence time of the two freshwater clupeids endemic to Lake Tanganyika (Africa) suggest intralacustrine speciation | L Milec, et al. | BMC Ecology and Evolution | 2022 | November | https://bmcecolevol.biomedcentral.com/articles/10.1186/s12862-022-02085-8 | Fish | Genome Assembly | Evolution | Omni-C | |
| Personalized genome assembly for accurate cancer somatic mutation discovery using cancer-normal paired reference samples C Xiao, et al.Genome Biology, 2022, November | Personalized genome assembly for accurate cancer somatic mutation discovery using cancer-normal paired reference samples | C Xiao, et al. | Genome Biology | 2022 | November | https://genomebiology.biomedcentral.com/articles/10.1186/s13059-022-02803-x | Human | Genome Assembly | Cancer | Omni-C | |
| Personalized genome assembly for accurate cancer somatic mutation discovery using tumor-normal paired reference samples C Xiao, et al.Genome Biology, 2022, November | Personalized genome assembly for accurate cancer somatic mutation discovery using tumor-normal paired reference samples | C Xiao, et al. | Genome Biology | 2022 | November | https://genomebiology.biomedcentral.com/articles/10.1186/s13059-022-02803-x | Human | Genome Assembly | Cancer | Omni-C | |
| A Draft Reference Genome Assembly of the Critically Endangered Black Abalone, Haliotis cracherodii C Orland, et al.Journal of Heredity, 2022, November | A Draft Reference Genome Assembly of the Critically Endangered Black Abalone, Haliotis cracherodii | C Orland, et al. | Journal of Heredity | 2022 | November | https://academic.oup.com/jhered/article-abstract/113/6/665/6585917 | Mollusc | Genome Assembly | Conservation | Omni-C | |
| Reference genome for the California ribbed mussel, Mytilus californianus, an ecosystem engineer LX Paggeot, et al.Journal of Heredity, 2022, November | Reference genome for the California ribbed mussel, Mytilus californianus, an ecosystem engineer | LX Paggeot, et al. | Journal of Heredity | 2022 | November | https://academic.oup.com/jhered/article-abstract/113/6/681/6659931 | Mollusc | Genome Assembly | Evolution | Omni-C | |
| A draft reference genome of the red abalone, Haliotis rufescens, for conservation genomics JS Griffiths, et al.Journal of Heredity, 2022, November | A draft reference genome of the red abalone, Haliotis rufescens, for conservation genomics | JS Griffiths, et al. | Journal of Heredity | 2022 | November | https://academic.oup.com/jhered/article-abstract/113/6/673/6747298 | Mollusc | Genome Assembly | Conservation | Omni-C | |
| The whole-genome assembly of an endangered Salicaceae species: Chosenia arbutifolia (Pall.) A. Skv X He, et al.GigaScience, 2022, November | The whole-genome assembly of an endangered Salicaceae species: Chosenia arbutifolia (Pall.) A. Skv | X He, et al. | GigaScience | 2022 | November | https://academic.oup.com/gigascience/article-abstract/doi/10.1093/gigascience/giac109/6827246 | Plant | Genome Assembly | Evolution | Omni-C | |
| Sequencing of Camelina neglecta, a diploid progenitor of the hexaploid oilseed Camelina sativa R Chaudhary, et al.Plant Biotechnology Journal, 2022, November | Sequencing of Camelina neglecta, a diploid progenitor of the hexaploid oilseed Camelina sativa | R Chaudhary, et al. | Plant Biotechnology Journal | 2022 | November | https://onlinelibrary.wiley.com/doi/abs/10.1111/pbi.13968 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| The genome of the king protea, Protea cynaroides J Chang, et al.Plant Journal, 2022, November | The genome of the king protea, Protea cynaroides | J Chang, et al. | Plant Journal | 2022 | November | https://onlinelibrary.wiley.com/doi/abs/10.1111/tpj.16044 | Plant | Genome Assembly | Evolution | Omni-C | |
| Reference genome of the color polymorphic desert annual plant sandblossoms, Linanthus parryae IG Anghel, et al.Journal of Heredity, 2022, November | Reference genome of the color polymorphic desert annual plant sandblossoms, Linanthus parryae | IG Anghel, et al. | Journal of Heredity | 2022 | November | https://academic.oup.com/jhered/article-abstract/113/6/712/6701609 | Plant | Genome Assembly | Evolution | Omni-C | |
| A highly contiguous genome assembly of red perilla (Perilla frutescens) domesticated in Japan K Tamura, et al.DNA Research, 2022, November | A highly contiguous genome assembly of red perilla (Perilla frutescens) domesticated in Japan | K Tamura, et al. | DNA Research | 2022 | November | https://academic.oup.com/dnaresearch/article-abstract/30/1/dsac044/6831280 | Plant | Genome Assembly | Gene Expression | Omni-C | |
| Reference genome of the color polymorphic desert annual plant sandblossoms, Linanthus parryae IG Anghel, et al.Journal of Heredity, 2022, November | Reference genome of the color polymorphic desert annual plant sandblossoms, Linanthus parryae | IG Anghel, et al. | Journal of Heredity | 2022 | November | https://pubmed.ncbi.nlm.nih.gov/36107789/ | Plant | Genome Assembly | Conservation | Omni-C | |
| Turnover of mammal sex chromosomes in the Sry-deficient Amami spiny rat is due to male-specific upregulation of Sox9 M Terao, et al.PNAS, 2022, November | Turnover of mammal sex chromosomes in the Sry-deficient Amami spiny rat is due to male-specific upregulation of Sox9 | M Terao, et al. | PNAS | 2022 | November | https://www.pnas.org/doi/10.1073/pnas.2211574119 | Mouse | Genome Assembly | Evolution | Omni-C | |
| High-quality genome assemblies from key Hawaiian coral species TG Stephens, et al.GigaScience, 2022, November | High-quality genome assemblies from key Hawaiian coral species | TG Stephens, et al. | GigaScience | 2022 | November | https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giac098/6815755 | Coral | Genome Assembly | Evolution, Conservation | Omni-C | |
| Semi-automated assembly of high-quality diploid human reference genomes ED Jarvis, et al.Nature, 2022, October | Semi-automated assembly of high-quality diploid human reference genomes | ED Jarvis, et al. | Nature | 2022 | October | https://www.nature.com/articles/s41586-022-05325-5 | Mammal | Genome Assembly | Evolution | Omni-C | |
| A Chromosome-level Genome Assembly of the Highly Heterozygous Sea Urchin Echinometra sp. EZ Reveals Adaptation in the Regulatory Regions of Stress Response Genes R Ketchum, et al.Genome Biology Evolution, 2022, October | A Chromosome-level Genome Assembly of the Highly Heterozygous Sea Urchin Echinometra sp. EZ Reveals Adaptation in the Regulatory Regions of Stress Response Genes | R Ketchum, et al. | Genome Biology Evolution | 2022 | October | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9557091/pdf/evac144.pdf | Echinoderm | Genome Assembly | 3D Chromatin Topology, Evolution | Omni-C | |
| Machine Learning Approaches to Identify Genes Underlying Aquaculture Production Traits in Striped Bass and Their Hybrid LK AndersenNorth Carolina State University (Dissertation), 2022, October | Machine Learning Approaches to Identify Genes Underlying Aquaculture Production Traits in Striped Bass and Their Hybrid | LK Andersen | North Carolina State University (Dissertation) | 2022 | October | https://search.proquest.com/openview/73badc92f73f61b26b36cd823b86604f/1?pq-origsite=gscholar&cbl=18750&diss=y | Fish | Genome Assembly | Evolution | Omni-C | |
| Karyotype variation, spontaneous genome rearrangements affecting chemical insensitivity, and expression level polymorphisms in the plant pathogen Phytophthora infestans revealed using its first chromosome-scale assembly M Matson, et al.PLOS Pathogens, 2022, October | Karyotype variation, spontaneous genome rearrangements affecting chemical insensitivity, and expression level polymorphisms in the plant pathogen Phytophthora infestans revealed using its first chromosome-scale assembly | M Matson, et al. | PLOS Pathogens | 2022 | October | https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1010869 | Fungi | Genome Assembly | Agricultural Biology | Omni-C | |
| Investigating the impacts of Late Pleistocene climate change on Arctic mammals using palaeogenomics E LordStockholm University (Dissertation), 2022, October | Investigating the impacts of Late Pleistocene climate change on Arctic mammals using palaeogenomics | E Lord | Stockholm University (Dissertation) | 2022 | October | https://www.diva-portal.org/smash/record.jsf?pid=diva2:1692801 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| A Chromosome-Scale Genome Assembly of the Okapi (Okapia Johnstoni) S Winter, et al.Journal of Heredity, 2022, October | A Chromosome-Scale Genome Assembly of the Okapi (Okapia Johnstoni) | S Winter, et al. | Journal of Heredity | 2022 | October | https://academic.oup.com/jhered/article-abstract/113/5/568/6628826 | Mammal | Genome Assembly | Evolution | Omni-C | |
| Genome report: chromosome-level draft assemblies of the snow leopard, African leopard, and tiger (Panthera uncia, Panthera pardus pardus, and Panthera tigris) EE Armstrong, et al.G3, 2022, October | Genome report: chromosome-level draft assemblies of the snow leopard, African leopard, and tiger (Panthera uncia, Panthera pardus pardus, and Panthera tigris) | EE Armstrong, et al. | G3 | 2022 | October | https://academic.oup.com/g3journal/article-abstract/12/12/jkac277/6762081 | Mammal | Genome Assembly | Evolution | Omni-C | |
| Variation in the rate lateral gene transfers accumulate in a grass lineage P Raimondeau, et al.BioRiv (pre-print), 2022, October | Variation in the rate lateral gene transfers accumulate in a grass lineage | P Raimondeau, et al. | BioRiv (pre-print) | 2022 | October | https://www.biorxiv.org/content/10.1101/2022.10.10.511554.abstract | Plant | Genome Assembly | Evolution | Chicago | |
| Genome-enabled discovery of candidate virulence loci in Striga hermonthica, a devastating parasite of African cereal crops S Qiu, et al.New Phytologist, 2022, October | Genome-enabled discovery of candidate virulence loci in Striga hermonthica, a devastating parasite of African cereal crops | S Qiu, et al. | New Phytologist | 2022 | October | https://nph.onlinelibrary.wiley.com/doi/10.1111/nph.18305 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Population genomics of Puccinia graminis f.sp. tritici highlights the role of admixture in the origin of virulent wheat rust races Y Guo, et al.Nature Communications, 2022, October | Population genomics of Puccinia graminis f.sp. tritici highlights the role of admixture in the origin of virulent wheat rust races | Y Guo, et al. | Nature Communications | 2022 | October | https://www.nature.com/articles/s41467-022-34050-w | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Forecasting climate change response in an alpine specialist songbird reveals the importance of considering novel climate MG DeSaix, et al.Diversity and Distributions, 2022, October | Forecasting climate change response in an alpine specialist songbird reveals the importance of considering novel climate | MG DeSaix, et al. | Diversity and Distributions | 2022 | October | https://onlinelibrary.wiley.com/doi/abs/10.1111/ddi.13628 | Bird | Genome Assembly | Evolution | Omni-C | |
| Origins, genomic structure and copy number variation of snake venom myotoxins SS Gopalan, et al.Toxicon, 2022, September | Origins, genomic structure and copy number variation of snake venom myotoxins | SS Gopalan, et al. | Toxicon | 2022 | September | https://www.sciencedirect.com/science/article/pii/S0041010122002033 | Reptile | Genome Assembly | Gene Expression | Omni-C | |
| Genome of elegance coral Catalaphyllia jardinei (Euphylliidae) Y Yu, et al.Frontiers, 2022, September | Genome of elegance coral Catalaphyllia jardinei (Euphylliidae) | Y Yu, et al. | Frontiers | 2022 | September | https://www.frontiersin.org/articles/10.3389/fmars.2022.991391/full | Coral | Genome Assembly | Evolution | Omni-C | |
| Reference genome assembly of the sunburst anemone, Anthopleura sola BH Cornwell, et al.Journal of Heredity, 2022, September | Reference genome assembly of the sunburst anemone, Anthopleura sola | BH Cornwell, et al. | Journal of Heredity | 2022 | September | https://academic.oup.com/jhered/article-abstract/113/6/699/6694064 | Coral | Genome Assembly | Evolution | Omni-C | |
| Reference genome of the Woolly Sculpin, Clinocottus analis DB Wright, et al.Journal of Heredity, 2022, September | Reference genome of the Woolly Sculpin, Clinocottus analis | DB Wright, et al. | Journal of Heredity | 2022 | September | https://academic.oup.com/jhered/article-abstract/114/1/60/6701587 | Fish | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Maintenance of quantitative genetic variance in complex, multitrait phenotypes: the contribution of rare, large effect variants in 2 Drosophila species E Hine, et al.Genetics, 2022, September | Maintenance of quantitative genetic variance in complex, multitrait phenotypes: the contribution of rare, large effect variants in 2 Drosophila species | E Hine, et al. | Genetics | 2022 | September | https://academic.oup.com/genetics/article-abstract/222/2/iyac122/6663993 | Insect | Genome Assembly | Gene Expression | Omni-C | |
| Validation of reference-assisted assembly using existing and novel Heliothine genomes R Guo, et al.Genomics, 2022, September | Validation of reference-assisted assembly using existing and novel Heliothine genomes | R Guo, et al. | Genomics | 2022 | September | https://www.sciencedirect.com/science/article/pii/S0888754322001860 | Insect | Genome Assembly | 3D Chromatin Topology | Chicago | |
| Chromosome-scale assembly of the yellow mealworm genome E Eleftheriou, et al.Open Research Europe, 2022, September | Chromosome-scale assembly of the yellow mealworm genome | E Eleftheriou, et al. | Open Research Europe | 2022 | September | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10445852/ | Insect | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| The origin of a new chromosome in gerbils 2 TD Brekke, et al.BioRiv (pre-print), 2022, September | The origin of a new chromosome in gerbils 2 | TD Brekke, et al. | BioRiv (pre-print) | 2022 | September | https://www.biorxiv.org/content/10.1101/2022.09.21.508825v1.full | Mammal | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Targeting Chromatin Remodeling Complexes to Inhibit Oncogenic Androgen Receptor Activity in Prostate Cancer L Xiao, et al.U.S. Army Medical Research and Development Command , 2022, September | Targeting Chromatin Remodeling Complexes to Inhibit Oncogenic Androgen Receptor Activity in Prostate Cancer | L Xiao, et al. | U.S. Army Medical Research and Development Command | 2022 | September | https://apps.dtic.mil/sti/citations/AD1190526 | Mammal | Epigenetics, Genome Assembly | Cancer | HiChIP | |
| Whole-genome sequence and assembly of the Javan gibbon (Hylobates moloch) M Escalona, et al.Journal of Heredity, 2022, September | Whole-genome sequence and assembly of the Javan gibbon (Hylobates moloch) | M Escalona, et al. | Journal of Heredity | 2022 | September | https://academic.oup.com/jhered/article-abstract/114/1/35/6711716 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| High-quality chromosome-scale genomes facilitate effective identification of large structural variations in hot and sweet peppers JH Lee, et al.Horticulture Research, 2022, September | High-quality chromosome-scale genomes facilitate effective identification of large structural variations in hot and sweet peppers | JH Lee, et al. | Horticulture Research | 2022 | September | https://academic.oup.com/hr/article-abstract/doi/10.1093/hr/uhac210/6705560 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Genome assembly and chemogenomic profiling of National Flower of Singapore Papilionanthe Miss Joaquim 'Agnes' reveals metabolic pathways regulating floral traits AH Lim, et al.Communications Biology, 2022, September | Genome assembly and chemogenomic profiling of National Flower of Singapore Papilionanthe Miss Joaquim 'Agnes' reveals metabolic pathways regulating floral traits | AH Lim, et al. | Communications Biology | 2022 | September | https://www.nature.com/articles/s42003-022-03940-6 | Plant | Genome Assembly | Gene Expression | Omni-C | |
| Chromosome-scale reference genome and RAD-based genetic map of yellow starthistle (Centaurea solstitialis) reveal putative structural variation and QTLs associated with invader traits B Reatini, et al.BioRiv (pre-print), 2022, September | Chromosome-scale reference genome and RAD-based genetic map of yellow starthistle (Centaurea solstitialis) reveal putative structural variation and QTLs associated with invader traits | B Reatini, et al. | BioRiv (pre-print) | 2022 | September | https://www.biorxiv.org/content/10.1101/2022.09.28.509992v1 | Plant | Genome Assembly, Epigenetics | Evolution | Omni-C | |
| A phased, chromosome-scale genome of 'Honeycrisp'apple (Malus domestica) A Khan, et al.GigaByte, 2022, September | A phased, chromosome-scale genome of 'Honeycrisp'apple (Malus domestica) | A Khan, et al. | GigaByte | 2022 | September | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9693968/ | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Chromosome-scale assembly of the Moringa oleifera Lam. genome uncovers polyploid history and evolution of secondary metabolism pathways through tandem duplication J Chang, et al.Plant Genome, 2022, September | Chromosome-scale assembly of the Moringa oleifera Lam. genome uncovers polyploid history and evolution of secondary metabolism pathways through tandem duplication | J Chang, et al. | Plant Genome | 2022 | September | https://acsess.onlinelibrary.wiley.com/doi/10.1002/tpg2.20238 | Plant | Genome Assembly | Gene Expression | Omni-C, Chicago, HiRise | |
| Genomic adaptation of the picoeukaryote Pelagomonas calceolata to iron-poor oceans revealed by a chromosome-scale genome sequence Nature, 2022, September | Genomic adaptation of the picoeukaryote Pelagomonas calceolata to iron-poor oceans revealed by a chromosome-scale genome sequence | Nature | 2022 | September | https://www.nature.com/articles/s42003-022-03939-z | Algae | Genome Assembly | Evolution | Omni-C | ||
| A reference genome assembly of the declining tricolored blackbird, Agelaius tricolor KM Ballare, et al.Journal of Heredity, 2022, September | A reference genome assembly of the declining tricolored blackbird, Agelaius tricolor | KM Ballare, et al. | Journal of Heredity | 2022 | September | https://academic.oup.com/jhered/article-abstract/114/1/44/6696806 | Bird | Genome Assembly | Evolution | Omni-C | |
| Chromosome-level genome assembly of Indian mangrove (Ceriops tagal) revealed a genome-wide duplication event predating the divergence of Rhizophoraceae mangrove species W Pootakham, et al.Plant Genome, 2022, September | Chromosome-level genome assembly of Indian mangrove (Ceriops tagal) revealed a genome-wide duplication event predating the divergence of Rhizophoraceae mangrove species | W Pootakham, et al. | Plant Genome | 2022 | September | https://acsess.onlinelibrary.wiley.com/doi/10.1002/tpg2.20217 | Plant | Genome Assembly | Evolution | Omni-C | |
| Genome of the sea anemone Exaiptasia pallida and transcriptome profiles during tentacle regeneration CWY Shum, et al.Frontiers, 2022, August | Genome of the sea anemone Exaiptasia pallida and transcriptome profiles during tentacle regeneration | CWY Shum, et al. | Frontiers | 2022 | August | https://www.frontiersin.org/articles/10.3389/fcell.2022.900321/full?&utm_source=Email_to_authors_&utm_medium=Email&utm_content=T1_11.5e1_author&utm_campaign=Email_publication&field=&journalName=Frontiers_in_Cell_and_Developmental_Biology&id=900321 | Coral | Genome Assembly | Developmental Biology | Omni-C, Chicago, HiRise | |
| MEDFORD: A human-and machine-readable metadata markup language P Shpilker, et al.Datanase, 2022, August | MEDFORD: A human-and machine-readable metadata markup language | P Shpilker, et al. | Datanase | 2022 | August | https://academic.oup.com/database/article-abstract/doi/10.1093/database/baac065/6670690 | Coral | Genetic Analysis, Genome Assembly | Evolution | Chicago, HiRise | |
| The genome of a giant (trevally): Caranx ignobilis BD Pickett, et al.GigaByte, 2022, August | The genome of a giant (trevally): Caranx ignobilis | BD Pickett, et al. | GigaByte | 2022 | August | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9694125/ | Fish | Genome Assembly | Evolution | Omni-C | |
| Capture Hi-C to identify regulatory variants and target genes influencing breast cancer risk A ZverevaUniversity of London (Dissertation), 2022, August | Capture Hi-C to identify regulatory variants and target genes influencing breast cancer risk | A Zvereva | University of London (Dissertation) | 2022 | August | https://repository.icr.ac.uk/handle/internal/5552 | Human | Epigenetics, Genome Assembly | Cancer | Omni-C | |
| The genomic basis of evolutionary novelties in a leafhopper Z Li, et al.Molecular Biology and Evolution, 2022, August | The genomic basis of evolutionary novelties in a leafhopper | Z Li, et al. | Molecular Biology and Evolution | 2022 | August | https://academic.oup.com/mbe/advance-article/doi/10.1093/molbev/msac184/6677381 | Insect | Genome Assembly | Evolution | Omni-C | |
| Chromosome-level genome assembly and population genomic analyses provide insights into adaptive evolution of the red turpentine beetle, Dendroctonus … Z Liu, et al.BMC Biology, 2022, August | Chromosome-level genome assembly and population genomic analyses provide insights into adaptive evolution of the red turpentine beetle, Dendroctonus … | Z Liu, et al. | BMC Biology | 2022 | August | https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-022-01388-y | Insect | Genome Assembly | Evolution | Omni-C | |
| Signatures of adaptive evolution in platyrrhine primate genomes H Byrne, et al.PNAS Evolution, 2022, August | Signatures of adaptive evolution in platyrrhine primate genomes | H Byrne, et al. | PNAS Evolution | 2022 | August | https://www.pnas.org/doi/abs/10.1073/pnas.2116681119 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| Chromosome-level reference genome for European flat oyster (Ostrea edulis L.) MK Gundappa, et al.Evolutionary Applications, 2022, August | Chromosome-level reference genome for European flat oyster (Ostrea edulis L.) | MK Gundappa, et al. | Evolutionary Applications | 2022 | August | https://onlinelibrary.wiley.com/doi/10.1111/eva.13460 | Mollusc | Genome Assembly | Evolution | Omni-C | |
| Uncovering the genomic basis of an extraordinary plant invasion VC Bieker, et al.Science Advances, 2022, August | Uncovering the genomic basis of an extraordinary plant invasion | VC Bieker, et al. | Science Advances | 2022 | August | https://www.science.org/doi/abs/10.1126/sciadv.abo5115 | Plant | Genome Assembly | Conservation | Chicago, HiRise | |
| Reference genome of the California glossy snake, Arizona elegans occidentalis: A declining California Species of Special Concern DA Wood, et al.Journal of Heredity, 2022, August | Reference genome of the California glossy snake, Arizona elegans occidentalis: A declining California Species of Special Concern | DA Wood, et al. | Journal of Heredity | 2022 | August | https://academic.oup.com/jhered/article-abstract/113/6/632/6658359 | Reptile | Genome Assembly | Conservation | Omni-C | |
| Repeat-based holocentromeres influence genome architecture and karyotype evolution PG Hofstatter, et al.Cell, 2022, August | Repeat-based holocentromeres influence genome architecture and karyotype evolution | PG Hofstatter, et al. | Cell | 2022 | August | https://www.sciencedirect.com/science/article/pii/S0092867422007978 | Plant | Genome Assembly | Evolution, 3D Chromatin Topology | Omni-C | |
| Replicated radiation of a plant clade along a cloud forest archipelago MJ Donoghue, et al.Nature Ecology & Evolution, 2022, July | Replicated radiation of a plant clade along a cloud forest archipelago | MJ Donoghue, et al. | Nature Ecology & Evolution | 2022 | July | https://www.nature.com/articles/s41559-022-01823-x | Plant | Genome Assembly | Evolution | Hi-C, Chicago | |
| A chromosome-scale reference genome assembly of yellow mangrove (Bruguiera parviflora) reveals a whole genome duplication event associated with the Rhizophoraceae lineage W Pootakham, et al.Molecular Ecology Resources, 2022, July | A chromosome-scale reference genome assembly of yellow mangrove (Bruguiera parviflora) reveals a whole genome duplication event associated with the Rhizophoraceae lineage | W Pootakham, et al. | Molecular Ecology Resources | 2022 | July | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13587 | Plant | Genome Assembly | Evolution | Omni-C | |
| Genome-wide signatures of synergistic epistasis during parallel adaptation in a Baltic Sea copepod DB Stern, et al.Nature, 2022, July | Genome-wide signatures of synergistic epistasis during parallel adaptation in a Baltic Sea copepod | DB Stern, et al. | Nature | 2022 | July | https://www.nature.com/articles/s41467-022-31622-8 | Crustacean | Genome Assembly | Evolution | Chicago | |
| Natural variation at a single gene generates sexual antagonism across fitness components in Drosophila BB Rusuwa, et al.Current Biology, 2022, July | Natural variation at a single gene generates sexual antagonism across fitness components in Drosophila | BB Rusuwa, et al. | Current Biology | 2022 | July | https://www.cell.com/current-biology/pdf/S0960-9822(22)00835-1.pdf | Insect | Genome Assembly | Evolution | Omni-C | |
| Chromosomal-level reference genome of the moth Heortia vitessoides (Lepidoptera: Crambidae),a major pest of agarwood-producing trees STS Law, et al.Genomics, 2022, July | Chromosomal-level reference genome of the moth Heortia vitessoides (Lepidoptera: Crambidae),a major pest of agarwood-producing trees | STS Law, et al. | Genomics | 2022 | July | https://www.sciencedirect.com/science/article/pii/S0888754322001859 | Insect | Genome Assembly | Gene Expression | Chicago, HiRise | |
| A chromosome-length reference genome for the endangered Pacific pocket mouse reveals recent inbreeding in a historically large population AP Wilder, et al.Genome Biology Evolution, 2022, July | A chromosome-length reference genome for the endangered Pacific pocket mouse reveals recent inbreeding in a historically large population | AP Wilder, et al. | Genome Biology Evolution | 2022 | July | https://academic.oup.com/gbe/article-abstract/14/8/evac122/6650481 | Mammal | Genome Assembly | Evolution | Omni-C | |
| A De Novo Chromosome-Level Genome Assembly of the White-Tailed Deer, Odocoileus Virginianus EW London, et al.Journal of Heredity, 2022, July | A De Novo Chromosome-Level Genome Assembly of the White-Tailed Deer, Odocoileus Virginianus | EW London, et al. | Journal of Heredity | 2022 | July | https://academic.oup.com/jhered/article-abstract/113/4/479/6578684 | Mammal | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| A lineage-specific Exo70 is required for receptor kinase-mediated immunity in barley S Holden, et al.Science Advances, 2022, July | A lineage-specific Exo70 is required for receptor kinase-mediated immunity in barley | S Holden, et al. | Science Advances | 2022 | July | https://www.science.org/doi/abs/10.1126/sciadv.abn7258?url_ver=Z39.88-2003&rfr_id=ori:rid:crossref.org&rfr_dat=cr_pub%20%200pubmed | Plant | Genome Assembly | Agricultural Biology, Immunology | Chicago, HiRise | |
| A de novo genome assembly of Solanum verrucosum Schlechtendal, a Mexican diploid species geographically isolated from other diploid A-genome species of potato relatives AJ Hosaka, et al.G3, 2022, July | A de novo genome assembly of Solanum verrucosum Schlechtendal, a Mexican diploid species geographically isolated from other diploid A-genome species of potato relatives | AJ Hosaka, et al. | G3 | 2022 | July | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9339273/ | Plant | Genome Assembly | Evolution | Omni-C | |
| Life on the edge: Hawaiian model for coral evolution D Bhattacharya, et al.Limnology and Oceanography , 2022, July | Life on the edge: Hawaiian model for coral evolution | D Bhattacharya, et al. | Limnology and Oceanography | 2022 | July | https://aslopubs.onlinelibrary.wiley.com/doi/full/10.1002/lno.12181 | Coral | Genome Assembly | Conservation | Omni-C | |
| Equilibrated evolution of the mixed auto-/allopolyploid haplotype-resolved genome of the invasive hexaploid Prussian carp H Kuhl, et al.Nature Communications, 2022, July | Equilibrated evolution of the mixed auto-/allopolyploid haplotype-resolved genome of the invasive hexaploid Prussian carp | H Kuhl, et al. | Nature Communications | 2022 | July | https://www.nature.com/articles/s41467-022-31515-w | Fish | Genome Assembly | Evolution | Omni-C | |
| The Visayan Warty Pig (Sus cebifrons) Genome Provides Insight Into Chromosome Evolution and Sensory Adaptation in Pigs L Liu, et al.Molecular Biology and Evolution, 2022, June | The Visayan Warty Pig (Sus cebifrons) Genome Provides Insight Into Chromosome Evolution and Sensory Adaptation in Pigs | L Liu, et al. | Molecular Biology and Evolution | 2022 | June | https://academic.oup.com/mbe/article-abstract/39/6/msac110/6596366 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| Genetic Variation in Reproductive Investment Across an Ephemerality Gradient in Daphnia pulex KB Barnard-Kubow, et al.Molecular Biology and Evolution, 2022, June | Genetic Variation in Reproductive Investment Across an Ephemerality Gradient in Daphnia pulex | KB Barnard-Kubow, et al. | Molecular Biology and Evolution | 2022 | June | https://academic.oup.com/mbe/article-pdf/doi/10.1093/molbev/msac121/44179655/msac121.pdf | Crustacean | Genome Assembly | Evolution | Chicago, HiRise | |
| Identification of sex-determining loci in hybridizing Catostomus fish species CB Pyne, et al.BioRiv (pre-print), 2022, June | Identification of sex-determining loci in hybridizing Catostomus fish species | CB Pyne, et al. | BioRiv (pre-print) | 2022 | June | https://www.biorxiv.org/content/10.1101/2022.05.03.490509.abstract | Fish | Genome Assembly | Evolution | Omni-C | |
| The spruce budworm genome: Reconstructing the evolutionary history of antifreeze proteins Genome Biology Evolution, 2022, June | The spruce budworm genome: Reconstructing the evolutionary history of antifreeze proteins | Genome Biology Evolution | 2022 | June | https://academic.oup.com/gbe/article-abstract/14/6/evac087/6603509 | Insect | Genome Assembly | Evolution | Omni-C | ||
| Whole-genome sequencing of river lamprey (Lampetra fluviatilis) and brook lamprey (Lampetra planeri): the first glimpse into comparative genomic divergences and similarities G Garmann-JohnsenUniversity of Oslo (Dissertation), 2022, June | Whole-genome sequencing of river lamprey (Lampetra fluviatilis) and brook lamprey (Lampetra planeri): the first glimpse into comparative genomic divergences and similarities | G Garmann-Johnsen | University of Oslo (Dissertation) | 2022 | June | https://www.duo.uio.no/bitstream/handle/10852/96291/BGJ_masters_thesis_final_corrected.pdf?sequence=17&isAllowed=y | Lamprey | Genome Assembly | Evolution | Omni-C | |
| The Evolution of Widespread Recombination Suppression on the Dwarf Hamster (Phodopus) X Chromosome EC Moore, et al.Genome Biology Evolution, 2022, June | The Evolution of Widespread Recombination Suppression on the Dwarf Hamster (Phodopus) X Chromosome | EC Moore, et al. | Genome Biology Evolution | 2022 | June | https://academic.oup.com/gbe/article-pdf/doi/10.1093/gbe/evac080/44253900/evac080.pdf | Mammal | Genome Assembly | Evolution, Gene Expression | Chicago, HiRise | |
| A Solanum lycopersicoides reference genome facilitates insights into tomato specialized metabolism and immunity AF Powell, et al.Plant Journal, 2022, June | A Solanum lycopersicoides reference genome facilitates insights into tomato specialized metabolism and immunity | AF Powell, et al. | Plant Journal | 2022 | June | https://onlinelibrary.wiley.com/doi/abs/10.1111/tpj.15770 | Plant | Genome Assembly | Gene Expression, Agricultural Biology | Chicago, HiRise | |
| The genomic basis of the plant island syndrome in Darwin's giant daisies J Cerca, et al.Nature Communications, 2022, June | The genomic basis of the plant island syndrome in Darwin's giant daisies | J Cerca, et al. | Nature Communications | 2022 | June | https://www.nature.com/articles/s41467-022-31280-w | Plant | Genome Assembly | Evolution | Omni-C, HiRise | |
| A high-quality genome assembly and annotation of the dark-eyed junco Junco hyemalis, a recently diversified songbird G Friis, et al.G3, 2022, June | A high-quality genome assembly and annotation of the dark-eyed junco Junco hyemalis, a recently diversified songbird | G Friis, et al. | G3 | 2022 | June | https://academic.oup.com/g3journal/article-abstract/12/6/jkac083/6566302 | Bird | Genome Assembly | Evolution | Chicago, HiRise | |
| Reference Genome of the Northwestern Pond Turtle, Actinemys marmorata BD Todd, et al.Journal of Heredity, 2022, June | Reference Genome of the Northwestern Pond Turtle, Actinemys marmorata | BD Todd, et al. | Journal of Heredity | 2022 | June | https://academic.oup.com/jhered/article/113/6/624/6602137 | Reptile | Genome Assembly | Conservation | Omni-C | |
| A Reference Genome Assembly of the Bobcat, Lynx rufus M Lin, et alJournal of Heredity, 2022, June | A Reference Genome Assembly of the Bobcat, Lynx rufus | M Lin, et al | Journal of Heredity | 2022 | June | https://academic.oup.com/jhered/article/113/6/615/6607694 | Mammal | Genome Assembly | Conservation | Omni-C | |
| MCM complexes are barriers that restrict cohesin-mediated loop extrusion BJH Dequeker, et al.Nature, 2022, May | MCM complexes are barriers that restrict cohesin-mediated loop extrusion | BJH Dequeker, et al. | Nature | 2022 | May | https://www.nature.com/articles/s41586-022-04730-0 | Mouse | Epigenetics | 3D Chromatin Topology | Micro-C | |
| Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history H Yu, et al.Nature Communications, 2022, May | Palaeogenomic analysis of black rat (Rattus rattus) reveals multiple European introductions associated with human economic history | H Yu, et al. | Nature Communications | 2022 | May | https://www.nature.com/articles/s41467-022-30009-z | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| Gaur genome reveals expansion of sperm odorant receptors in domesticated cattle WY Low, et al.BMC Genomics, 2022, May | Gaur genome reveals expansion of sperm odorant receptors in domesticated cattle | WY Low, et al. | BMC Genomics | 2022 | May | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-022-08561-1 | Mammal | Genome Assembly | Agricultural Biology | Omni-C | |
| Super-resolution visualization of chromatin loop folding in human lymphoblastoid cells using interferometric photoactivated localization microscopy Z Parteka-Tojek, et al.Scientific Reports, 2022, May | Super-resolution visualization of chromatin loop folding in human lymphoblastoid cells using interferometric photoactivated localization microscopy | Z Parteka-Tojek, et al. | Scientific Reports | 2022 | May | https://www.nature.com/articles/s41598-022-12568-9 | Mammal | Epigenetics | 3D Chromatin Topology | Micro-C | |
| A single-cell atlas of bobtail squid visual and nervous system highlights molecular principles of convergent evolution D Gavriouchkina, et al.BioRiv (pre-print), 2022, May | A single-cell atlas of bobtail squid visual and nervous system highlights molecular principles of convergent evolution | D Gavriouchkina, et al. | BioRiv (pre-print) | 2022 | May | https://www.biorxiv.org/content/10.1101/2022.05.26.490366.abstract | Mollusc | Genome Assembly | Developmental Biology | Omni-C | |
| Genome and transcriptome mechanisms driving cephalopod evolution CB Albertin, et al.Nature, 2022, May | Genome and transcriptome mechanisms driving cephalopod evolution | CB Albertin, et al. | Nature | 2022 | May | https://www.nature.com/articles/s41467-022-29748-w | Mollusc | Genome Assembly | Gene Expression | Chicago | |
| Chromosomal level genome of Ilex asprella and insight into antiviral triterpenoid pathway BLH Kong, et al.Genomics, 2022, May | Chromosomal level genome of Ilex asprella and insight into antiviral triterpenoid pathway | BLH Kong, et al. | Genomics | 2022 | May | https://www.sciencedirect.com/science/article/pii/S0888754322001112 | Plant | Genome Assembly | Evolution | Omni-C | |
| A high-quality reference genome for Fraxinus pennsylvanica for ash species restoration and research M Huff, et al.Molecular Ecology Resources, 2022, May | A high-quality reference genome for Fraxinus pennsylvanica for ash species restoration and research | M Huff, et al. | Molecular Ecology Resources | 2022 | May | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13545 | Plant | Genome Assembly | Conservation | Omni-C | |
| Whole-genome sequence and methylome profiling of the almond [Prunus dulcis (Mill.) DA Webb] cultivar 'Nonpareil' KM D'Amico-Willman, et al.G3, 2022, May | Whole-genome sequence and methylome profiling of the almond [Prunus dulcis (Mill.) DA Webb] cultivar 'Nonpareil' | KM D'Amico-Willman, et al. | G3 | 2022 | May | https://academic.oup.com/g3journal/article-abstract/12/5/jkac065/6553026 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| A haploid pseudo-chromosome genome assembly for a keystone sagebrush species of western North American rangelands AE Melton, et al.G3, 2022, May | A haploid pseudo-chromosome genome assembly for a keystone sagebrush species of western North American rangelands | AE Melton, et al. | G3 | 2022 | May | https://academic.oup.com/g3journal/article-abstract/12/7/jkac122/6585877 | Plant | Genome Assembly | Evolution, Agricultural Biology | Omni-C | |
| Draft genome sequence of Indian mulberry (Morus indica) provides a resource for functional and translational genomics M Jain, et al.Genomics, 2022, May | Draft genome sequence of Indian mulberry (Morus indica) provides a resource for functional and translational genomics | M Jain, et al. | Genomics | 2022 | May | https://www.sciencedirect.com/science/article/pii/S088875432200091X | Plant | Genome Assembly | Gene Expression | Omni-C | |
| Genome dynamics in mosses: Extensive synteny coexists with a highly dynamic gene space A Kirbis Sr, et al.BioRiv (pre-print), 2022, May | Genome dynamics in mosses: Extensive synteny coexists with a highly dynamic gene space | A Kirbis Sr, et al. | BioRiv (pre-print) | 2022 | May | https://www.biorxiv.org/content/10.1101/2022.05.17.492078.abstract | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Chromosome-level assembly, annotation and phylome of Pelobates cultripes, the western spadefoot toad HC Liedtke, et al.DNA Research, 2022, May | Chromosome-level assembly, annotation and phylome of Pelobates cultripes, the western spadefoot toad | HC Liedtke, et al. | DNA Research | 2022 | May | https://academic.oup.com/dnaresearch/article/29/3/dsac013/6588074?login=false | Amphibian | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Myriapod genomes reveal ancestral horizontal gene transfer and hormonal gene loss in millipedes WL So, et al.Nature, 2022, May | Myriapod genomes reveal ancestral horizontal gene transfer and hormonal gene loss in millipedes | WL So, et al. | Nature | 2022 | May | https://www.nature.com/articles/s41467-022-30690-0 | Anthropod | Genome Assembly | Evolution | Omni-C, Chicago, HiRise | |
| Cheating Cheatgrass: Understanding the Genetic and Phenotypic Variation Underlying Adaptive Traits in Downy Brome SR RevolinskiRWTH Aachen University (Dissertation), 2022, May | Cheating Cheatgrass: Understanding the Genetic and Phenotypic Variation Underlying Adaptive Traits in Downy Brome | SR Revolinski | RWTH Aachen University (Dissertation) | 2022 | May | https://search.proquest.com/openview/b063c84ddd3e40bf1c79893ee06a52bd/1?pq-origsite=gscholar&cbl=18750&diss=y | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A haplid pseudo-chromosome genome assembly for a keystone sagebrush species of western North American rangelands AE Melton, et al.G3, 2022, May | A haplid pseudo-chromosome genome assembly for a keystone sagebrush species of western North American rangelands | AE Melton, et al. | G3 | 2022 | May | https://academic.oup.com/g3journal/article/12/7/jkac122/6585877 | Plant | Genome Assembly | Conservation | Omni-C | |
| Myriapod genomes reveal ancestral horizontal gene transfer and hormonal gene loss in millipede WL So, et al.Nature Communications, 2022, May | Myriapod genomes reveal ancestral horizontal gene transfer and hormonal gene loss in millipede | WL So, et al. | Nature Communications | 2022 | May | https://www.nature.com/articles/s41467-022-30690-0 | Insect | Genome Assembly | Evolution | Omni-C | |
| Chromosome-level genome assembly reveals genomic architecture of northern range expansion in the mountain pine beetle, Dendroctonus ponderosae Hopkins (Coleoptera: Curculionidae) C Keeling, et al.Molecular Ecology Resources, 2022, April | Chromosome-level genome assembly reveals genomic architecture of northern range expansion in the mountain pine beetle, Dendroctonus ponderosae Hopkins (Coleoptera: Curculionidae) | C Keeling, et al. | Molecular Ecology Resources | 2022 | April | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13528 | Insects | Genome Assembly | Evolution | Hi-C | |
| The chromosome-level rambutan genome reveals a significant role of segmental duplication in the expansion of resistance genes J Zheng, et al.Horticulture Research, 2022, April | The chromosome-level rambutan genome reveals a significant role of segmental duplication in the expansion of resistance genes | J Zheng, et al. | Horticulture Research | 2022 | April | https://academic.oup.com/hr/article/doi/10.1093/hr/uhac014/6526916 | Plant | Genome Assembly | Agricultural Biology | Hi-C, HiRise | |
| Genome of the bi-annual Rio Pearlfish (Nematolebias whitei),a killifish model species for Eco-Evo-Devo AW Thompson, et al.G3, 2022, April | Genome of the bi-annual Rio Pearlfish (Nematolebias whitei),a killifish model species for Eco-Evo-Devo | AW Thompson, et al. | G3 | 2022 | April | https://academic.oup.com/g3journal/article/12/4/jkac045/6533448 | Fish | Genome Assembly | Evolution | Chicago, HiRise | |
| Lysis-Hi-C as a method to study polymicrobial communities and eDNA BM Hill, et al.Molecular Ecology Resources, 2022, April | Lysis-Hi-C as a method to study polymicrobial communities and eDNA | BM Hill, et al. | Molecular Ecology Resources | 2022 | April | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13535 | Microbes | Epigenetics | Other Disease | Omni-C | |
| Landscape genomics to enable conservation actions: the California Conservation Genomics Project HB Shaffer, et al.Journal of Heredity, 2022, April | Landscape genomics to enable conservation actions: the California Conservation Genomics Project | HB Shaffer, et al. | Journal of Heredity | 2022 | April | https://academic.oup.com/jhered/article-abstract/113/6/577/6565646 | Multiple | Genome Assembly | Conservation | Omni-C | |
| A benchmark of Hi-C scaffolders using reference genomes and de novo assemblies A Sur, et al.BioRiv (pre-print), 2022, April | A benchmark of Hi-C scaffolders using reference genomes and de novo assemblies | A Sur, et al. | BioRiv (pre-print) | 2022 | April | https://www.biorxiv.org/content/10.1101/2022.04.20.488415.abstract | Multiple | Genome Assembly | 3D Chromatin Topology | HiRise | |
| High-quality genome and methylomes illustrate features underlying evolutionary success of oaks VL Sork, et al.Nature Communications, 2022, April | High-quality genome and methylomes illustrate features underlying evolutionary success of oaks | VL Sork, et al. | Nature Communications | 2022 | April | https://www.nature.com/articles/s41467-022-29584-y | Plant | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Chromosome evolution and the genetic basis of agronomically important traits in greater yam JV Bredeson, et al.Nature Communications, 2022, April | Chromosome evolution and the genetic basis of agronomically important traits in greater yam | JV Bredeson, et al. | Nature Communications | 2022 | April | https://www.nature.com/articles/s41467-022-29114-w | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| The crustacean model Parhyale hawaiensis M Paris, et al.Current Topics in Developmental Biology, 2022, March | The crustacean model Parhyale hawaiensis | M Paris, et al. | Current Topics in Developmental Biology | 2022 | March | https://www.sciencedirect.com/science/article/pii/S0070215322000072 | Crustacean | Genome Assembly | Evolution | Chicago | |
| Sex-specific evolution of a Drosophila sensory system via interacting cis- and trans-regulatory changes D Leucke, et al.Evolution and Development, 2022, March | Sex-specific evolution of a Drosophila sensory system via interacting cis- and trans-regulatory changes | D Leucke, et al. | Evolution and Development | 2022 | March | https://onlinelibrary.wiley.com/doi/10.1111/ede.12398 | Insect | Genome Assembly | Gene Expression | Omni-C | |
| Chromosome length genome assembly of the redbanded stink bug, Piezodorus guildinii (Westwood) S Saha, et al.BMC Research Notes, 2022, March | Chromosome length genome assembly of the redbanded stink bug, Piezodorus guildinii (Westwood) | S Saha, et al. | BMC Research Notes | 2022 | March | https://bmcresnotes.biomedcentral.com/articles/10.1186/s13104-022-05924-5 | Insect | Genome Assembly | Agricultural Biology | Omni-C, Chicago, HiRise | |
| Genome of the parasitoid wasp Dinocampus coccinellae reveals extensive duplications, accelerated evolution, and independent origins of thelytokous parthenogeny and solitary behavior A Sethuraman, et al.G3, 2022, March | Genome of the parasitoid wasp Dinocampus coccinellae reveals extensive duplications, accelerated evolution, and independent origins of thelytokous parthenogeny and solitary behavior | A Sethuraman, et al. | G3 | 2022 | March | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8896016/ | Insect | Genome Assembly | Evolution | Chicago, HiRise | |
| Gene losses in the common vampire bat illuminate molecular adaptations to blood feeding M Blumer, et al.Science Advances, 2022, March | Gene losses in the common vampire bat illuminate molecular adaptations to blood feeding | M Blumer, et al. | Science Advances | 2022 | March | https://www.science.org/doi/abs/10.1126/sciadv.abm6494 | Mammal | Genome Assembly | Evolution | Omni-C | |
| Chromosome-level genome assembly, annotation, and phylogenomics of the gooseneck barnacle Pollicipes pollicipes JP Bernot, et al.GigaScience, 2022, March | Chromosome-level genome assembly, annotation, and phylogenomics of the gooseneck barnacle Pollicipes pollicipes | JP Bernot, et al. | GigaScience | 2022 | March | https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giac021/6547680?login=true | Marine Invertebrate | Genome Assembly | Evolution | Omni-C | |
| Chromosome size affects sequence divergence between species through the interplay of recombination and selection A Tigano, et al.Evolution, 2022, March | Chromosome size affects sequence divergence between species through the interplay of recombination and selection | A Tigano, et al. | Evolution | 2022 | March | https://academic.oup.com/evolut/article-abstract/76/4/782/6728457 | Multiple | Genome Assembly | Evolution | Chicago, HiRise | |
| Gene co-expression reveals the modularity and integration of C4 and CAM in Portulaca IS Gilman, et al.Plant Physiology, 2022, March | Gene co-expression reveals the modularity and integration of C4 and CAM in Portulaca | IS Gilman, et al. | Plant Physiology | 2022 | March | https://academic.oup.com/plphys/article-abstract/189/2/735/6548170 | Plant | Genome Assembly | Gene Expression | Omni-C | |
| Plant genome sequence assembly in the era of long reads: Progress, challenges and future directions B Pucker, et al.Quantitative Plant Biology, 2022, March | Plant genome sequence assembly in the era of long reads: Progress, challenges and future directions | B Pucker, et al. | Quantitative Plant Biology | 2022 | March | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC10095996/ | Plant | Genome Assembly | Genetic Analysis | Omni-C | |
| Long-read genome sequencing of bread wheat facilitates disease resistance gene cloning N Athiyannan, et al.Nature Genetics, 2022, March | Long-read genome sequencing of bread wheat facilitates disease resistance gene cloning | N Athiyannan, et al. | Nature Genetics | 2022 | March | https://www.nature.com/articles/s41588-022-01022-1 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| An RNA Polymerase III General Transcription Factor Engages in Cell Type-Specific Chromatin Looping LL Cucalon, et al.International Journal of Molecular Sciences, 2022, February | An RNA Polymerase III General Transcription Factor Engages in Cell Type-Specific Chromatin Looping | LL Cucalon, et al. | International Journal of Molecular Sciences | 2022 | February | https://www.mdpi.com/1422-0067/23/4/2260 | Human | Epigenetics | 3D Chromatin Topology | HiChIP | |
| Heterochiasmy facilitated the establishment of gsdf as a novel sex determining gene in Atlantic halibut RB Edvardsen, et al.PLOS Genetics, 2022, February | Heterochiasmy facilitated the establishment of gsdf as a novel sex determining gene in Atlantic halibut | RB Edvardsen, et al. | PLOS Genetics | 2022 | February | https://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1010011 | Fish | Genome Assembly | Evolution | Omni-C | |
| Butterfly eyespots evolved via cooption of an ancestral gene-regulatory network that also patterns antennae, legs, and wings SN Murugesan, et al.PNAS Evolution, 2022, February | Butterfly eyespots evolved via cooption of an ancestral gene-regulatory network that also patterns antennae, legs, and wings | SN Murugesan, et al. | PNAS Evolution | 2022 | February | https://www.pnas.org/doi/abs/10.1073/pnas.2108661119 | Insect | Genome Assembly | Evolution, Gene Expression | Chicago, HiRise | |
| The Genome of Rhyzopertha dominica (Fab.) (Coleoptera: Bostrichidae): Adaptation for Success B Oppert, et al.Genes, 2022, February | The Genome of Rhyzopertha dominica (Fab.) (Coleoptera: Bostrichidae): Adaptation for Success | B Oppert, et al. | Genes | 2022 | February | https://www.mdpi.com/2073-4425/13/3/446 | Insect | Genome Assembly | Evolution | Chicago, HiRise | |
| Aphidinae comparative genomics resource TC Mathers, et al.Zenodo, 2022, February | Aphidinae comparative genomics resource | TC Mathers, et al. | Zenodo | 2022 | February | https://zenodo.org/records/5908005 | Insect | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| A cattle graph genome incorporating global breed diversity A Talenti, et al.Nature Communications, 2022, February | A cattle graph genome incorporating global breed diversity | A Talenti, et al. | Nature Communications | 2022 | February | https://www.nature.com/articles/s41467-022-28605-0 | Mammal | Genome Assembly | Evolution, Agricultural Biology | Omni-C | |
| The genome of tropically adapted Brahman cattle (Bos taurus indicus) reveals novel genome variation in production animals EM Ross, et al.BioRiv (pre-print), 2022, February | The genome of tropically adapted Brahman cattle (Bos taurus indicus) reveals novel genome variation in production animals | EM Ross, et al. | BioRiv (pre-print) | 2022 | February | https://www.biorxiv.org/content/10.1101/2022.02.09.479458.abstract | Mammal | Genome Assembly | Gene Expression, Agricultural Biology | Chicago, HiRise | |
| Genome of the ramshorn snail Biomphalaria straminea-an obligate intermediate host of schistosomiasis W Nong, et al.GigaScience, 2022, February | Genome of the ramshorn snail Biomphalaria straminea-an obligate intermediate host of schistosomiasis | W Nong, et al. | GigaScience | 2022 | February | https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giac012/6528774?login=false | Mollusc | Genome Assembly | Evolution | Omni-C | |
| Deeply conserved synteny and the evolution of metazoan chromosomes O Simakov, et al.Science Advances, 2022, February | Deeply conserved synteny and the evolution of metazoan chromosomes | O Simakov, et al. | Science Advances | 2022 | February | https://www.science.org/doi/abs/10.1126/sciadv.abi5884 | Multiple | Genome Assembly | Evolution | Omni-C | |
| Chromosome-scale assembly of the highly heterozygous genome of red clover (Trifolium pratense L.),an allogamous forage crop species DM Bickhart, et al.GigaByte, 2022, February | Chromosome-scale assembly of the highly heterozygous genome of red clover (Trifolium pratense L.),an allogamous forage crop species | DM Bickhart, et al. | GigaByte | 2022 | February | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9650271/ | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A chromosome-level genome assembly and annotation of the desert horned lizard, Phrynosoma platyrhinos, provides insight into chromosomal rearrangements among reptiles N Koochekian, et al.GigaScience, 2022, February | A chromosome-level genome assembly and annotation of the desert horned lizard, Phrynosoma platyrhinos, provides insight into chromosomal rearrangements among reptiles | N Koochekian, et al. | GigaScience | 2022 | February | https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giab098/6521878?login=false | Reptile | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Chromosome-level assembly of the common vetch (Vicia sativa) reference genome H Xi, et al.GigaByte, 2022, January | Chromosome-level assembly of the common vetch (Vicia sativa) reference genome | H Xi, et al. | GigaByte | 2022 | January | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9650280/ | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Chromosome-level assembly reveals a putative Y-autosomal fusion in the sex determination system of the Greenland Halibut (Reinhardtius hippoglossoides) AL Ferchaud, et al.G3, 2022, January | Chromosome-level assembly reveals a putative Y-autosomal fusion in the sex determination system of the Greenland Halibut (Reinhardtius hippoglossoides) | AL Ferchaud, et al. | G3 | 2022 | January | https://academic.oup.com/g3journal/article-abstract/12/1/jkab376/6428537 | Fish | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Chromosome-level genome assembly of the shuttles hoppfish, Periophthalmus modestus Y Yang, et al.GigaScience, 2022, January | Chromosome-level genome assembly of the shuttles hoppfish, Periophthalmus modestus | Y Yang, et al. | GigaScience | 2022 | January | https://academic.oup.com/gigascience/article-abstract/doi/10.1093/gigascience/giab089/6505119 | Fish | Genome Assembly | Evolution | Omni-C | |
| Butterfly eyespots evolved via co-option of the antennal gene-regulatory network SN Murugesan, et al.PNAS Evolution, 2022, January | Butterfly eyespots evolved via co-option of the antennal gene-regulatory network | SN Murugesan, et al. | PNAS Evolution | 2022 | January | https://www.biorxiv.org/content/10.1101/2021.03.01.429915.abstract | Insect | Genome Assembly | Evolution, Gene Expression | Chicago, HiRise | |
| Genomic resources for rhesus macaques (Macaca mulatta) J RogersMammalian Genome, 2022, January | Genomic resources for rhesus macaques (Macaca mulatta) | J Rogers | Mammalian Genome | 2022 | January | https://link.springer.com/article/10.1007/s00335-021-09922-z | Mammal | Genome Assembly | Gene Expression | Omni-C | |
| A comparative genomics examination of desiccation tolerance and sensitivity in two sister grass species PNAS Plant Biology, 2022, January | A comparative genomics examination of desiccation tolerance and sensitivity in two sister grass species | PNAS Plant Biology | 2022 | January | https://www.pnas.org/doi/abs/10.1073/pnas.2118886119 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | ||
| Accumulation and heritability of mutations in reef-building corals Stanford University (Dissertation), 2021, na | Accumulation and heritability of mutations in reef-building corals | Stanford University (Dissertation) | 2021 | na | https://search.proquest.com/openview/e5b5749726eb9e020e815392ef2f406c/1?pq-origsite=gscholar&cbl=18750&diss=y | Coral | Genome Assembly | Evolution | Hi-C | ||
| De Novo Assembly of the Nearly Complete Fathead Minnow Reference Genome Reveals a Repetitive but Compact Genome J Martinson, et al.Environmental Toxicology and Chemistry, 2021, December | De Novo Assembly of the Nearly Complete Fathead Minnow Reference Genome Reveals a Repetitive but Compact Genome | J Martinson, et al. | Environmental Toxicology and Chemistry | 2021 | December | https://setac.onlinelibrary.wiley.com/doi/10.1002/etc.5266 | Fish | Genome Assembly | Evolution | Hi-C | |
| Genomic analyses provide insights into spinach domestication and the genetic basis of agronomic traits X Cai, et al.Nature Communications, 2021, December | Genomic analyses provide insights into spinach domestication and the genetic basis of agronomic traits | X Cai, et al. | Nature Communications | 2021 | December | https://www.nature.com/articles/s41467-021-27432-z | Plant | Genome Assembly, Genetic Analysis | Agricultural Biology | Chicago, HiRise | |
| The genetic basis of sex determination: Insights and methodological advances using Catostomus fishes C PyneUniversity of Guelph (Dissertation), 2021, December | The genetic basis of sex determination: Insights and methodological advances using Catostomus fishes | C Pyne | University of Guelph (Dissertation) | 2021 | December | https://atrium.lib.uoguelph.ca/xmlui/handle/10214/26577 | Fish | Genome Assembly | Evolution | Hi-C | |
| Differential expression analyses reveal extensive transcriptional plasticity induced by temperature in New Zealand silver trevally (Pseudocaranx georgianus) N Valenza_Troubat, et al.Evolutionary Applications, 2021, December | Differential expression analyses reveal extensive transcriptional plasticity induced by temperature in New Zealand silver trevally (Pseudocaranx georgianus) | N Valenza_Troubat, et al. | Evolutionary Applications | 2021 | December | https://onlinelibrary.wiley.com/doi/abs/10.1111/eva.13332 | Fish | Genome Assembly | Evolution, Gene Expression | Chicago, HiRise | |
| UNDERSTANDING A MAJOR FOREST PEST: GENE FAMILY EVOLUTION IN WOOD-BORING BEETLES AND ASSEMBLY OF THE DE NOVO SOUTHERN PINE BEETLE (DENDROCTONUS FRONTALIS) TRANSCRIPTOME S LandaTexas A&M University (Dissertation), 2021, December | UNDERSTANDING A MAJOR FOREST PEST: GENE FAMILY EVOLUTION IN WOOD-BORING BEETLES AND ASSEMBLY OF THE DE NOVO SOUTHERN PINE BEETLE (DENDROCTONUS FRONTALIS) TRANSCRIPTOME | S Landa | Texas A&M University (Dissertation) | 2021 | December | https://oaktrust.library.tamu.edu/handle/1969.1/196115 | Insect | Genome Assembly | Evolution | Hi-C | |
| Targeting SWI/SNF ATPases in enhancer-addicted prostate cancer L Xiao, et al.Nature, 2021, December | Targeting SWI/SNF ATPases in enhancer-addicted prostate cancer | L Xiao, et al. | Nature | 2021 | December | https://www.nature.com/articles/s41586-021-04246-z | Mammal | Epigenetics, Genome Assembly | Cancer | HiChIP | |
| The jojoba genome reveals wide divergence of the sex chromosomes in a dioecious plant O Al_Dossary, et al.Plant Journal, 2021, December | The jojoba genome reveals wide divergence of the sex chromosomes in a dioecious plant | O Al_Dossary, et al. | Plant Journal | 2021 | December | https://onlinelibrary.wiley.com/doi/abs/10.1111/tpj.15509 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Assembled and annotated 26.5 Gbp coast redwood genome: a resource for estimating evolutionary adaptive potential and investigating hexaploid origin DB Neale, et al.G3, 2021, December | Assembled and annotated 26.5 Gbp coast redwood genome: a resource for estimating evolutionary adaptive potential and investigating hexaploid origin | DB Neale, et al. | G3 | 2021 | December | https://academic.oup.com/g3journal/article-abstract/12/1/jkab380/6460957 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| The genome of the endangered Macadamia jansenii displays little diversity but represents an important genetic resource for plant breeding P Sharma, et al.Plant Direct, 2021, December | The genome of the endangered Macadamia jansenii displays little diversity but represents an important genetic resource for plant breeding | P Sharma, et al. | Plant Direct | 2021 | December | https://onlinelibrary.wiley.com/doi/abs/10.1002/pld3.364 | Plant | Genome Assembly | Evolution, Agricultural Biology | Chicago, HiRise | |
| Large structural variations in the haplotype-resolved African cassava genome BN Mansfeld et al.Plant Journal, 2021, December | Large structural variations in the haplotype-resolved African cassava genome | BN Mansfeld et al. | Plant Journal | 2021 | December | https://onlinelibrary.wiley.com/doi/10.1111/tpj.15543 | Plant | Genome Assembly | 3D Chromatin Topology | Hi-C | |
| The Euscaphis japonica genome and the evolution of malvids WH Sun, et al.Plant Journal, 2021, December | The Euscaphis japonica genome and the evolution of malvids | WH Sun, et al. | Plant Journal | 2021 | December | https://onlinelibrary.wiley.com/doi/abs/10.1111/tpj.15518 | Insect | Genome Assembly | Evolution | Omni-C | |
| The genome of New Zealand trevally (Carangidae: Pseudocaranx georgianus) uncovers a XY sex determination locus A Catanach, et al.BMC Genomics, 2021, November | The genome of New Zealand trevally (Carangidae: Pseudocaranx georgianus) uncovers a XY sex determination locus | A Catanach, et al. | BMC Genomics | 2021 | November | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-021-08102-2 | Fish | Genome Assembly | Evolution, Developmental Biology | Chicago, HiRise | |
| High-quality reference genome and annotation aids understanding of berry development for evergreen blueberry (Vaccinium darrowii) J Yu, et al.Horticulture Research, 2021, November | High-quality reference genome and annotation aids understanding of berry development for evergreen blueberry (Vaccinium darrowii) | J Yu, et al. | Horticulture Research | 2021 | November | https://academic.oup.com/hr/article-abstract/doi/10.1038/s41438-021-00641-9/6491114 | Plant | Genome Assembly | Agricultural Biology | Hi-C | |
| The Gillenia trifoliata genome reveals dynamics correlated with growth and reproduction in Rosaceae HS Ireland, et al.Horticulture Research, 2021, November | The Gillenia trifoliata genome reveals dynamics correlated with growth and reproduction in Rosaceae | HS Ireland, et al. | Horticulture Research | 2021 | November | https://academic.oup.com/hr/article-abstract/doi/10.1038/s41438-021-00662-4/6491085 | Plant | Genome Assembly | Evolution | Hi-C | |
| Chromosome Level Genome Assembly and Annotation of Highly Invasive Japanese Stiltgrass (Microstegium vimineum) D Ramachandran, et al.Genome Biology and Evolution, 2021, November | Chromosome Level Genome Assembly and Annotation of Highly Invasive Japanese Stiltgrass (Microstegium vimineum) | D Ramachandran, et al. | Genome Biology and Evolution | 2021 | November | https://academic.oup.com/gbe/article-abstract/13/11/evab238/6413638 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Reference Genome Assembly of the Big Berry Manzanita (Arctostaphylos glauca) Y Huang, et al.Journal of Heredity, 2021, November | Reference Genome Assembly of the Big Berry Manzanita (Arctostaphylos glauca) | Y Huang, et al. | Journal of Heredity | 2021 | November | https://academic.oup.com/jhered/article-abstract/113/2/188/6438061 | Plant | Genome Assembly | 3D Chromatin Topology, Conservation | Hi-C | |
| Chromosome Level Genome Assembly and Annotation of Highly Invasive Japanese Stiltgrass (Microstegium vimineum) D Ramachandran, et al.Genome Biology and Evolution, 2021, November | Chromosome Level Genome Assembly and Annotation of Highly Invasive Japanese Stiltgrass (Microstegium vimineum) | D Ramachandran, et al. | Genome Biology and Evolution | 2021 | November | https://academic.oup.com/gbe/article/13/11/evab238/6413638 | Plant | Genome Assembly | Evolution, Conservation | Omni-C | |
| A set of accessible enhancers enables the initial response of breast cancer cells to physiological progestin concentrations R Zaurin, et al.Nucleic Acids Research, 2021, November | A set of accessible enhancers enables the initial response of breast cancer cells to physiological progestin concentrations | R Zaurin, et al. | Nucleic Acids Research | 2021 | November | https://academic.oup.com/nar/article/49/22/12716/6439664 | Human | Epigenetics | Cancer, Gene Expression | HiChIP | |
| Loss of Epigenetic Information as a Cause of Mammalian Aging JH Yang, et al.Cell, 2021, October | Loss of Epigenetic Information as a Cause of Mammalian Aging | JH Yang, et al. | Cell | 2021 | October | https://papers.ssrn.com/sol3/papers.cfm?abstract_id=3951490 | Yeast | Epigenetics | 3D Chromatin Topology | HiChIP | |
| De novo whole-genome assembly of Chrysanthemum makinoi, a key wild chrysanthemum N van Lieshout, et al.G3, 2021, October | De novo whole-genome assembly of Chrysanthemum makinoi, a key wild chrysanthemum | N van Lieshout, et al. | G3 | 2021 | October | https://academic.oup.com/g3journal/article-abstract/12/1/jkab358/6395362 | Plant | Genome Assembly | 3D Chromatin Topology, Agricultural Biology | Chicago | |
| A chromosome-scale genome assembly and karyotype of the ctenophore Hormiphora californensis DT Schultz, et al.G3, 2021, October | A chromosome-scale genome assembly and karyotype of the ctenophore Hormiphora californensis | DT Schultz, et al. | G3 | 2021 | October | https://academic.oup.com/g3journal/article-abstract/11/11/jkab302/6358137 | Marine Invertebrate | Genome Assembly | Evolution | Chicago, HiRise | |
| A chromosome-level genome sequence of Chrysanthemum seticuspe, a model species for hexaploid cultivated chrysanthemum M Nakano, et al.Nature Communications, 2021, October | A chromosome-level genome sequence of Chrysanthemum seticuspe, a model species for hexaploid cultivated chrysanthemum | M Nakano, et al. | Nature Communications | 2021 | October | https://www.nature.com/articles/s42003-021-02704-y | Plant | Genome Assembly | 3D Chromatin Topology | Hi-C, HiRise | |
| Resistance to a non-adapted pathogen of barley is linked to the evolution of the Poales-specific Exo70FX family S HoldenUniversity of East Anglia (Dissertation), 2021, October | Resistance to a non-adapted pathogen of barley is linked to the evolution of the Poales-specific Exo70FX family | S Holden | University of East Anglia (Dissertation) | 2021 | October | https://ueaeprints.uea.ac.uk/id/eprint/81695/ | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| A chromosome-level genome assembly for the eastern fence lizard (Sceloporus undulatus),a reptile model for physiological and evolutionary ecology AK Westfall, et al.GigaScience, 2021, October | A chromosome-level genome assembly for the eastern fence lizard (Sceloporus undulatus),a reptile model for physiological and evolutionary ecology | AK Westfall, et al. | GigaScience | 2021 | October | https://academic.oup.com/gigascience/article-abstract/10/10/giab066/6380105 | Reptile | Genome Assembly | Evolution | Hi-C | |
| Genomic investigation of colour polymorphism and phylogeographic variation among populations of black-headed bulbul (Brachypodius atriceps) in insular southeast Asia S Shakya, et al.Molecular Ecology, 2021, October | Genomic investigation of colour polymorphism and phylogeographic variation among populations of black-headed bulbul (Brachypodius atriceps) in insular southeast Asia | S Shakya, et al. | Molecular Ecology | 2021 | October | https://onlinelibrary.wiley.com/doi/10.1111/mec.16089 | Bird | Genome Assembly | Evolution | Hi-C | |
| Displaced clines in an avian hybrid zone (Thamnophilidae: Rhegmatorhina) within an Amazonian interfluve G Del-Rio, et al.Evolution, 2021, October | Displaced clines in an avian hybrid zone (Thamnophilidae: Rhegmatorhina) within an Amazonian interfluve | G Del-Rio, et al. | Evolution | 2021 | October | https://academic.oup.com/evolut/article-abstract/76/3/455/6728518 | Bird | Genome Assembly | Evolution | Chicago, HiRise | |
| The effects of climate and demographic history in shaping genomic variation across populations of the Desert Horned Lizard (Phrynosoma platyrhinos) K Farleigh, et al.Molecular Ecology, 2021, September | The effects of climate and demographic history in shaping genomic variation across populations of the Desert Horned Lizard (Phrynosoma platyrhinos) | K Farleigh, et al. | Molecular Ecology | 2021 | September | https://onlinelibrary.wiley.com/doi/abs/10.1111/mec.16070 | Reptile | Genome Assembly | Evolution | Hi-C | |
| Chromosome-level genome assembly of the blue crab, Callinectes sapidus TR Bachvaroff, et al.G3, 2021, September | Chromosome-level genome assembly of the blue crab, Callinectes sapidus | TR Bachvaroff, et al. | G3 | 2021 | September | https://academic.oup.com/g3journal/article-abstract/11/9/jkab212/6304867 | Crustacean | Genome Assembly | Evolution | Chicago, HiRise | |
| Chromosome-Level Genome Assembly of Chinese Sucker (Myxocyprinus asiaticus) Reveals Strongly Conserved Synteny Following a Catostomid-Specific Whole-Genome Duplication TJ Krabbenhoft, et al.Genome Biology Evolution, 2021, September | Chromosome-Level Genome Assembly of Chinese Sucker (Myxocyprinus asiaticus) Reveals Strongly Conserved Synteny Following a Catostomid-Specific Whole-Genome Duplication | TJ Krabbenhoft, et al. | Genome Biology Evolution | 2021 | September | https://academic.oup.com/gbe/article/13/9/evab190/6349175 | Fish | Genome Assembly | Evolution | Hi-C, Chicago | |
| Whole-genome assembly and annotation of northern wild rice, Zizania palustris L., supports a whole-genome duplication in the Zizania genus M Haas, et al.Plant Journal, 2021, September | Whole-genome assembly and annotation of northern wild rice, Zizania palustris L., supports a whole-genome duplication in the Zizania genus | M Haas, et al. | Plant Journal | 2021 | September | https://onlinelibrary.wiley.com/doi/10.1111/tpj.15419 | Plant | Genetic Analysis, Genome Assembly | Agricultural Biology | Chicago, HiRise, Selva | |
| Using Genomic and Phenotypic Data to Explore the Evolution and Ecology of the North American Mountain Goat D MartchenkoTrent University (Dissertation), 2021, September | Using Genomic and Phenotypic Data to Explore the Evolution and Ecology of the North American Mountain Goat | D Martchenko | Trent University (Dissertation) | 2021 | September | https://search.proquest.com/openview/52ebc1c533b680ffa3adec479d191e88/1?pq-origsite=gscholar&cbl=18750&diss=y | Mammal | Genome Assembly | Evolution, Conservation | Hi-C | |
| Phylogeographic reconstruction of the marbled crayfish origin J Gutekunst, et al.Nature, 2021, September | Phylogeographic reconstruction of the marbled crayfish origin | J Gutekunst, et al. | Nature | 2021 | September | https://www.nature.com/articles/s42003-021-02609-w | Crustacean | Genome Assembly | Evolution | Chicago, HiRise | |
| Sea anemone genomes reveal ancestral metazoan chromosomal macrosynteny U Technau, et al.Research Square (Preprint), 2021, August | Sea anemone genomes reveal ancestral metazoan chromosomal macrosynteny | U Technau, et al. | Research Square (Preprint) | 2021 | August | https://www.researchsquare.com/article/rs-796229/latest | Coral | Genome Assembly | 3D Chromatin Topology, Evolution | Chicago, HiRise | |
| Chromosomal rearrangements preserve adaptive divergence in ecological speciation CE Jackson, et al.BioRiv (pre-print), 2021, August | Chromosomal rearrangements preserve adaptive divergence in ecological speciation | CE Jackson, et al. | BioRiv (pre-print) | 2021 | August | https://www.biorxiv.org/content/10.1101/2021.08.20.457158.abstract | Crustacean | Genome Assembly | Evolution | Chicago, HiRise | |
| Genomic selection in salmonids: new discoveries and future perspectives E D'Agaro, et al.Aquaculture International, 2021, August | Genomic selection in salmonids: new discoveries and future perspectives | E D'Agaro, et al. | Aquaculture International | 2021 | August | https://link.springer.com/article/10.1007/s10499-021-00747-w | Fish | Genome Assembly | Evolution | Chicago | |
| The genome of the bow n (Amia calva) illuminates the developmental evolution of ray-nned shes A Thompson, et al.Nature Genetics, 2021, August | The genome of the bow n (Amia calva) illuminates the developmental evolution of ray-nned shes | A Thompson, et al. | Nature Genetics | 2021 | August | https://www.nature.com/articles/s41588-021-00914-y | Fish | Genome Assembly | Evolution | Chicago, HiRise | |
| Establishment of multi-omics resources for the giant triton snail and the silver-lipped pearl oyster AH KleinUniversity of the Sunshine Coast (Dissertation), 2021, August | Establishment of multi-omics resources for the giant triton snail and the silver-lipped pearl oyster | AH Klein | University of the Sunshine Coast (Dissertation) | 2021 | August | https://research.usc.edu.au/view/pdfCoverPage?instCode=61USC_INST&filePid=13160078250002621&download=true | Mollusc | Genome Assembly | Conservation | Chicago, HiRise | |
| Technical considerations in Hi-C scaffolding and evaluation of chromosome-scale genome assemblies K Yamaguchi, et al.Molecular Ecology, 2021, August | Technical considerations in Hi-C scaffolding and evaluation of chromosome-scale genome assemblies | K Yamaguchi, et al. | Molecular Ecology | 2021 | August | https://onlinelibrary.wiley.com/doi/10.1111/mec.16146 | Other | Genome Assembly | 3D Chromatin Topology | Hi-C | |
| Seeing the forest through the trees: prioritising potentially functional interactions from Hi-C N Liu, et al.Epigenetics and Chromatin, 2021, August | Seeing the forest through the trees: prioritising potentially functional interactions from Hi-C | N Liu, et al. | Epigenetics and Chromatin | 2021 | August | https://epigeneticsandchromatin.biomedcentral.com/articles/10.1186/s13072-021-00417-4 | Other | Epigenetics, Genome Assembly | 3D Chromatin Topology | Other | |
| Rootstock influences the effect of grapevine leafroll-associated viruses on berry development and metabolism via abscisic acid signalling AM Vondras, et al.Molecular Plant Pathology, 2021, August | Rootstock influences the effect of grapevine leafroll-associated viruses on berry development and metabolism via abscisic acid signalling | AM Vondras, et al. | Molecular Plant Pathology | 2021 | August | https://bsppjournals.onlinelibrary.wiley.com/doi/10.1111/mpp.13077 | Plant | Genome Assembly | Gene Expression | Hi-C | |
| Variability and Genetics of Rhizoctonia solani Resistance in Table Beet KS WiggUniversity of Wisconsin-Madison (Dissertation), 2021, August | Variability and Genetics of Rhizoctonia solani Resistance in Table Beet | KS Wigg | University of Wisconsin-Madison (Dissertation) | 2021 | August | https://www.proquest.com/openview/316d74a584f43fb558765688fda7264b/1?pq-origsite=gscholar&cbl=18750&diss=y | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A chromosome-level assembly of the black tiger shrimp (Penaeus monodon) genome facilitates the identification of growth-associated genes T Uengwetwanit, et al.Molecular Ecology Resources, 2021, July | A chromosome-level assembly of the black tiger shrimp (Penaeus monodon) genome facilitates the identification of growth-associated genes | T Uengwetwanit, et al. | Molecular Ecology Resources | 2021 | July | https://pubmed.ncbi.nlm.nih.gov/33586292/ | Crustacean | Genome Assembly | Evolution | Chicago, HiRise | |
| Whole-genome assembly of Corylus avellana cv "Tonda Gentile delle Langhe" using linked-reads (10X Genomics) V Pavese, et al.G3, 2021, July | Whole-genome assembly of Corylus avellana cv "Tonda Gentile delle Langhe" using linked-reads (10X Genomics) | V Pavese, et al. | G3 | 2021 | July | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8495946/ | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| De novo chromosome-level assembly of the Centella asiatica genome W Pootakham, et al.Genomics, 2021, July | De novo chromosome-level assembly of the Centella asiatica genome | W Pootakham, et al. | Genomics | 2021 | July | https://www.sciencedirect.com/science/article/pii/S0888754321001920 | Plant | Genome Assembly | Evolution | Hi-C | |
| Chromosome-scale genome assembly of the transformation-amenable common wheat cultivar 'Fielder' K Sato, et al.DNA Research, 2021, July | Chromosome-scale genome assembly of the transformation-amenable common wheat cultivar 'Fielder' | K Sato, et al. | DNA Research | 2021 | July | https://academic.oup.com/dnaresearch/article-abstract/28/3/dsab008/6319722 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| A reference-grade genome identifies salt-tolerance genes from the salt-secreting mangrove species Avicennia marina P Natarajan, et al.Communications Biology, 2021, July | A reference-grade genome identifies salt-tolerance genes from the salt-secreting mangrove species Avicennia marina | P Natarajan, et al. | Communications Biology | 2021 | July | https://www.nature.com/articles/s42003-021-02384-8 | Plant | Genome Assembly | Agricultural Biology | Hi-C | |
| Insights from the first genome assembly of Onion (Allium cepa) R Finkers, et al.G3, 2021, July | Insights from the first genome assembly of Onion (Allium cepa) | R Finkers, et al. | G3 | 2021 | July | https://academic.oup.com/g3journal/article-abstract/11/9/jkab243/6320787 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| How far does an apple fall from the tree? Evolutionary genetics and the heritability of body size morphology in the parasitoid wasp, Dinocampus coccinellae AT TovarCalifornia State University, San Marcos (Dissertation), 2021, July | How far does an apple fall from the tree? Evolutionary genetics and the heritability of body size morphology in the parasitoid wasp, Dinocampus coccinellae | AT Tovar | California State University, San Marcos (Dissertation) | 2021 | July | https://scholarworks.calstate.edu/downloads/x059cd37q | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Sequencing and Chromosome-Scale Assembly of Plant Genomes, Brassica rapa as a Use Case B Istace, et al.Biology, 2021, July | Sequencing and Chromosome-Scale Assembly of Plant Genomes, Brassica rapa as a Use Case | B Istace, et al. | Biology | 2021 | July | https://www.mdpi.com/2079-7737/10/8/732 | Plant | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Whole-Genome Mapping of Date Palm (Phoenix Dactylifera L.) Z Iqbal, et al.The Date Palm Genome, Vol 1, 2021, July | Whole-Genome Mapping of Date Palm (Phoenix Dactylifera L.) | Z Iqbal, et al. | The Date Palm Genome, Vol 1 | 2021 | July | https://link.springer.com/chapter/10.1007/978-3-030-73746-7_8 | Plant | Genome Assembly | Agricultural Biology | Hi-C | |
| The chromosome-scale assembly of the Canary Islands endemic spider Dysdera silvatica (Arachnida, Araneae) sheds light on the origin and genome structure of chemoreceptor gene families in chelicerates P Escuer, et al.Molecular Ecology Resources, 2021, July | The chromosome-scale assembly of the Canary Islands endemic spider Dysdera silvatica (Arachnida, Araneae) sheds light on the origin and genome structure of chemoreceptor gene families in chelicerates | P Escuer, et al. | Molecular Ecology Resources | 2021 | July | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13471 | Arachnid | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Genomic signatures of rapid adaptive divergence in a tropical montane species PGP Ericson, et al.Biology Letters, 2021, July | Genomic signatures of rapid adaptive divergence in a tropical montane species | PGP Ericson, et al. | Biology Letters | 2021 | July | https://royalsocietypublishing.org/doi/abs/10.1098/rsbl.2021.0089 | Bird | Genome Assembly | Evolution | Fix-C | |
| Polygenic variation in sexual investment across an ephemerality gradient in Daphnia pulex K Barnard-Kubow, et al.BioRiv (pre-print), 2021, June | Polygenic variation in sexual investment across an ephemerality gradient in Daphnia pulex | K Barnard-Kubow, et al. | BioRiv (pre-print) | 2021 | June | https://www.biorxiv.org/content/10.1101/2021.06.23.449662.abstract | Crustacean | Genome Assembly | Gene Expression | Chicago, HiRise | |
| The American lobster genome reveals insights on longevity, neural, and immune adaptations JM Polinski, et al.Science Advances, 2021, June | The American lobster genome reveals insights on longevity, neural, and immune adaptations | JM Polinski, et al. | Science Advances | 2021 | June | https://www.science.org/doi/abs/10.1126/sciadv.abe8290 | Crustacean | Genome Assembly | Gene Expression | Chicago, HiRise | |
| A compendium of novel genomics technologies provides a chromosome-scale assembly and insights into the sex determining system of the Greenland Halibut AL Ferchaud, et al.BioRiv (pre-print), 2021, June | A compendium of novel genomics technologies provides a chromosome-scale assembly and insights into the sex determining system of the Greenland Halibut | AL Ferchaud, et al. | BioRiv (pre-print) | 2021 | June | https://www.biorxiv.org/content/10.1101/2021.06.18.449053.abstract | Fish | Genome Assembly | Developmental Biology, Agricultural Biology | Hi-C | |
| Chromosome-level assembly of the Atlantic silverside genome reveals extreme levels of sequence diversity and structural genetic variation A Tigano, et al.Genome Biology Evolution, 2021, June | Chromosome-level assembly of the Atlantic silverside genome reveals extreme levels of sequence diversity and structural genetic variation | A Tigano, et al. | Genome Biology Evolution | 2021 | June | https://academic.oup.com/gbe/article-abstract/13/6/evab098/6272586 | Fish | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| A chromosomal assembly of the soybean cyst nematode genome RE Masonbrink, et al.Molecular Ecology Resources, 2021, June | A chromosomal assembly of the soybean cyst nematode genome | RE Masonbrink, et al. | Molecular Ecology Resources | 2021 | June | https://onlinelibrary.wiley.com/doi/abs/10.1111/1755-0998.13432 | Nematode | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Big data in conservation genomics: boosting skills, hedging bets, and staying current in the field RM Schweizer, et al.Journal of Heredity, 2021, June | Big data in conservation genomics: boosting skills, hedging bets, and staying current in the field | RM Schweizer, et al. | Journal of Heredity | 2021 | June | https://academic.oup.com/jhered/article-abstract/112/4/313/6226929 | Other | Genome Assembly | Conservation | Chicago | |
| New Sources of Eastern Filbert Blight Resistance and Simple Sequence Repeat Markers on Linkage Group 6 in Hazelnut (Corylus avellana L.) G Komaei Koma, et al.Frontiers in Plant Science, 2021, June | New Sources of Eastern Filbert Blight Resistance and Simple Sequence Repeat Markers on Linkage Group 6 in Hazelnut (Corylus avellana L.) | G Komaei Koma, et al. | Frontiers in Plant Science | 2021 | June | https://www.frontiersin.org/articles/10.3389/fpls.2021.684122/full | Plant | Genome Assembly | Evolution | Hi-C | |
| An exploration of assembly strategies and quality metrics on the accuracy of the rewarewa (Knightia excelsa) genome AM McCartney, et al.Molecular Ecology Resources, 2021, June | An exploration of assembly strategies and quality metrics on the accuracy of the rewarewa (Knightia excelsa) genome | AM McCartney, et al. | Molecular Ecology Resources | 2021 | June | https://onlinelibrary.wiley.com/doi/abs/10.1111/1755-0998.13406 | Plant | Genome Assembly | 3D Chromatin Topology | Hi-C | |
| Sequence of the supernumerary B chromosome of maize provides insight into its drive mechanism and evolution N Blavet, et al.PNAS Biological Sciences, 2021, June | Sequence of the supernumerary B chromosome of maize provides insight into its drive mechanism and evolution | N Blavet, et al. | PNAS Biological Sciences | 2021 | June | https://www.pnas.org/doi/abs/10.1073/pnas.2104254118 | Plant | Genome Assembly | 3D Chromatin Topology, Agricultural Biology | Hi-C | |
| The status of striped bass, Morone saxatilis, as a commercially ready species for US marine aquaculture LK Andersen, et al.World Aquaculture Society, 2021, May | The status of striped bass, Morone saxatilis, as a commercially ready species for US marine aquaculture | LK Andersen, et al. | World Aquaculture Society | 2021 | May | https://onlinelibrary.wiley.com/doi/abs/10.1111/jwas.12812 | Fish | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Targeting histone acetylation dynamics and oncogenic transcription by catalytic P300/CBP inhibition SJ Hogg, et al.Molecular Cell, 2021, May | Targeting histone acetylation dynamics and oncogenic transcription by catalytic P300/CBP inhibition | SJ Hogg, et al. | Molecular Cell | 2021 | May | https://www.cell.com/molecular-cell/pdf/S1097-2765(21)00320-8.pdf | Human | Epigenetics, Genome Assembly | Cancer | Omni-C | |
| Population genomics and phylogeography of the boll weevil, Anthonomus grandis Boheman (Coleoptera: Curculionidae),in the United States, northern Mexico, and Argentina T Raszick, et al.Evolutionary Applications, 2021, May | Population genomics and phylogeography of the boll weevil, Anthonomus grandis Boheman (Coleoptera: Curculionidae),in the United States, northern Mexico, and Argentina | T Raszick, et al. | Evolutionary Applications | 2021 | May | https://onlinelibrary.wiley.com/doi/10.1111/eva.13238 | Insect | Genome Assembly | Evolution | Chicago, HiRise | |
| Genomic and fitness consequences of inbreeding in an endangered carnivore M Hasselgren, et al.Molecular Ecology, 2021, May | Genomic and fitness consequences of inbreeding in an endangered carnivore | M Hasselgren, et al. | Molecular Ecology | 2021 | May | https://onlinelibrary.wiley.com/doi/abs/10.1111/mec.15943 | Mammal | Genome Assembly | Evolution | Hi-C | |
| Elephant genomes reveal insights into differences in disease defense mechanisms between species M Tollis, et al.Molecular Biology and Evolution, 2021, May | Elephant genomes reveal insights into differences in disease defense mechanisms between species | M Tollis, et al. | Molecular Biology and Evolution | 2021 | May | https://academic.oup.com/mbe/article/38/9/3606/6263836 | Mammal | Genome Assembly | Evolution | Hi-C, HiRise | |
| Chromosome-Level Reference Genome Assembly for the American Pika (Ochotona princeps) BMF Sjodin, et al.Journal of Heredity, 2021, May | Chromosome-Level Reference Genome Assembly for the American Pika (Ochotona princeps) | BMF Sjodin, et al. | Journal of Heredity | 2021 | May | https://academic.oup.com/jhered/article-abstract/112/6/549/6283766 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| The genome of the venomous snail Lautoconus ventricosus sheds light on the origin of conotoxin diversity JR Pardos-Blas, et al.GigaScience, 2021, May | The genome of the venomous snail Lautoconus ventricosus sheds light on the origin of conotoxin diversity | JR Pardos-Blas, et al. | GigaScience | 2021 | May | https://academic.oup.com/gigascience/article-pdf/doi/10.1093/gigascience/giab037/38197290/giab037.pdf | Mollusc | Genome Assembly | Evolution | Chicago, HiRise | |
| New simple sequence repeat markers on linkage groups 2 and 7, and investigation of new sources of eastern filbert blight resistance in hazelnut M _ekerli, et al.American Society for Horticultural Science, 2021, May | New simple sequence repeat markers on linkage groups 2 and 7, and investigation of new sources of eastern filbert blight resistance in hazelnut | M _ekerli, et al. | American Society for Horticultural Science | 2021 | May | https://journals.ashs.org/jashs/view/journals/jashs/146/4/article-p252.xml | Plant | Genome Assembly | Agricultural Biology | Hi-C | |
| Novel Sources of Food Allergens L PalmerUniversity of Nebraska (Dissertation), 2021, May | Novel Sources of Food Allergens | L Palmer | University of Nebraska (Dissertation) | 2021 | May | https://search.proquest.com/openview/e0184f81d12cfd1b4b8b0ea4b5cce690/1?pq-origsite=gscholar&cbl=18750&diss=y | Plant | Genome Assembly | Immunology | Hi-C | |
| New genomic resources and comparative analyses reveal differences in floral gene expression in selfing and outcrossing Collinsia sister species LJ Frazee, et al.G3, 2021, May | New genomic resources and comparative analyses reveal differences in floral gene expression in selfing and outcrossing Collinsia sister species | LJ Frazee, et al. | G3 | 2021 | May | https://academic.oup.com/g3journal/article-abstract/11/8/jkab177/6278899 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Elephant Genomes Reveal Accelerated Evolution in Mechanisms Underlying Disease Defenses M Tollis, et al.Molecular Biology and Evolution, 2021, May | Elephant Genomes Reveal Accelerated Evolution in Mechanisms Underlying Disease Defenses | M Tollis, et al. | Molecular Biology and Evolution | 2021 | May | https://academic.oup.com/mbe/article-abstract/38/9/3606/6263836 | Mammal | Genome Assembly | Cancer, Evolution, Conservation | Hi-C, HiRise | |
| A pseudomolecule assembly of the Rocky Mountain elk genome RE Masonbrink, et al.PLOS One, 2021, April | A pseudomolecule assembly of the Rocky Mountain elk genome | RE Masonbrink, et al. | PLOS One | 2021 | April | https://journals.plos.org/plosone/article?id=10.1371/journal.pone.0249899 | Mammal | Genome Assembly | Other Disease | Chicago, HiRise | |
| Chromosomal-Level Genome Assembly of the Painted Sea Urchin Lytechinus pictus: A Genetically Enabled Model System for Cell Biology and Embryonic … J Warner, et al.Genome Biology Evolution, 2021, April | Chromosomal-Level Genome Assembly of the Painted Sea Urchin Lytechinus pictus: A Genetically Enabled Model System for Cell Biology and Embryonic … | J Warner, et al. | Genome Biology Evolution | 2021 | April | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8085125/pdf/evab061.pdf | Echinoderm | Genome Assembly | Developmental Biology | Chicago, HiRise | |
| Three-dimensional genome organization maps in normal haematopoietic stem cells and acute myeloid leukemia B Wang, et al.BioRiv (pre-print), 2021, April | Three-dimensional genome organization maps in normal haematopoietic stem cells and acute myeloid leukemia | B Wang, et al. | BioRiv (pre-print) | 2021 | April | https://www.biorxiv.org/content/10.1101/2020.04.18.047738.abstract | Human | Genetic Analysis, Genome Assembly | Cancer | Hi-C | |
| Impact of male trait exaggeration on sex-biased gene expression and genome architecture in a water strider W Toubiana, et al.BMC Biology, 2021, April | Impact of male trait exaggeration on sex-biased gene expression and genome architecture in a water strider | W Toubiana, et al. | BMC Biology | 2021 | April | https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-021-01021-4 | Insect | Genome Assembly | Evolution, Gene Expression | Hi-C, HiRise | |
| De novo genome assembly of the raccoon dog (Nyctereutes procyonoides) LJ Chueca, et al.Frontiers in Genetics, 2021, April | De novo genome assembly of the raccoon dog (Nyctereutes procyonoides) | LJ Chueca, et al. | Frontiers in Genetics | 2021 | April | https://www.frontiersin.org/articles/10.3389/fgene.2021.658256/full?&utm_source=Email_to_authors_&utm_medium=Email&utm_content=T1_11.5e1_author&utm_campaign=Email_publication&field=&journalName=Frontiers_in_Genetics&id=658256 | Mammal | Genome Assembly | 3D Chromatin Topology | Omni-C | |
| Towards complete and error-free genome assemblies of all vertebrate species A Rhie, et al.Nature, 2021, April | Towards complete and error-free genome assemblies of all vertebrate species | A Rhie, et al. | Nature | 2021 | April | https://www.nature.com/articles/s41586-021-03451-0 | Multiple | Genome Assembly | 3D Chromatin Topology | Hi-C | |
| Chromosome-level de novo genome assemblies of over 100 plant species K Shirasawa, et al.Breed Science, 2021, April | Chromosome-level de novo genome assemblies of over 100 plant species | K Shirasawa, et al. | Breed Science | 2021 | April | https://www.jstage.jst.go.jp/article/jsbbs/71/2/71_20146/_article/-char/ja/ | Plant | Genome Assembly | 3D Chromatin Topology | Hi-C | |
| The absence of the caffeine synthase gene is involved in the naturally decaffeinated status of Coffea humblotiana, a wild species from Comoro archipelago N Raharimalala, et al.Scientific Reports, 2021, April | The absence of the caffeine synthase gene is involved in the naturally decaffeinated status of Coffea humblotiana, a wild species from Comoro archipelago | N Raharimalala, et al. | Scientific Reports | 2021 | April | https://www.nature.com/articles/s41598-021-87419-0 | Plant | Genome Assembly | Agricultural Biology | Hi-C | |
| Hazelnut genome and transcriptome analysis under biotic and abiotic stress K KahramanSabanci University (Dissertation), 2021, April | Hazelnut genome and transcriptome analysis under biotic and abiotic stress | K Kahraman | Sabanci University (Dissertation) | 2021 | April | https://research.sabanciuniv.edu/id/eprint/41419/ | Plant | Genome Assembly | 3D Chromatin Topology | Chicago | |
| Chromosome-Level Genome Assembly of the Common Chaffinch (Aves: Fringilla coelebs): A Valuable Resource for Evolutionary Biology M Recuerda, et al.Genome Biology and Evolution, 2021, April | Chromosome-Level Genome Assembly of the Common Chaffinch (Aves: Fringilla coelebs): A Valuable Resource for Evolutionary Biology | M Recuerda, et al. | Genome Biology and Evolution | 2021 | April | https://academic.oup.com/gbe/article-abstract/13/4/evab034/6146356 | Bird | Genome Assembly | Evolution | Chicago, HiRise | |
| A novel family of secreted insect proteins linked to plant gall development A Korgaonkar, et al.Current Biology, 2021, March | A novel family of secreted insect proteins linked to plant gall development | A Korgaonkar, et al. | Current Biology | 2021 | March | https://www.cell.com/current-biology/pdf/S0960-9822(21)00169-X.pdf | Insect | Genome Assembly | Gene Expression | Chicago, HiRise | |
| A chromosome-level genome assembly for the Pacific oyster Crassostrea gigas C Penaloza, et al.GigaScience, 2021, March | A chromosome-level genome assembly for the Pacific oyster Crassostrea gigas | C Penaloza, et al. | GigaScience | 2021 | March | https://academic.oup.com/gigascience/article-abstract/10/3/giab020/6187865 | Mollusc | Genome Assembly | Agricultural Biology, Evolution | Hi-C, HiRise | |
| To dry perchance to live: Insights from the genome of the desiccation-tolerant biocrust moss Syntrichia caninervis A Silva, et al.Plant Journal, 2021, March | To dry perchance to live: Insights from the genome of the desiccation-tolerant biocrust moss Syntrichia caninervis | A Silva, et al. | Plant Journal | 2021 | March | https://onlinelibrary.wiley.com/doi/10.1111/tpj.15116 | Moss | Genome Assembly | Evolution | Chicago, HiRise | |
| The chromosome-level genome of dragon fruit reveals whole-genome duplication and chromosomal co-localization of betacyanin biosynthetic genes J Zheng, et al.Horticulture Research, 2021, March | The chromosome-level genome of dragon fruit reveals whole-genome duplication and chromosomal co-localization of betacyanin biosynthetic genes | J Zheng, et al. | Horticulture Research | 2021 | March | https://academic.oup.com/hr/article-abstract/doi/10.1038/s41438-021-00501-6/6446640 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| A chromosome-level genome of a Kordofan melon illuminates the origin of domesticated watermelons SS Renner, et al.PNAS Biological Sciences, 2021, March | A chromosome-level genome of a Kordofan melon illuminates the origin of domesticated watermelons | SS Renner, et al. | PNAS Biological Sciences | 2021 | March | https://www.pnas.org/doi/abs/10.1073/pnas.2101486118 | Plant | Genome Assembly | Agricultural Biology, Evolution | Chicago, HiRise | |
| A chromosome-scale genome assembly of European hazel (Corylus avellana L.) reveals targets for crop improvement S Lucas, et al.Plant Journal, 2021, March | A chromosome-scale genome assembly of European hazel (Corylus avellana L.) reveals targets for crop improvement | S Lucas, et al. | Plant Journal | 2021 | March | https://onlinelibrary.wiley.com/doi/10.1111/tpj.15099 | Plant | Genome Assembly | Evolution, Agricultural Biology | Chicago | |
| A new emu genome illuminates the evolution of genome configuration and nuclear architecture of avian chromosomes J Liu, et al.Genome Research, 2021, March | A new emu genome illuminates the evolution of genome configuration and nuclear architecture of avian chromosomes | J Liu, et al. | Genome Research | 2021 | March | https://genome.cshlp.org/content/early/2021/01/05/gr.271569.120 | Bird | Genome Assembly | Evolution | Chicago, HiRise | |
| Rapture-ready darters: Choice of reference genome and genotyping method (whole-genome or sequence capture) influence population genomic inference in Etheostoma BN Reid, et al.Molecular Ecology Resources, 2021, February | Rapture-ready darters: Choice of reference genome and genotyping method (whole-genome or sequence capture) influence population genomic inference in Etheostoma | BN Reid, et al. | Molecular Ecology Resources | 2021 | February | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13275 | Fish | Genome Assembly | Evolution | Hi-C | |
| A novel canine reference genome resolves genomic architecture and uncovers transcript complexity C Wang, et al.Communications Biology, 2021, February | A novel canine reference genome resolves genomic architecture and uncovers transcript complexity | C Wang, et al. | Communications Biology | 2021 | February | https://www.nature.com/articles/s42003-021-01698-x | Mammal | Genome Assembly | 3D Chromatin Topology | Hi-C, HiRise | |
| Genome assembly and population genomic analysis provide insights into the evolution of modern sweet corn Y Hu, et al.Nature Communications, 2021, February | Genome assembly and population genomic analysis provide insights into the evolution of modern sweet corn | Y Hu, et al. | Nature Communications | 2021 | February | https://www.nature.com/articles/s41467-021-21380-4 | Plant | Genome Assembly | Agricultural Biology | Hi-C | |
| Genome assemblies for two Neotropical trees: Jacaranda copaia and Handroanthus guayacan JT Burley, et al.G3, 2021, February | Genome assemblies for two Neotropical trees: Jacaranda copaia and Handroanthus guayacan | JT Burley, et al. | G3 | 2021 | February | https://academic.oup.com/g3journal/article-abstract/11/2/jkab010/6121921 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| A Chromosome-Scale Quinoa Reference Genome Assembly B Li, et al.The Quinoa Genome, 2021, February | A Chromosome-Scale Quinoa Reference Genome Assembly | B Li, et al. | The Quinoa Genome | 2021 | February | https://link.springer.com/chapter/10.1007/978-3-030-65237-1_5 | Plant | Genome Assembly | 3D Chromatin Topology, Agricultural Biology | Chicago, HiRise | |
| Characterization of a pericentric inversion in plateau fence lizards (Sceloporus tristichus): evidence from chromosome-scale genomes AM Bedoya, et al.G3, 2021, February | Characterization of a pericentric inversion in plateau fence lizards (Sceloporus tristichus): evidence from chromosome-scale genomes | AM Bedoya, et al. | G3 | 2021 | February | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8022919/ | Reptile | Genome Assembly | Evolution | Chicago, HiRise | |
| Pigmentation genes show evidence of repeated divergence and multiple bouts of introgression in Setophaga warblers MD Baiz, et al.Cell, 2021, February | Pigmentation genes show evidence of repeated divergence and multiple bouts of introgression in Setophaga warblers | MD Baiz, et al. | Cell | 2021 | February | https://www.cell.com/current-biology/pdf/S0960-9822(20)31671-7.pdf | Bird | Genome Assembly | Evolution | Chicago, HiRise | |
| De novo assemblies of Luffa acutangula and Luffa cylindrica genomes reveal an expansion associated with substantial accumulation of transposable elements W Pootakham, et al.Molecular Ecology Resources, 2021, January | De novo assemblies of Luffa acutangula and Luffa cylindrica genomes reveal an expansion associated with substantial accumulation of transposable elements | W Pootakham, et al. | Molecular Ecology Resources | 2021 | January | https://onlinelibrary.wiley.com/doi/abs/10.1111/1755-0998.13240 | Plant | Genome Assembly | Evolution | Hi-C | |
| A chromosome-scale assembly of the black gram (Vigna mungo) genome W Pootakham, et al.Molecular Ecology Resources, 2021, January | A chromosome-scale assembly of the black gram (Vigna mungo) genome | W Pootakham, et al. | Molecular Ecology Resources | 2021 | January | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13243 | Plant | Genome Assembly | Agricultural Biology | Hi-C | |
| Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology SJ Lee, et al.Zoological Research, 2021, January | Chromosomal assembly of the Antarctic toothfish (Dissostichus mawsoni) genome using third-generation DNA sequencing and Hi-C technology | SJ Lee, et al. | Zoological Research | 2021 | January | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC7840457/ | Fish | Genome Assembly | 3D Chromatin Topology | Hi-C | |
| Chromosome-level reference genome of the European wasp spider Argiope bruennichi: a resource for studies on range expansion and evolutionary adaptation MM Sheffer, et al.GigaScience, 2021, January | Chromosome-level reference genome of the European wasp spider Argiope bruennichi: a resource for studies on range expansion and evolutionary adaptation | MM Sheffer, et al. | GigaScience | 2021 | January | https://academic.oup.com/gigascience/article-abstract/10/1/giaa148/6067174 | Insect | Genome Assembly | Evolution | Hi-C | |
| Hermetia illucens (Diptera Stratiomyidae): de novo genome assembly and molecular farming units for the production and delivery of anti-inflammatory peptides L Abenaim, et al.Genomes of Animals and Plants Virtual Conference, 2021, January | Hermetia illucens (Diptera Stratiomyidae): de novo genome assembly and molecular farming units for the production and delivery of anti-inflammatory peptides | L Abenaim, et al. | Genomes of Animals and Plants Virtual Conference | 2021 | January | https://arpi.unipi.it/handle/11568/1075287 | Insect | Genome Assembly | Agricultural Biology | Hi-C | |
| A chromosome-level genome assembly of the woolly apple aphid, Eriosoma lanigerum Hausmann (Hemiptera: Aphididae) R Biello, et al.Molecular Ecology Resources, 2021, January | A chromosome-level genome assembly of the woolly apple aphid, Eriosoma lanigerum Hausmann (Hemiptera: Aphididae) | R Biello, et al. | Molecular Ecology Resources | 2021 | January | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13258 | Insect | Genome Assembly | Evolution | Hi-C | |
| Platypus and echidna genomes reveal mammalian biology and evolution Y Zhou, et al.Nature, 2021, January | Platypus and echidna genomes reveal mammalian biology and evolution | Y Zhou, et al. | Nature | 2021 | January | https://www.nature.com/articles/s41586-020-03039-0). | Mammal | Genome Assembly | Evolution | Chicago | |
| Dynamic RNA regulation in the brain underlies physiological plasticity in a hibernating mammal R Fu, et al.Frontiers in Physiology, 2021, January | Dynamic RNA regulation in the brain underlies physiological plasticity in a hibernating mammal | R Fu, et al. | Frontiers in Physiology | 2021 | January | https://www.frontiersin.org/articles/10.3389/fphys.2020.624677/full?utm_source=dlvr.it&utm_medium=twitter | Mammal | Genome Assembly | Gene Expression | Chicago, HiRise | |
| Horseshoe crab genomes reveal the evolution of genes and microRNAs after three rounds of whole genome duplication W Nong, et al.Communications Biology, 2021, January | Horseshoe crab genomes reveal the evolution of genes and microRNAs after three rounds of whole genome duplication | W Nong, et al. | Communications Biology | 2021 | January | https://www.nature.com/articles/s42003-020-01637-2 | Marine Anthropod | Genome Assembly | Evolution | Chicago, HiRise | |
| A high-quality genome assembly and annotation of the gray mangrove, Avicennia marina G Friis, et al.G3, 2021, January | A high-quality genome assembly and annotation of the gray mangrove, Avicennia marina | G Friis, et al. | G3 | 2021 | January | https://academic.oup.com/g3journal/article-abstract/11/1/jkaa025/6026961 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Strain-specific genome evolution in Trypanosoma cruzi, the agent of Chagas disease W Wang, et al.PLOS Pathogens, 2021, January | Strain-specific genome evolution in Trypanosoma cruzi, the agent of Chagas disease | W Wang, et al. | PLOS Pathogens | 2021 | January | https://journals.plos.org/plospathogens/article?id=10.1371/journal.ppat.1009254 | Protozoan | Genome Assembly | Evolution | Chicago, HiRise | |
| Evidence of two deeply divergent co-existing mitochondrial genomes in the Tuatara reveals an extremely complex genomic organization JR Macey, et al.Communications Biology, 2021, January | Evidence of two deeply divergent co-existing mitochondrial genomes in the Tuatara reveals an extremely complex genomic organization | JR Macey, et al. | Communications Biology | 2021 | January | https://www.nature.com/articles/s42003-020-01639-0 | Reptile | Genome Assembly | 3D Chromatin Topology | Other | |
| Ecology shapes epistasis in a genotype-phenotype-fitness map for stick insect colour P Nosil, et al.Nature Ecology & Evolution, 2020, December | Ecology shapes epistasis in a genotype-phenotype-fitness map for stick insect colour | P Nosil, et al. | Nature Ecology & Evolution | 2020 | December | https://www.nature.com/articles/s41559-020-01305-y | Insects | Genome Assembly | Evolution | Chicago, Hi-C | |
| Origination, Monoclonality and Evolution of the Marbled Crayfish Genome Procambarus virginalis O MaiakovskaHeidelberg (Disssertation), 2020, December | Origination, Monoclonality and Evolution of the Marbled Crayfish Genome Procambarus virginalis | O Maiakovska | Heidelberg (Disssertation) | 2020 | December | https://archiv.ub.uni-heidelberg.de/volltextserver/29661/ | Crustacean | Genome Assembly | Evolution | Chicago | |
| The comparative genomic landscape of adaptive radiation in crater lake cichlid fishes P Xiong, et al.Molecular Ecology, 2020, December | The comparative genomic landscape of adaptive radiation in crater lake cichlid fishes | P Xiong, et al. | Molecular Ecology | 2020 | December | https://onlinelibrary.wiley.com/doi/abs/10.1111/mec.15774 | Fish | Genome Assembly | Evolution | Chicago, HiRise | |
| Genomics of the capybara, two emblematic Colombian species na, 2020, na | Genomics of the capybara, two emblematic Colombian species | na | 2020 | na | https://repositorio.uniandes.edu.co/handle/1992/45058 | Mammal | Genome Assembly | Evolution | Chicago | ||
| Accurate assembly of the olive baboon (Papio anubis) genome using long-read and Hi-C data SS Batra, et al.GigaScience, 2020, December | Accurate assembly of the olive baboon (Papio anubis) genome using long-read and Hi-C data | SS Batra, et al. | GigaScience | 2020 | December | https://academic.oup.com/gigascience/article-abstract/9/12/giaa134/6025063 | Mammal | Genome Assembly | 3D Chromatin Topology | Chicago | |
| Methods for Comparative Genome Analysis with Applications to Pan-Genomics and Genome Annotation Q LiangUniversity of California, Riverside (Dissertation), 2020, December | Methods for Comparative Genome Analysis with Applications to Pan-Genomics and Genome Annotation | Q Liang | University of California, Riverside (Dissertation) | 2020 | December | https://search.proquest.com/openview/16c9ef4fb353b4c64ff366833461518e/1?pq-origsite=gscholar&cbl=18750&diss=y | Multiple | Genome Assembly, Genetic Analysis | 3D Chromatin Topology | Chicago | |
| A chromosome-scale reference genome of trifoliate orange (Poncirus trifoliata) provides insights into disease resistance, cold tolerance and genome evolution in Citrus Z Peng, et al.Plant Journal, 2020, December | A chromosome-scale reference genome of trifoliate orange (Poncirus trifoliata) provides insights into disease resistance, cold tolerance and genome evolution in Citrus | Z Peng, et al. | Plant Journal | 2020 | December | https://onlinelibrary.wiley.com/doi/10.1111/tpj.14993 | Plant | Genome Assembly | Evolution, Agricultural Biology | Hi-C, HiRise | |
| Initiation and Maintenance of Temperature-Dependent Sex Determination in the Red-Eared Slider Turtle CJ WeberDuke University (Dissertation), 2020, na | Initiation and Maintenance of Temperature-Dependent Sex Determination in the Red-Eared Slider Turtle | CJ Weber | Duke University (Dissertation) | 2020 | na | https://search.proquest.com/openview/96cf26f002a4dfd9ae1b09a83239d5be/1?pq-origsite=gscholar&cbl=18750&diss=y | Reptile | Genome Assembly | Gene Expression | Chicago, HiRise | |
| Visualization Tools for Comparative Genomics applied to Convergent Evolution in Ash Trees J SeamanQueen Mary University of London (Dissertation), 2020, December | Visualization Tools for Comparative Genomics applied to Convergent Evolution in Ash Trees | J Seaman | Queen Mary University of London (Dissertation) | 2020 | December | https://qmro.qmul.ac.uk/xmlui/handle/123456789/82918 | Plant | Genome Assembly | Evolution | Hi-C | |
| How to make a rodent giant: genomic basis and tradeoffs of gigantism in the capybara, the world's largest rodent Molecular Biology and Evolution, 2020, November | How to make a rodent giant: genomic basis and tradeoffs of gigantism in the capybara, the world's largest rodent | Molecular Biology and Evolution | 2020 | November | https://academic.oup.com/mbe/article-abstract/38/5/1715/5970469 | Mammal | Genome Assembly | Cancer, Developmental Biology | Chicago, HiRise | ||
| A reference genome sequence for giant sequoia AD Scott, et al.G3, 2020, November | A reference genome sequence for giant sequoia | AD Scott, et al. | G3 | 2020 | November | https://academic.oup.com/g3journal/article-abstract/10/11/3907/6048618 | Plant | Genome Assembly | Gene Expression | Chicago, HiRise | |
| Dense sampling of bird diversity increases power of comparative genomics S Feng, et al.Nature, 2020, November | Dense sampling of bird diversity increases power of comparative genomics | S Feng, et al. | Nature | 2020 | November | https://www.nature.com/articles/s41586-020-2873-9 | Bird | Genome Assembly | Evolution | Hi-C | |
| Genome Analysis of Listeria monocytogenes and Melospiza melodia S LouhaUniversity of Georgia, 2020, November | Genome Analysis of Listeria monocytogenes and Melospiza melodia | S Louha | University of Georgia | 2020 | November | https://search.proquest.com/openview/87324da6280a06c3e9cea30fe8fb9d7f/1?pq-origsite=gscholar&cbl=18750&diss=y | Bird | Genetic Analysis | Agricultural Biology | Chicago | |
| Chromosome-level genome assembly of a benthic associated Syngnathiformes species: the common dragonet, Callionymus lyra S Winter, et al.GigaByte, 2020, October | Chromosome-level genome assembly of a benthic associated Syngnathiformes species: the common dragonet, Callionymus lyra | S Winter, et al. | GigaByte | 2020 | October | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC9631949/ | Fish | Genome Assembly | Evolution | Hi-C, HiRise | |
| Rapture-ready darters: sequence capture outperforms whole-genome data regardless of reference genome in Etheostoma BN Reid, et al.Molecular Ecology Resources, 2020, October | Rapture-ready darters: sequence capture outperforms whole-genome data regardless of reference genome in Etheostoma | BN Reid, et al. | Molecular Ecology Resources | 2020 | October | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13275 | Fish | Genome Assembly, Genetic Analysis | Evolution | Omni-C | |
| Pre-extinction demographic stability and genomic signatures of adaptation in the woolly rhinoceros E Lord, et al.Current Biology, 2020, October | Pre-extinction demographic stability and genomic signatures of adaptation in the woolly rhinoceros | E Lord, et al. | Current Biology | 2020 | October | https://www.cell.com/current-biology/pdf/S0960-9822(20)31071-X.pdf | Mammal | Genome Assembly | Evolution | HiRise | |
| Mapping the epigenomic and transcriptomic interplay during memory formation and recall in the hippocampal engram ensemble A Marco, et al.Nature Neuroscience, 2020, October | Mapping the epigenomic and transcriptomic interplay during memory formation and recall in the hippocampal engram ensemble | A Marco, et al. | Nature Neuroscience | 2020 | October | https://www.nature.com/articles/s41593-020-00717-0 | Mammal | Genome Assembly | Gene Expression | Chicago | |
| Reconstruction of ancient homeobox gene linkages inferred from a new high-quality assembly of the Hong Kong oyster (Magallana hongkongensis) genome Y Li, et al.BMC Genomics, 2020, October | Reconstruction of ancient homeobox gene linkages inferred from a new high-quality assembly of the Hong Kong oyster (Magallana hongkongensis) genome | Y Li, et al. | BMC Genomics | 2020 | October | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-020-07027-6 | Mollusc | Genome Assembly | Evolution | Chicago, HiRise | |
| Genome biology of the paleotetraploid perennial biomass crop Miscanthus T Mitros, et al.Nature Communications, 2020, October | Genome biology of the paleotetraploid perennial biomass crop Miscanthus | T Mitros, et al. | Nature Communications | 2020 | October | https://www.nature.com/articles/s41467-020-18923-6 | Plant | Genome Assembly | Agricultural Biology | HiRise | |
| Widespread recombination suppression facilitates plant sex chromosome evolution JL Rifkin, et al.Molecular Biology and Evolution, 2020, October | Widespread recombination suppression facilitates plant sex chromosome evolution | JL Rifkin, et al. | Molecular Biology and Evolution | 2020 | October | https://academic.oup.com/mbe/article-abstract/38/3/1018/5936534 | Plant | Genome Assembly | Gene Expression, Evolution | Chicago, HiRise | |
| The genome of Draba nivalis shows signatures of adaptation to the extreme environmental stresses of the Arctic MD Nowak, et al.Molecular Ecology Resources, 2020, October | The genome of Draba nivalis shows signatures of adaptation to the extreme environmental stresses of the Arctic | MD Nowak, et al. | Molecular Ecology Resources | 2020 | October | https://onlinelibrary.wiley.com/doi/abs/10.1111/1755-0998.13280 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| High-Quality Assemblies for Three Invasive Social Wasps from the Vespula Genus TWR Harrop, et al.G3, 2020, October | High-Quality Assemblies for Three Invasive Social Wasps from the Vespula Genus | TWR Harrop, et al. | G3 | 2020 | October | https://academic.oup.com/g3journal/article-abstract/10/10/3479/6053558 | Insect | Genome Assembly | Evolution | Chicago, HiRise | |
| Early vertebrate origin of CTCFL, a CTCF paralog, revealed by proximity-guided shark genome scaffolding M Kadota, et al.Nature Scientific Reports, 2020, September | Early vertebrate origin of CTCFL, a CTCF paralog, revealed by proximity-guided shark genome scaffolding | M Kadota, et al. | Nature Scientific Reports | 2020 | September | https://www.nature.com/articles/s41598-020-71602-w | Fish | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Chromosome-scale genome assemblies of aphids reveal extensively rearranged autosomes and long-term conservation of the X chromosome TC Mathers, et al.Molecular Biology and Evolution, 2020, September | Chromosome-scale genome assemblies of aphids reveal extensively rearranged autosomes and long-term conservation of the X chromosome | TC Mathers, et al. | Molecular Biology and Evolution | 2020 | September | https://academic.oup.com/mbe/article-abstract/38/3/856/5910553 | Insect | Genome Assembly | 3D Chromatin Topology | Chicago | |
| Nucleotide diversity of functionally different groups of immune response genes in Old World camels based on newly annotated and reference-guided assemblies S Lado, et al.BMC Genomics, 2020, September | Nucleotide diversity of functionally different groups of immune response genes in Old World camels based on newly annotated and reference-guided assemblies | S Lado, et al. | BMC Genomics | 2020 | September | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-020-06990-4 | Mammal | Genome Assembly | Evolution, Immunology | Chicago, HiRise | |
| Analysis of muntjac deer genome and chromatin architecture reveals rapid karyotype evolution AB Mudd, et al.Communications Biology, 2020, September | Analysis of muntjac deer genome and chromatin architecture reveals rapid karyotype evolution | AB Mudd, et al. | Communications Biology | 2020 | September | https://www.nature.com/articles/s42003-020-1096-9 | Mammal | Genome Assembly | 3D Chromatin Topology | Hi-C | |
| Millipede genomes reveal unique adaptations during myriapod evolution Z Qu, et al.PLOS Biology, 2020, September | Millipede genomes reveal unique adaptations during myriapod evolution | Z Qu, et al. | PLOS Biology | 2020 | September | https://journals.plos.org/plosbiology/article?id=10.1371/journal.pbio.3000636 | Anthropod | Genome Assembly | Gene Expression, Evolution | Chicago | |
| Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird-of-paradise V Peona, et al.Molecular Ecology Resources, 2020, September | Identifying the causes and consequences of assembly gaps using a multiplatform genome assembly of a bird-of-paradise | V Peona, et al. | Molecular Ecology Resources | 2020 | September | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13252 | Bird | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| The aphid X chromosome is a dangerous place for functionally important genes: diverse evolution of hemipteran genomes based on chromosome-level assemblies Y Li, et al.Molecular Biology and Evolution, 2020, August | The aphid X chromosome is a dangerous place for functionally important genes: diverse evolution of hemipteran genomes based on chromosome-level assemblies | Y Li, et al. | Molecular Biology and Evolution | 2020 | August | https://academic.oup.com/mbe/article-abstract/37/8/2357/5820017 | Insect | Genome Assembly | Evolution | Chicago | |
| Resource quality determines the evolution of resistance and its genetic basis KE Roberts, et al.Molecular Ecology, 2020, August | Resource quality determines the evolution of resistance and its genetic basis | KE Roberts, et al. | Molecular Ecology | 2020 | August | https://onlinelibrary.wiley.com/doi/abs/10.1111/mec.15621 | Insect | Genome Assembly | Immunology | Hi-C | |
| Advances in optical mapping for genomic research Y Yuan, et al.Computational and Structural Biotechnology Journal, 2020, August | Advances in optical mapping for genomic research | Y Yuan, et al. | Computational and Structural Biotechnology Journal | 2020 | August | https://www.sciencedirect.com/science/article/pii/S2001037020303500 | Other | Genome Assembly | 3D Chromatin Topology | Hi-C | |
| A high-contiguity Brassica nigra genome localizes active centromeres and defines the ancestral Brassica genome S Perumal, et al.Nature Plants, 2020, August | A high-contiguity Brassica nigra genome localizes active centromeres and defines the ancestral Brassica genome | S Perumal, et al. | Nature Plants | 2020 | August | https://www.nature.com/articles/s41477-020-0735-y | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Metagenomes of the Dominant Microbial Symbionts of Sponge Genus Cinachyrella Display Common Sulfur Metabolic and Quorum Sensing Functions. JV LopezNova Southeastern University (Dissertation), 2020, August | Metagenomes of the Dominant Microbial Symbionts of Sponge Genus Cinachyrella Display Common Sulfur Metabolic and Quorum Sensing Functions. | JV Lopez | Nova Southeastern University (Dissertation) | 2020 | August | https://nsuworks.nova.edu/hcas_etd_all/14/ | Sponge | Genome Assembly | Evolution | Chicago | |
| A new long-read dog assembly uncovers thousands of exons and functional elements missing in the previous reference C Wang, et al.Bioriv (pre-print), 2020, July | A new long-read dog assembly uncovers thousands of exons and functional elements missing in the previous reference | C Wang, et al. | Bioriv (pre-print) | 2020 | July | https://www.biorxiv.org/content/10.1101/2020.07.02.185108.abstract | Mammal | Genome Assembly | 3D Chromatin Topology | Hi-C | |
| Beaver and naked mole rat genomes reveal common paths to longevity X Zhou, et al.Cell Reports, 2020, July | Beaver and naked mole rat genomes reveal common paths to longevity | X Zhou, et al. | Cell Reports | 2020 | July | https://www.cell.com/cell-reports/pdf/S2211-1247(20)30930-X.pdf | Mammal | Genome Assembly | Gene Expression, Developmental Biology | Chicago, HiRise | |
| Chromosome-level de novo assembly of the pig-tailed macaque genome using linked-read sequencing and HiC proximity scaffolding M Roodgar, et al.GigaScience, 2020, July | Chromosome-level de novo assembly of the pig-tailed macaque genome using linked-read sequencing and HiC proximity scaffolding | M Roodgar, et al. | GigaScience | 2020 | July | https://academic.oup.com/gigascience/article-abstract/9/7/giaa069/5869769 | Mammal | Genome Assembly | Other Disease | Hi-C | |
| Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors SP Gordon, et al.Nature Communications, 2020, July | Gradual polyploid genome evolution revealed by pan-genomic analysis of Brachypodium hybridum and its diploid progenitors | SP Gordon, et al. | Nature Communications | 2020 | July | https://www.nature.com/articles/s41467-020-17302-5 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Chromosomal‐level reference genome of the incense tree Aquilaria sinensis W Nong, et al.Molecular Ecology Resources, 2020, July | Chromosomal‐level reference genome of the incense tree Aquilaria sinensis | W Nong, et al. | Molecular Ecology Resources | 2020 | July | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13154 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Tracing animal genomic evolution with the chromosomal-level assembly of the freshwater sponge Ephydatia muelleri NJ Kenny, et al.Nature Communications, 2020, July | Tracing animal genomic evolution with the chromosomal-level assembly of the freshwater sponge Ephydatia muelleri | NJ Kenny, et al. | Nature Communications | 2020 | July | https://www.nature.com/articles/s41467-020-17397-w | Sponge | Genome Assembly | Evolution | Chicago, HiRise | |
| Massive haplotypes underlie ecotypic differentiation in sunflowers M Todesco, et al.Nature, 2020, July | Massive haplotypes underlie ecotypic differentiation in sunflowers | M Todesco, et al. | Nature | 2020 | July | https://www.nature.com/articles/s41586-020-2467-6 | Plant | Genome Assembly | Evolution | Hi-C | |
| Population genomics of North American northern pike: variation and sex-specific signals from a chromosome-level, long read genome assembly HA Johnson, et al.BioRiv (pre-print), 2020, June | Population genomics of North American northern pike: variation and sex-specific signals from a chromosome-level, long read genome assembly | HA Johnson, et al. | BioRiv (pre-print) | 2020 | June | https://www.biorxiv.org/content/10.1101/2020.06.18.157701.abstract | Fish | Genome Assembly | Inherited Disease | Chicago, HiRise | |
| A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity TP Driscoll, et al.BMC Biology, 2020, June | A chromosome-level assembly of the cat flea genome uncovers rampant gene duplication and genome size plasticity | TP Driscoll, et al. | BMC Biology | 2020 | June | https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-020-00802-7 | Insect | Genome Assembly | Other Disease | Chicago, HiRise | |
| Interspecific gene flow and the evolution of specialization in black and white rhinoceros Y Moodley, et al.Molecular Biology and Evolution, 2020, June | Interspecific gene flow and the evolution of specialization in black and white rhinoceros | Y Moodley, et al. | Molecular Biology and Evolution | 2020 | June | https://academic.oup.com/mbe/article-abstract/37/11/3105/5862640 | Mammal | Genome Assembly | Evolution | Chicago | |
| The genome of North American beaver provides insights into the mechanisms of its longevity and cancer resistance Q Zhang, et al.BioRiv (pre-print), 2020, June | The genome of North American beaver provides insights into the mechanisms of its longevity and cancer resistance | Q Zhang, et al. | BioRiv (pre-print) | 2020 | June | https://www.biorxiv.org/content/10.1101/2020.06.25.171322.abstract | Mammal | Genome Assembly | Gene Expression | Chicago | |
| A robust benchmark for germline structural variant detection JM Zook, et al.Nature, 2020, June | A robust benchmark for germline structural variant detection | JM Zook, et al. | Nature | 2020 | June | https://www.nature.com/articles/s41587-020-0538-8 | Other | Genetic Analysis | 3D Chromatin Topology | Chicago, HiRise | |
| A genome assembly of the barley 'transformation reference'cultivar golden promise M Schreiber, et al.G3, 2020, June | A genome assembly of the barley 'transformation reference'cultivar golden promise | M Schreiber, et al. | G3 | 2020 | June | https://academic.oup.com/g3journal/article-abstract/10/6/1823/6026352 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Recombination Restriction, Degeneration and Population Divergence on Plant Sex Chromosomes F BeaudryUniversity of Toronto (Dissertation), 2020, June | Recombination Restriction, Degeneration and Population Divergence on Plant Sex Chromosomes | F Beaudry | University of Toronto (Dissertation) | 2020 | June | https://search.proquest.com/openview/012ae72d8c5a6b61392a408110784d5a/1?pq-origsite=gscholar&cbl=51922&diss=y | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Jellyfish genomes reveal distinct homeobox gene clusters and conservation of small RNA processing W Nong, et al.Nature, 2020, June | Jellyfish genomes reveal distinct homeobox gene clusters and conservation of small RNA processing | W Nong, et al. | Nature | 2020 | June | https://www.nature.com/articles/s41467-020-16801-9 | Cnidaria | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Recent hybrids recapitulate ancient hybrid outcomes S Chaturvedi, et al.Nature Communications, 2020, May | Recent hybrids recapitulate ancient hybrid outcomes | S Chaturvedi, et al. | Nature Communications | 2020 | May | https://www.nature.com/articles/s41467-020-15641-x | Insect | Genome Assembly | Evolution | Chicago, HiRise | |
| High-density Linkage Maps for European Hazelnut (Corylus avellana L.) from Single Nucleotide Polymorphism Markers and Mapping New Sources of Resistance to Eastern Filbert Blight G, Komaei KomaOregon State (Dissertation), 2020, May | High-density Linkage Maps for European Hazelnut (Corylus avellana L.) from Single Nucleotide Polymorphism Markers and Mapping New Sources of Resistance to Eastern Filbert Blight | G, Komaei Koma | Oregon State (Dissertation) | 2020 | May | https://ir.library.oregonstate.edu/concern/graduate_thesis_or_dissertations/1z40m100p | Plant | Genome Assembly | Evolution | Hi-C | |
| The Gossypium longicalyx Genome as a Resource for Cotton Breeding and Evolution CE Grover, et al.G3, 2020, May | The Gossypium longicalyx Genome as a Resource for Cotton Breeding and Evolution | CE Grover, et al. | G3 | 2020 | May | https://academic.oup.com/g3journal/article-abstract/10/5/1457/6026205 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| A Chromosome-Scale Assembly of the Garden Orach (Atriplex hortensis L.) Genome Using Oxford Nanopore Sequencing SP Hunt, et al.Frontiers in Plant Science, 2020, May | A Chromosome-Scale Assembly of the Garden Orach (Atriplex hortensis L.) Genome Using Oxford Nanopore Sequencing | SP Hunt, et al. | Frontiers in Plant Science | 2020 | May | https://www.frontiersin.org/articles/10.3389/fpls.2020.00624/full | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| High-quality chromosome-scale assembly of the walnut (Juglans regia L.) reference genome A Marrano, et al.GigaScience, 2020, May | High-quality chromosome-scale assembly of the walnut (Juglans regia L.) reference genome | A Marrano, et al. | GigaScience | 2020 | May | https://academic.oup.com/gigascience/article-abstract/9/5/giaa050/5841058 | Plant | Genome Assembly | Evolution | Hi-C | |
| Harnessing genomics to fast-track genetic improvement in aquaculture RD Houston, et al.Nature Reviews Genetics, 2020, April | Harnessing genomics to fast-track genetic improvement in aquaculture | RD Houston, et al. | Nature Reviews Genetics | 2020 | April | https://www.nature.com/articles/s41576-020-0227-y | Other | Genome Assembly | Agriculture | Hi-C | |
| Deeply conserved synteny resolves early events in vertebrate evolution O Simakov, et al.Nature Ecology & Evolution, 2020, April | Deeply conserved synteny resolves early events in vertebrate evolution | O Simakov, et al. | Nature Ecology & Evolution | 2020 | April | https://www.nature.com/articles/s41559-020-1156-z | Vertebrates | Genome Assembly | Developmental Biology, Evolution | Chicago, HiRise | |
| A High-Quality Genome Assembly of the North American Song Sparrow, Melospiza melodia S Louha, et al.G3, 2020, April | A High-Quality Genome Assembly of the North American Song Sparrow, Melospiza melodia | S Louha, et al. | G3 | 2020 | April | https://academic.oup.com/g3journal/article-abstract/10/4/1159/6026169 | Bird | Genome Assembly | Evolution | Chicago, HiRise | |
| An initial comparative genomic autopsy of wasting disease in sea stars DV Ruiz_Ramos, et al.Molecular Ecology, 2020, March | An initial comparative genomic autopsy of wasting disease in sea stars | DV Ruiz_Ramos, et al. | Molecular Ecology | 2020 | March | https://onlinelibrary.wiley.com/doi/abs/10.1111/mec.15386 | Echinoderm | Genome Assembly | Gene Expression, Conservation | Hi-C | |
| Anthoceros genomes illuminate the origin of land plants and the unique biology of hornworts FW Li, et al.Nature Plants, 2020, March | Anthoceros genomes illuminate the origin of land plants and the unique biology of hornworts | FW Li, et al. | Nature Plants | 2020 | March | https://www.nature.com/articles/s41477-020-0618-2 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Integrated Assembly and Annotation of Fathead Minnow Genome Towards Prediction of Environmentarl Exposures J MartinsonUniversity of Cincinnati (Dissertation), 2020, March | Integrated Assembly and Annotation of Fathead Minnow Genome Towards Prediction of Environmentarl Exposures | J Martinson | University of Cincinnati (Dissertation) | 2020 | March | https://search.proquest.com/openview/5760c75f03a0b3e4ed86d56ac5f54c6d/1?pq-origsite=gscholar&cbl=18750&diss=y | Fish | Genome Assembly | Gene Expression | Other | |
| Major stages of vertebrate adaptive radiation are assembled from a disparate spatiotemporal landscape EJ Richards, et al.BioRiv (pre-print), 2020, March | Major stages of vertebrate adaptive radiation are assembled from a disparate spatiotemporal landscape | EJ Richards, et al. | BioRiv (pre-print) | 2020 | March | https://www.biorxiv.org/content/10.1101/2020.03.12.988774.abstract | Fish | Genome Assembly | Evolution | Chicago | |
| Fine mapping and gene expression analysis of self-incompatibility in hazelnut RJ HillOregon State (Dissertation), 2020, March | Fine mapping and gene expression analysis of self-incompatibility in hazelnut | RJ Hill | Oregon State (Dissertation) | 2020 | March | https://ir.library.oregonstate.edu/concern/graduate_thesis_or_dissertations/jq085s452 | Plant | Genome Assembly | Agricultural Biology, Gene Expression | Hi-C | |
| Exploitation of Hi-C sequencing for improvement of genome assembly and in-vitro validation of differentially expressing genes in Jatropha curcas L. S Jalali, et al.3 Biotech, 2020, March | Exploitation of Hi-C sequencing for improvement of genome assembly and in-vitro validation of differentially expressing genes in Jatropha curcas L. | S Jalali, et al. | 3 Biotech | 2020 | March | https://link.springer.com/article/10.1007/s13205-020-2082-0 | Plant | Genome Assembly | Gene Expression | Hi-C | |
| The giant sequoia genome and proliferation of disease resistance genes AD Scott, et al.BioRiv (pre-print), 2020, March | The giant sequoia genome and proliferation of disease resistance genes | AD Scott, et al. | BioRiv (pre-print) | 2020 | March | https://www.biorxiv.org/content/10.1101/2020.03.17.995944.abstract | Plant | Genome Assembly | Gene Expression | Chicago, HiRise | |
| Long-read sequencing for de novo genome assembly in bioeconomic context A VogelETH Zurich (Dissertation), 2020, March | Long-read sequencing for de novo genome assembly in bioeconomic context | A Vogel | ETH Zurich (Dissertation) | 2020 | March | http://publications.rwth-aachen.de/record/819248/files/819248.pdf | Plant | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Genomics and Population History of Black-headed Bulbul (Brachypodius atriceps) Color Morphs SB ShakyaLouisiana State University, 2020, March | Genomics and Population History of Black-headed Bulbul (Brachypodius atriceps) Color Morphs | SB Shakya | Louisiana State University | 2020 | March | https://search.proquest.com/openview/45bae8a80b1f787cdc40862e810960a1/1?pq-origsite=gscholar&cbl=18750&diss=y | Bird | Genome Assembly | Evolution | Chicago, HiRise | |
| Holocentric plants of the genus Rhynchospora as a new model to study meiotic adaptations to chromosomal structural rearrangements M CastellaniUniversity of Cologne (Dissertation), 2020, March | Holocentric plants of the genus Rhynchospora as a new model to study meiotic adaptations to chromosomal structural rearrangements | M Castellani | University of Cologne (Dissertation) | 2020 | March | https://kups.ub.uni-koeln.de/71145/1/Marco%20Castellani%20PhD%20Dissertation%2030-8-2023.pdf | Plant | Genome Assembly | Conservation | Omni-C | |
| Genome Assembly and Analysis of the North American Mountain Goat (Oreamnos americanus) Reveals Species-Level Responses to Extreme Environments D Martchenko, et al.G3, 2020, February | Genome Assembly and Analysis of the North American Mountain Goat (Oreamnos americanus) Reveals Species-Level Responses to Extreme Environments | D Martchenko, et al. | G3 | 2020 | February | https://academic.oup.com/g3journal/article-abstract/10/2/437/6026217 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| Chromosome-Level Assembly of the Caenorhabditis remanei Genome Reveals Conserved Patterns of Nematode Genome Organization AA Teterina, et al.Genetics, 2020, February | Chromosome-Level Assembly of the Caenorhabditis remanei Genome Reveals Conserved Patterns of Nematode Genome Organization | AA Teterina, et al. | Genetics | 2020 | February | https://academic.oup.com/genetics/article-abstract/214/4/769/5930520 | Nematode | Genome Assembly | 3D Chromatin Topology | Hi-C, HiRise | |
| Fine Mapping of Lr49 Using 90K SNP Chip Array and Flow-Sorted Chromosome Sequencing in Wheat V Nsabiyera, et al.Frontiers in Plant Science, 2020, February | Fine Mapping of Lr49 Using 90K SNP Chip Array and Flow-Sorted Chromosome Sequencing in Wheat | V Nsabiyera, et al. | Frontiers in Plant Science | 2020 | February | https://www.frontiersin.org/articles/10.3389/fpls.2019.01787/full | Plant | Genome Assembly | Agricultural Biology | Hi-C | |
| High contiguity long read assembly of Brassica nigra allows localization of active centromeres and provides insights into the ancestral Brassica genome S Perumal, et al.BioRiv (pre-print), 2020, February | High contiguity long read assembly of Brassica nigra allows localization of active centromeres and provides insights into the ancestral Brassica genome | S Perumal, et al. | BioRiv (pre-print) | 2020 | February | https://www.biorxiv.org/content/10.1101/2020.02.03.932665.abstract | Plant | Genome Assembly | Agricultural Biology, Evolution | Chicago, HiRise | |
| Discovery of a new TLR gene and gene expansion event through improved desert tortoise genome assembly with chromosome-scale scaffolds GA Dolby, et al.Genome Biology and Evolution, 2020, February | Discovery of a new TLR gene and gene expansion event through improved desert tortoise genome assembly with chromosome-scale scaffolds | GA Dolby, et al. | Genome Biology and Evolution | 2020 | February | https://academic.oup.com/gbe/article-abstract/12/2/3917/5721360 | Reptile | Genome Assembly | Evolution, Gene Expression | Chicago, HiRise | |
| Evolutionary dynamics of recent selection on cognitive abilities SE Miller, et al.PNAS Biological Sciences, 2020, January | Evolutionary dynamics of recent selection on cognitive abilities | SE Miller, et al. | PNAS Biological Sciences | 2020 | January | https://www.pnas.org/doi/abs/10.1073/pnas.1918592117 | Insect | Genome Assembly | Evolution | Other | |
| Comparative Genomic Analysis of the Pheromone Receptor Class 1 Family (V1R) Reveals Extreme Complexity in Mouse Lemurs (Genus, Microcebus) and a Chromosomal Hotspot across Mammals K Hunnicutt, et al.Genome Biology Evolution, 2020, January | Comparative Genomic Analysis of the Pheromone Receptor Class 1 Family (V1R) Reveals Extreme Complexity in Mouse Lemurs (Genus, Microcebus) and a Chromosomal Hotspot across Mammals | K Hunnicutt, et al. | Genome Biology Evolution | 2020 | January | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6944220 | Mammal | Genome Assembly | Evolution | Hi-C | |
| Long live the king: chromosome-level assembly of the lion (Panthera leo) using linked-read, Hi-C, and long-read data EE Armstrong, et al.BMC Biology, 2020, January | Long live the king: chromosome-level assembly of the lion (Panthera leo) using linked-read, Hi-C, and long-read data | EE Armstrong, et al. | BMC Biology | 2020 | January | https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-019-0734-5 | Mammal | Genome Assembly | Evolution | Hi-C | |
| The Indian cobra reference genome and transcriptome enables comprehensive identification of venom toxins K Suryamohan, et al.Nature Genetics, 2020, January | The Indian cobra reference genome and transcriptome enables comprehensive identification of venom toxins | K Suryamohan, et al. | Nature Genetics | 2020 | January | https://www.nature.com/articles/s41588-019-0559-8 | Reptile | Genome Assembly | Other Disease | Chicago | |
| A High-Quality Reference Genome Assembly of the Saltwater Crocodile, Crocodylus porosus, Reveals Patterns of Selection in Crocodylidae A Ghosh, et al.Genome Biology and Evolution, 2020, January | A High-Quality Reference Genome Assembly of the Saltwater Crocodile, Crocodylus porosus, Reveals Patterns of Selection in Crocodylidae | A Ghosh, et al. | Genome Biology and Evolution | 2020 | January | https://academic.oup.com/gbe/article-abstract/12/1/3635/5671701 | Reptile | Genome Assembly | Evolution | Chicago, HiRise | |
| Multifaceted Hi-C benchmarking: what makes a difference in chromosome-scale genome scaffolding? M Kadota, et al.GigaScience, 2020, January | Multifaceted Hi-C benchmarking: what makes a difference in chromosome-scale genome scaffolding? | M Kadota, et al. | GigaScience | 2020 | January | https://academic.oup.com/gigascience/article-abstract/9/1/giz158/5695848 | Reptile | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Developing Approaches that Leverage Next Generation Sequencing to Study Broad Biological Problems N HalesThe University of Texas at Arlington (Dissertation), 2019, December | Developing Approaches that Leverage Next Generation Sequencing to Study Broad Biological Problems | N Hales | The University of Texas at Arlington (Dissertation) | 2019 | December | https://search.proquest.com/openview/f356fe689ca671298eddf96962712afd/1?pq-origsite=gscholar&cbl=18750&diss=y | Crustacean | Genome Assembly | Gene Expression | Chicago, HiRise | |
| The mitochondrial transcriptome of the anglerfish Lophius piscatorius A Dubin, et al.BMC Research Notes, 2019, December | The mitochondrial transcriptome of the anglerfish Lophius piscatorius | A Dubin, et al. | BMC Research Notes | 2019 | December | https://link.springer.com/article/10.1186/s13104-019-4835-6 | Fish | Genome Assembly | Gene Expression | Chicago | |
| Exploration of an anglerfish genome A DubinNord Universitry (Dissertation), 2019, na | Exploration of an anglerfish genome | A Dubin | Nord Universitry (Dissertation) | 2019 | na | https://nordopen.nord.no/nord-xmlui/handle/11250/2687015 | Fish | Genome Assembly | Evolution | Chicago, HiRise | |
| Dichotomy of dosage compensation along the neo Z chromosome of the monarch butterfly L Gu, et al.Current Biology, 2019, December | Dichotomy of dosage compensation along the neo Z chromosome of the monarch butterfly | L Gu, et al. | Current Biology | 2019 | December | https://www.cell.com/current-biology/pdf/S0960-9822(19)31247-3.pdf | Insect | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Genetic variation drives seasonal onset of hibernation in the 13-lined ground squirrel KR Grabek, et al.Communications Biology, 2019, December | Genetic variation drives seasonal onset of hibernation in the 13-lined ground squirrel | KR Grabek, et al. | Communications Biology | 2019 | December | https://www.nature.com/articles/s42003-019-0719-5 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| Symbiotic organs shaped by distinct modes of genome evolution in cephalopods P MinxProceedings of the National Academy of Sciences of the United States of America, 2019, na | Symbiotic organs shaped by distinct modes of genome evolution in cephalopods | P Minx | Proceedings of the National Academy of Sciences of the United States of America | 2019 | na | https://digitalcommons.wustl.edu/open_access_pubs/7508/ | Mollusc | Genome Assembly | Evolution | Chicago | |
| Developing and Applying Chromatin Proximity Ligation Methods BL O'ConnellUniversity of California, Santa Cruz (Dissertation), 2019, December | Developing and Applying Chromatin Proximity Ligation Methods | BL O'Connell | University of California, Santa Cruz (Dissertation) | 2019 | December | https://search.proquest.com/openview/3ad6025981b05bd6047f31ad22b1cf7f/1?pq-origsite=gscholar&cbl=18750 | Multiple | Genome Assembly | 3D Chromatin Topology | Other | |
| SHR4z, a novel decoy effector from the haustorium of the parasitic weed Striga gesnerioides, suppresses host plant immunity C Su, et al.New Phytologist, 2019, December | SHR4z, a novel decoy effector from the haustorium of the parasitic weed Striga gesnerioides, suppresses host plant immunity | C Su, et al. | New Phytologist | 2019 | December | https://nph.onlinelibrary.wiley.com/doi/abs/10.1111/nph.16351 | Plant | Genome Assembly | Agricultural Biology | Service | |
| Sequencing and Annotation of Diploid Oat Genomes and the Investigation of Avena-Specific Nutrients RN WalsteadUniversity of North Carolina (Dissertation), 2019, na | Sequencing and Annotation of Diploid Oat Genomes and the Investigation of Avena-Specific Nutrients | RN Walstead | University of North Carolina (Dissertation) | 2019 | na | https://search.proquest.com/openview/8fea6ddd6444ed862480684e12a1be70/1?pq-origsite=gscholar&cbl=18750&diss=y | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| The mating dynamics and population genetics of the American alligator (alligator mississippiensis) J ZajdelNorth Carolina State University (Dissertation), 2019, na | The mating dynamics and population genetics of the American alligator (alligator mississippiensis) | J Zajdel | North Carolina State University (Dissertation) | 2019 | na | http://getd.libs.uga.edu/pdfs/zajdel_joshua_201905_ms.pdf | Reptile | Genome Assembly | Evolution | Chicago | |
| Leveraging the Dynamic Repeat Element Landscape of Squamate Reptile Genomes to Understand Broad Patterns of Vertebrate Genome Evolution and … GIM PasquesiThe University of Texas at Arlington (Dissertation), 2019, December | Leveraging the Dynamic Repeat Element Landscape of Squamate Reptile Genomes to Understand Broad Patterns of Vertebrate Genome Evolution and … | GIM Pasquesi | The University of Texas at Arlington (Dissertation) | 2019 | December | https://www.proquest.com/openview/e68d62f1a30a115fbf5054f79f777326/1?pq-origsite=gscholar&cbl=18750&diss=y | Reptile | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| A Highly Contiguous Reference Genome for Northern Bobwhite (Colinus virginianus) JF Salter, et al.G3, 2019, December | A Highly Contiguous Reference Genome for Northern Bobwhite (Colinus virginianus) | JF Salter, et al. | G3 | 2019 | December | https://academic.oup.com/g3journal/article-abstract/9/12/3929/6028128 | Bird | Genome Assembly | Evolution | Chicago, HiRise | |
| Genome Report: A highly contiguous reference genome for Northern Bobwhite (Colinus virginianus) JF Salter, et al.G3, 2019, December | Genome Report: A highly contiguous reference genome for Northern Bobwhite (Colinus virginianus) | JF Salter, et al. | G3 | 2019 | December | https://academic.oup.com/g3journal/article/9/12/3929/6028128 | Bird | Genome Assembly | Evolution | Chicago, HiRise | |
| Multiple facets of marine invertebrate conservation genomics JV Lopez, et al.Annual Review of Animal Biosciences, 2019, November | Multiple facets of marine invertebrate conservation genomics | JV Lopez, et al. | Annual Review of Animal Biosciences | 2019 | November | https://www.annualreviews.org/doi/abs/10.1146/annurev-animal-020518-115034 | Marine Invertebrate | Genome Assembly | Evolution, Conservation | Chicago | |
| Sex-dependent dominance maintains migration supergene in rainbow trout DE Pearse, et al.Nature, 2019, November | Sex-dependent dominance maintains migration supergene in rainbow trout | DE Pearse, et al. | Nature | 2019 | November | https://www.nature.com/articles/s41559-019-1044-6 | Fish | Genome Assembly | Evolution | Chicago | |
| Assembly, annotation, and comparison of Macrophomina phaseolina isolates from strawberry and other hosts AK Burkhardt, et al.BMC Genomics, 2019, November | Assembly, annotation, and comparison of Macrophomina phaseolina isolates from strawberry and other hosts | AK Burkhardt, et al. | BMC Genomics | 2019 | November | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-019-6168-1 | Fungi | Genome Assembly | Agricultural Biology | Chicago | |
| Genome Assembly of the Dogface Butterfly Zerene cesonia L Rodriguez-Caro, et al.Genome Biology Evolution, 2019, November | Genome Assembly of the Dogface Butterfly Zerene cesonia | L Rodriguez-Caro, et al. | Genome Biology Evolution | 2019 | November | https://academic.oup.com/gbe/article-abstract/12/1/3580/5637758 | Insect | Genome Assembly | Evolution | Chicago, HiRise | |
| Towards an adaptive and genomic understanding of an exaggerated secondary sexual trait in water striders W ToubianaUniversity of Lyon (Dissertation), 2019, November | Towards an adaptive and genomic understanding of an exaggerated secondary sexual trait in water striders | W Toubiana | University of Lyon (Dissertation) | 2019 | November | https://theses.hal.science/tel-02360159/ | Insect | Genome Assembly | Evolution, Gene Expression | Omni-C | |
| Genomic insights from the first chromosome-scale assemblies of oat (Avena spp.) diploid species PJ Maughan, et al.BMC Biology, 2019, November | Genomic insights from the first chromosome-scale assemblies of oat (Avena spp.) diploid species | PJ Maughan, et al. | BMC Biology | 2019 | November | https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-019-0712-y | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Complete loss of the MHC II pathway in an anglerfish, Lophius piscatorius A Dubin, et al.Biology Letters, 2019, October | Complete loss of the MHC II pathway in an anglerfish, Lophius piscatorius | A Dubin, et al. | Biology Letters | 2019 | October | https://royalsocietypublishing.org/doi/abs/10.1098/rsbl.2019.0594 | Fish | Genome Assembly | Evolution | Service | |
| High quality genome sequence reveals the 12 pseudo-chromosomes of Ganoderma boninense C Utomo, et al.BioRiv (pre-print), 2019, October | High quality genome sequence reveals the 12 pseudo-chromosomes of Ganoderma boninense | C Utomo, et al. | BioRiv (pre-print) | 2019 | October | https://www.biorxiv.org/content/10.1101/817510.abstract | Fungi | Genome Assembly | Agricultural Biology, Evolution | Chicago, HiRise | |
| Gene family evolution in the pea aphid based on chromosome-level genome assembly Y Li, et al.Molecular Biology and Evolution, 2019, October | Gene family evolution in the pea aphid based on chromosome-level genome assembly | Y Li, et al. | Molecular Biology and Evolution | 2019 | October | https://academic.oup.com/mbe/article-abstract/36/10/2143/5512494 | Insect | Genome Assembly | Evolution | Chicago, HiRise | |
| Tissue collection of bats for-omics analyses and primary cell culture LR Yohe, et al.Journal of Visualized Experiments, 2019, October | Tissue collection of bats for-omics analyses and primary cell culture | LR Yohe, et al. | Journal of Visualized Experiments | 2019 | October | https://www.jove.com/t/59505/tissue-collection-of-bats-for-omics-analyses-and-primary-cell-culture | Mammal | Genetic Analysis, Genome Assembly | Stem Cell Research | Omni-C | |
| De Novo Genome Sequence Assemblies of Gossypium raimondii and Gossypium turneri JA Udall, et al.G3, 2019, October | De Novo Genome Sequence Assemblies of Gossypium raimondii and Gossypium turneri | JA Udall, et al. | G3 | 2019 | October | https://academic.oup.com/g3journal/article-abstract/9/10/3079/6026707 | Plant | Genome Assembly | Evolution | Hi-C | |
| Next generation genomics for improved disease resistance in bread wheat. C MarchalUniversity of East Anglia (Dissertation), 2019, October | Next generation genomics for improved disease resistance in bread wheat. | C Marchal | University of East Anglia (Dissertation) | 2019 | October | https://ueaeprints.uea.ac.uk/id/eprint/89220/ | Plant | Genome Assembly | Immunology, Agricultural Biology | Chicago | |
| Muntjac chromosome evolution and architecture AB Mudd, et al.BioRiv (pre-print), 2019, September | Muntjac chromosome evolution and architecture | AB Mudd, et al. | BioRiv (pre-print) | 2019 | September | https://www.biorxiv.org/content/10.1101/772343.abstract | Mammal | Genome Assembly | Evolution | Hi-C | |
| Haplotype-resolved genomes of geminivirus-resistant and geminivirus-susceptible African cassava cultivars JE Kuon, et al.BMC Biology, 2019, September | Haplotype-resolved genomes of geminivirus-resistant and geminivirus-susceptible African cassava cultivars | JE Kuon, et al. | BMC Biology | 2019 | September | https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-019-0697-6 | Plant | Genome Assembly | Agricultural Biology | Hi-C, HiRise | |
| An improved de novo assembly and annotation of the tomato reference genome using single-molecule sequencing, Hi-C proximity ligation and optical maps PS Hosmani, et al.BioRiv (pre-print), 2019, September | An improved de novo assembly and annotation of the tomato reference genome using single-molecule sequencing, Hi-C proximity ligation and optical maps | PS Hosmani, et al. | BioRiv (pre-print) | 2019 | September | https://www.biorxiv.org/content/10.1101/767764.abstract | Plant | Genome Assembly | 3D Chromatin Topology, Agricultural Biology | Hi-C, HiRise | |
| Tools and strategies for long-read sequencing and de novo assembly of plant genomes H Jung, et alTrends in Plant Science, 2019, August | Tools and strategies for long-read sequencing and de novo assembly of plant genomes | H Jung, et al | Trends in Plant Science | 2019 | August | https://www.cell.com/trends/plant-science/fulltext/S1360-1385(19)30121-9 | Plant | Genome Assembly | Genetic Analysis | Omni-C | |
| Conservation genomic analysis reveals ancient introgression and declining levels of genetic diversity in Madagascar's hibernating dwarf lemurs RC Williams, et al.Nature Heredity, 2019, August | Conservation genomic analysis reveals ancient introgression and declining levels of genetic diversity in Madagascar's hibernating dwarf lemurs | RC Williams, et al. | Nature Heredity | 2019 | August | https://www.nature.com/articles/s41437-019-0260-9 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| Contemporary demographic reconstruction methods are robust to genome assembly quality: a case study in Tasmanian devils AH Patton, et al.Molecular Biology and Evolution, 2019, August | Contemporary demographic reconstruction methods are robust to genome assembly quality: a case study in Tasmanian devils | AH Patton, et al. | Molecular Biology and Evolution | 2019 | August | https://academic.oup.com/mbe/article/36/12/2906/5551343 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| Integrating Hi-C links with assembly graphs for chromosome-scale assembly J Ghurye, et al.PLOS Computational Biology, 2019, August | Integrating Hi-C links with assembly graphs for chromosome-scale assembly | J Ghurye, et al. | PLOS Computational Biology | 2019 | August | https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1007273 | Other | Genome Assembly, Genetic Analysis | 3D Chromatin Topology | Chicago | |
| De Novo Genome Sequence Assembly of Dwarf Coconut (Cocos nucifera L. 'Catigan Green Dwarf') Provides Insights into Genomic Variation Between Coconut Types and Related Palm Species D Lantican, et al.G3, 2019, August | De Novo Genome Sequence Assembly of Dwarf Coconut (Cocos nucifera L. 'Catigan Green Dwarf') Provides Insights into Genomic Variation Between Coconut Types and Related Palm Species | D Lantican, et al. | G3 | 2019 | August | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC6686914/ | Plant | Genome Assembly | Evolution, Agricultural Biology | Chicago, HiRise | |
| The Komodo dragon (Varanus komodoensis) genome and identification of innate immunity genes and clusters ML van Hoek, et al.BMC Genomics, 2019, August | The Komodo dragon (Varanus komodoensis) genome and identification of innate immunity genes and clusters | ML van Hoek, et al. | BMC Genomics | 2019 | August | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-019-6029-y | Reptile | Genome Assembly | Evolution | Chicago, HiRise | |
| The Caribou (Rangifer tarandus) Genome RS Taylor, et al.Genes, 2019, July | The Caribou (Rangifer tarandus) Genome | RS Taylor, et al. | Genes | 2019 | July | https://www.mdpi.com/2073-4425/10/7/540 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| An integrated chromosome-scale genome assembly of the Masai giraffe (Giraffa camelopardalis tippelskirchi) GigaScience, 2019, July | An integrated chromosome-scale genome assembly of the Masai giraffe (Giraffa camelopardalis tippelskirchi) | GigaScience | 2019 | July | https://academic.oup.com/gigascience/article-abstract/8/8/giz090/5542321 | Mammal | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | ||
| A draft genome for Spatholobus suberectus S Qin, et al.Scientific Data, 2019, July | A draft genome for Spatholobus suberectus | S Qin, et al. | Scientific Data | 2019 | July | https://www.nature.com/articles/s41597-019-0110-x | Plant | Genome Assembly | Agricultural Biology | Hi-C, HiRise | |
| A high-quality genome of Eragrostis curvula grass provides insights into Poaceae evolution and supports new strategies to enhance forage quality J Carballo, et al.Scientific Reports, 2019, July | A high-quality genome of Eragrostis curvula grass provides insights into Poaceae evolution and supports new strategies to enhance forage quality | J Carballo, et al. | Scientific Reports | 2019 | July | https://www.nature.com/articles/s41598-019-46610-0 | Plant | Genetic Analysis, Genome Assembly | Agricultural Biology, Evolution | Chicago, Selva | |
| Whole-Genome Assembly of Atriplex hortensis L. Using OxfordNanopore Technology with Chromatin-Contact Mapping SP HuntBrigham Young University (Dissertation), 2019, July | Whole-Genome Assembly of Atriplex hortensis L. Using OxfordNanopore Technology with Chromatin-Contact Mapping | SP Hunt | Brigham Young University (Dissertation) | 2019 | July | https://search.proquest.com/openview/039884ae5a9a6aa03e94a76ba4be3839/1?pq-origsite=gscholar&cbl=51922&diss=y | Plant | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Improving Illumina assemblies with Hi-C and long reads: An example with the North African dromedary J Elbers, et al.Molecular Ecology Resources, 2019, July | Improving Illumina assemblies with Hi-C and long reads: An example with the North African dromedary | J Elbers, et al. | Molecular Ecology Resources | 2019 | July | https://onlinelibrary.wiley.com/doi/10.1111/1755-0998.13020 | Mammal | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| The genomic basis of evolved virus resistance is dependent on environmental resources K Roberts, et al.BioRiv (pre-print), 2019, June | The genomic basis of evolved virus resistance is dependent on environmental resources | K Roberts, et al. | BioRiv (pre-print) | 2019 | June | https://www.biorxiv.org/content/10.1101/666404.abstract | Insect | Genome Assembly | Immunology | Chicago | |
| Aquatic adaptation and depleted diversity: a deep dive into the genomes of the sea otter and giant otter AC Beichman, et al.Molecular Biology and Evolution, 2019, June | Aquatic adaptation and depleted diversity: a deep dive into the genomes of the sea otter and giant otter | AC Beichman, et al. | Molecular Biology and Evolution | 2019 | June | https://academic.oup.com/mbe/article-abstract/36/12/2631/5481008 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| Chromosome-Level Alpaca Reference Genome VicPac3.1 Improves Genomic Insight Into the Biology of New World Camelids MF Richardson, et al.Frontiers in Genetics, 2019, June | Chromosome-Level Alpaca Reference Genome VicPac3.1 Improves Genomic Insight Into the Biology of New World Camelids | MF Richardson, et al. | Frontiers in Genetics | 2019 | June | https://www.frontiersin.org/articles/10.3389/fgene.2019.00586/full | Mammal | Genome Assembly | Evolution | Chicago | |
| Modern technologies and algorithms for scaffolding assembled genomes J Ghurye, et al.PLOS Computational Biology, 2019, June | Modern technologies and algorithms for scaffolding assembled genomes | J Ghurye, et al. | PLOS Computational Biology | 2019 | June | https://journals.plos.org/ploscompbiol/article?id=10.1371/journal.pcbi.1006994 | Other | Genome Assembly | 3D Chromatin Topology | Chicago | |
| Genomic signatures of heterokaryosis in the oomycete pathogen Bremia lactucae K Fletcher, et al.Nature Communications, 2019, June | Genomic signatures of heterokaryosis in the oomycete pathogen Bremia lactucae | K Fletcher, et al. | Nature Communications | 2019 | June | https://www.nature.com/articles/s41467-019-10550-0 | Pathogen | Genome Assembly | Evolution | Hi-C, HiRise | |
| Emerging genomic applications in mammalian ecology, evolution, and conservation PA Larsen, et al.Journal of Mammalogy, 2019, May | Emerging genomic applications in mammalian ecology, evolution, and conservation | PA Larsen, et al. | Journal of Mammalogy | 2019 | May | https://academic.oup.com/jmammal/article-abstract/100/3/786/5498016 | Mammal | Genome Assembly | Evolution | Hi-C | |
| Genomic and genetic resource for soybean disease resistance improvement Q LiuUniversity of Illinois (Dissertation), 2019, April | Genomic and genetic resource for soybean disease resistance improvement | Q Liu | University of Illinois (Dissertation) | 2019 | April | https://core.ac.uk/download/pdf/227472325.pdf | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| The origins and evolution of chromosomes, dosage compensation, and mechanisms underlying venom regulation in snakes DR Schield, et al.Genome Research, 2019, April | The origins and evolution of chromosomes, dosage compensation, and mechanisms underlying venom regulation in snakes | DR Schield, et al. | Genome Research | 2019 | April | https://genome.cshlp.org/content/29/4/590.short | Reptile | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Rapid and repeatable local adaptation in the global invader Ambrosia artemisiifolia LA van BoheemenMonash University (Dissertation), 2019, March | Rapid and repeatable local adaptation in the global invader Ambrosia artemisiifolia | LA van Boheemen | Monash University (Dissertation) | 2019 | March | https://scholar.archive.org/work/i57w5isbkfgstfceznrew5pbfa/access/wayback/https://au-east.erc.monash.edu.au/fpfiles/14566160/L35Thesis_190111_notrackchanges_Redacted.pdf | Plant | Genome Assembly | Evolution | Chicago | |
| Technological advances in maize breeding: past, present and future C Andorf, et al.Theoretical and Applied Genetics, 2019, March | Technological advances in maize breeding: past, present and future | C Andorf, et al. | Theoretical and Applied Genetics | 2019 | March | https://link.springer.com/article/10.1007/s00122-019-03306-3 | Plant | Genome Assembly | Agricultural Biology, Evolution | Chicago | |
| A High-quality Reference Genome of Wild Soybean M Xie, et al.Nature Communications, 2019, March | A High-quality Reference Genome of Wild Soybean | M Xie, et al. | Nature Communications | 2019 | March | https://www.nature.com/articles/s41467-019-09142-9 | Plant | Genome Assembly | Agricultural Biology | Hi-C, HiRise | |
| A critical comparison of technologies for a plant genome sequencing project P Paajanen, et al.GigaScience, 2019, March | A critical comparison of technologies for a plant genome sequencing project | P Paajanen, et al. | GigaScience | 2019 | March | https://academic.oup.com/gigascience/article-abstract/8/3/giy163/5281243 | Plant | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| The painted sea urchin, Lytechinus pictus, as a genetically-enabled developmental model KT Nesbit, et al.Methods Cell Biology, 2019, February | The painted sea urchin, Lytechinus pictus, as a genetically-enabled developmental model | KT Nesbit, et al. | Methods Cell Biology | 2019 | February | https://www.sciencedirect.com/science/article/pii/S0091679X18301602 | Echinoderm | Genome Assembly | Evolution | Chicago | |
| White shark genome reveals ancient elasmobranch adaptations associated with wound healing and the maintenance of genome stability NJ Marra, et al.PNAS, 2019, February | White shark genome reveals ancient elasmobranch adaptations associated with wound healing and the maintenance of genome stability | NJ Marra, et al. | PNAS | 2019 | February | https://www.pnas.org/doi/abs/10.1073/pnas.1819778116 | Fish | Genome Assembly | Developmental Biology, Evolution | Chicago, HiRise | |
| A near-chromosome-scale genome assembly of the gemsbok (Oryx gazella): an iconic antelope of the Kalahari desert GigaScience, 2019, February | A near-chromosome-scale genome assembly of the gemsbok (Oryx gazella): an iconic antelope of the Kalahari desert | GigaScience | 2019 | February | https://academic.oup.com/gigascience/article-abstract/8/2/giy162/5289690 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | ||
| Lateral transfers of large DNA fragments spread functional genes among grasses LT Dunning, et al.PNAS Biological Sciences, 2019, February | Lateral transfers of large DNA fragments spread functional genes among grasses | LT Dunning, et al. | PNAS Biological Sciences | 2019 | February | https://www.pnas.org/doi/abs/10.1073/pnas.1810031116 | Plant | Genome Assembly | Evolution | Chicago | |
| Origin and evolution of the octoploid strawberry genome PP Edger, et al.Nature Genetics, 2019, February | Origin and evolution of the octoploid strawberry genome | PP Edger, et al. | Nature Genetics | 2019 | February | https://www.nature.com/articles/s41588-019-0356-4 | Plant | Genome Assembly | Evolution, Agricultural Biology | HiRise | |
| Chromosome-level assembly of the water buffalo genome surpasses human and goat genomes in sequence contiguity WY Low, et al.Nature Communications, 2019, January | Chromosome-level assembly of the water buffalo genome surpasses human and goat genomes in sequence contiguity | WY Low, et al. | Nature Communications | 2019 | January | https://www.nature.com/articles/s41467-018-08260-0 | Mammal | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Stout camphor tree genome fills gaps in understanding of flowering plant genome evolution SM Chaw, et al.Nature Plants, 2019, January | Stout camphor tree genome fills gaps in understanding of flowering plant genome evolution | SM Chaw, et al. | Nature Plants | 2019 | January | https://www.nature.com/articles/s41477-018-0337-0 | Plant | Genome Assembly | Cancer | Chicago, HiRise | |
| Meeting the challenge of tick-borne disease control: A proposal for 1000 Ixodes genomes MV Murgia, et al.Tick and Tick-borne Diseases, 2019, January | Meeting the challenge of tick-borne disease control: A proposal for 1000 Ixodes genomes | MV Murgia, et al. | Tick and Tick-borne Diseases | 2019 | January | https://www.sciencedirect.com/science/article/pii/S1877959X18300748 | Arachnid | Genome Assembly | Immunology | Chicago | |
| Structural Variation Detection by Proximity Ligation from Formalin-Fixed, Paraffin-Embedded Tumor Tissue C Troll, et al.Journal of Molecular Diagnostics, 2018, December | Structural Variation Detection by Proximity Ligation from Formalin-Fixed, Paraffin-Embedded Tumor Tissue | C Troll, et al. | Journal of Molecular Diagnostics | 2018 | December | https://www.jmdjournal.org/article/S1525-1578(18)30172-7/fulltext | Human | Genetic Analysis, Genome Assembly | 3D Chromatin Topology | Fix-C | |
| Evaluation of genome scaffolding tools using pooled clone sequencing E Dal, et al.Turkish Journal of Biology, 2018, December | Evaluation of genome scaffolding tools using pooled clone sequencing | E Dal, et al. | Turkish Journal of Biology | 2018 | December | https://journals.tubitak.gov.tr/biology/vol42/iss6/2/ | Mammal | Genome Assembly | 3D Chromatin Topology | Chicago | |
| Cultivar-specific long-range chromosome assembly permits rapid gene isolation and high-quality comparative analysis in hexaploid wheat AK ThindUniversity of Zurich (Dissertation), 2018, na | Cultivar-specific long-range chromosome assembly permits rapid gene isolation and high-quality comparative analysis in hexaploid wheat | AK Thind | University of Zurich (Dissertation) | 2018 | na | https://www.zora.uzh.ch/id/eprint/159968/1/159968.pdf | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Reconstructing cassava genomes with single-molecule technologies and chromosome conformation mapping to investigate geminivirus resistance by reverse genetics tools JE KuonETH Zurich (Dissertation), 2018, na | Reconstructing cassava genomes with single-molecule technologies and chromosome conformation mapping to investigate geminivirus resistance by reverse genetics tools | JE Kuon | ETH Zurich (Dissertation) | 2018 | na | https://www.research-collection.ethz.ch/handle/20.500.11850/311196 | Plant | Genome Assembly | Gene Expression | Chicago | |
| Extracellular Matrix and the Origin of Animal Multicellularity LA WetzekUniversity of California, Berkeley (Dissertation), 2018, na | Extracellular Matrix and the Origin of Animal Multicellularity | LA Wetzek | University of California, Berkeley (Dissertation) | 2018 | na | https://www.proquest.com/openview/7016c681257513316a0b5ec8dffcac01/1?pq-origsite=gscholar&cbl=18750&diss=y | Flagellates | Genome Assembly | Developmental Biology, Evolution | Chicago, HiRise | |
| Chromosome assembly of large and complex genomes using multiple references M Kolmogorov, et al.Genome Research, 2018, November | Chromosome assembly of large and complex genomes using multiple references | M Kolmogorov, et al. | Genome Research | 2018 | November | https://genome.cshlp.org/content/28/11/1720.short | Mammal | Genome Assembly | 3D Chromatin Topology | Chicago | |
| The African Bullfrog (Pyxicephalus adspersus) genome unites the two ancestral ingredients for making vertebrate sex chromosomes RD Denton, et al.BioRix (Preprint), 2018, November | The African Bullfrog (Pyxicephalus adspersus) genome unites the two ancestral ingredients for making vertebrate sex chromosomes | RD Denton, et al. | BioRix (Preprint) | 2018 | November | https://www.biorxiv.org/content/10.1101/329847.abstract | Amphibian | Genome Assembly | Evolution | Chicago, HiRise | |
| Current strategies of polyploid plant genome sequence assembly M Kyriakidou, et al.Frontiers in Plant Science, 2018, November | Current strategies of polyploid plant genome sequence assembly | M Kyriakidou, et al. | Frontiers in Plant Science | 2018 | November | https://www.frontiersin.org/articles/10.3389/fpls.2018.01660/full | Plant | Genome Assembly | Agricultural Biology, 3D Chromatin Topology | Chicago | |
| Comparative analysis of the Pocillopora damicornis genome highlights role of immune system in coral evolution R Cunning, et al.Nature, 2018, October | Comparative analysis of the Pocillopora damicornis genome highlights role of immune system in coral evolution | R Cunning, et al. | Nature | 2018 | October | https://www.nature.com/articles/s41598-018-34459-8 | Coral | Genome Assembly | Evolution | Chicago, HiRise | |
| Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci J Lilue, et al.Nature Genetics, 2018, October | Sixteen diverse laboratory mouse reference genomes define strain-specific haplotypes and novel functional loci | J Lilue, et al. | Nature Genetics | 2018 | October | https://www.nature.com/articles/s41588-018-0223-8 | Mammal | Genome Assembly | Gene Expression | Chicago, HiRise | |
| The genome of the oyster Saccostrea offers insight into the environmental resilience of bivalves D Powell, et al.DNA Research, 2018, October | The genome of the oyster Saccostrea offers insight into the environmental resilience of bivalves | D Powell, et al. | DNA Research | 2018 | October | https://academic.oup.com/dnaresearch/article-abstract/25/6/655/5123538 | Mollusc | Genome Assembly | Evolution, Agricultural Biology | Chicago, HiRise | |
| A malectin-like/leucine-rich repeat receptor protein kinase gene, RLK-V, regulates powdery mildew resistance in wheat P Hu, et al.Molecular Plant Pathology, 2018, October | A malectin-like/leucine-rich repeat receptor protein kinase gene, RLK-V, regulates powdery mildew resistance in wheat | P Hu, et al. | Molecular Plant Pathology | 2018 | October | https://bsppjournals.onlinelibrary.wiley.com/doi/10.1111/mpp.12729 | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| Cryptocurrencies and zero mode wave guides: an unclouded path to a more contiguous Cannabis sativa L. genome assembly. K McKernan, et al.OSF (Preprint), 2018, October | Cryptocurrencies and zero mode wave guides: an unclouded path to a more contiguous Cannabis sativa L. genome assembly. | K McKernan, et al. | OSF (Preprint) | 2018 | October | https://osf.io/7d968/download | Plant | Genome Assembly | 3D Chromatin Topology | Chicago | |
| A Chromosome-scale Reference Genome Provides Insight into Genome Biology and Fungicide Resistance in Phytophthora infestans MEH MatsonUniversity of California, Riverside (Dissertation), 2018, September | A Chromosome-scale Reference Genome Provides Insight into Genome Biology and Fungicide Resistance in Phytophthora infestans | MEH Matson | University of California, Riverside (Dissertation) | 2018 | September | https://search.proquest.com/openview/a4a2d0bf76dcc2cd23fe8d33f12a20ac/1?pq-origsite=gscholar&cbl=18750 | Plant | Genome Assembly | Immunology, Agricultural Biology | Chicago, HiRise | |
| Genomic approaches for studying crop evolution M Schreiber, et al.Genome Biology, 2018, September | Genomic approaches for studying crop evolution | M Schreiber, et al. | Genome Biology | 2018 | September | https://link.springer.com/article/10.1186/s13059-018-1528-8 | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| The molecular genetic basis of herbivory between butterflies and their host plants S Nallu, et al.Nature Ecology & Evolution, 2018, August | The molecular genetic basis of herbivory between butterflies and their host plants | S Nallu, et al. | Nature Ecology & Evolution | 2018 | August | https://www.nature.com/articles/s41559-018-0629-9 | Insect | Genome Assembly | Evolution | Chicago, HiRise | |
| Advances in wheat and pathogen genomics: implications for disease control B Keller, et al.Annual Review Phytopathology, 2018, August | Advances in wheat and pathogen genomics: implications for disease control | B Keller, et al. | Annual Review Phytopathology | 2018 | August | https://www.annualreviews.org/doi/abs/10.1146/annurev-phyto-080516-035419 | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| Chromosome-scale comparative sequence analysis unravels molecular mechanisms of genome dynamics between two wheat cultivars AK Thind, et al.Genome Biology, 2018, August | Chromosome-scale comparative sequence analysis unravels molecular mechanisms of genome dynamics between two wheat cultivars | AK Thind, et al. | Genome Biology | 2018 | August | https://genomebiology.biomedcentral.com/articles/10.1186/s13059-018-1477-2 | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| Chicago and Dovetail Hi-C proximity ligation yield chromosome length scaffolds of Ixodes scapularis genome AB Nuss, et al.BioRix (Preprint), 2018, August | Chicago and Dovetail Hi-C proximity ligation yield chromosome length scaffolds of Ixodes scapularis genome | AB Nuss, et al. | BioRix (Preprint) | 2018 | August | https://www.biorxiv.org/content/10.1101/392126.abstract | Arachnid | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Genomic signatures of mitonuclear coevolution across populations of Tigriopus californicus FS Barreto, et al.Nature, 2018, July | Genomic signatures of mitonuclear coevolution across populations of Tigriopus californicus | FS Barreto, et al. | Nature | 2018 | July | https://www.nature.com/articles/s41559-018-0588-1 | Crustacean | Genome Assembly | Gene Expression | Chicago, HiRise | |
| Assembly and annotation of a draft genome sequence for Glycine latifolia, a perennial wild relative of soybean Q Liu, et al.Plant Journal, 2018, July | Assembly and annotation of a draft genome sequence for Glycine latifolia, a perennial wild relative of soybean | Q Liu, et al. | Plant Journal | 2018 | July | https://onlinelibrary.wiley.com/doi/abs/10.1111/tpj.13931 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| What makes birds and bats the talk of the town V Marx, et al.Nature, 2018, July | What makes birds and bats the talk of the town | V Marx, et al. | Nature | 2018 | July | https://www.nature.com/articles/s41592-018-0050-y | Bird | Genome Assembly | Evolution | Chicago | |
| A High-Quality Reference Genome for the Invasive Mosquitofish Gambusia affinis Using a Chicago Library SL Hoffberg, et al.G3, 2018, June | A High-Quality Reference Genome for the Invasive Mosquitofish Gambusia affinis Using a Chicago Library | SL Hoffberg, et al. | G3 | 2018 | June | https://academic.oup.com/g3journal/article-abstract/8/6/1855/6028055 | Fish | Genome Assembly | Evolution | Chicago, HiRise | |
| ARKS: chromosome-scale scaffolding of human genome drafts with linked read kmers L Coombe, et al.BMC Bioinformatics, 2018, June | ARKS: chromosome-scale scaffolding of human genome drafts with linked read kmers | L Coombe, et al. | BMC Bioinformatics | 2018 | June | https://bmcbioinformatics.biomedcentral.com/articles/10.1186/s12859-018-2243-x | Human | Genome Assembly | 3D Chromatin Topology | Chicago | |
| Long-Range Assembly and Transcriptomics Elucidate the Regulatory Architecture of Three Vertebrate Genomes ES RiceUniversity of California, Santa Cruz (Dissertation), 2018, June | Long-Range Assembly and Transcriptomics Elucidate the Regulatory Architecture of Three Vertebrate Genomes | ES Rice | University of California, Santa Cruz (Dissertation) | 2018 | June | https://search.proquest.com/openview/fe25cbd38830ec2743054446f2e0a7e1/1?pq-origsite=gscholar&cbl=18750 | Multiple | Genome Assembly | Gene Expression | Chicago, HiRise | |
| What is speciation genomics? The roles of ecology, gene flow, and genomic architecture in the formation of species CR Campbell, et al.Biological Journal of the Linnean Society, 2018, June | What is speciation genomics? The roles of ecology, gene flow, and genomic architecture in the formation of species | CR Campbell, et al. | Biological Journal of the Linnean Society | 2018 | June | https://academic.oup.com/biolinnean/article-abstract/124/4/561/5035934 | Other | Genome Assembly, Genetic Analysis | Evolution | Chicago | |
| A pathogenesis-related 10 protein catalyzes the final step in thebaine biosynthesis X Chen, et al.Nature Chemical Biology, 2018, May | A pathogenesis-related 10 protein catalyzes the final step in thebaine biosynthesis | X Chen, et al. | Nature Chemical Biology | 2018 | May | https://www.nature.com/articles/s41589-018-0059-7 | Plant | Genome Assembly | Gene Expression | Chicago | |
| Decimation by sea star wasting disease and rapid genetic change in a keystone species, Pisaster ochraceus LM Schiebelhut, et al.PNAS, 2018, May | Decimation by sea star wasting disease and rapid genetic change in a keystone species, Pisaster ochraceus | LM Schiebelhut, et al. | PNAS | 2018 | May | https://www.pnas.org/doi/abs/10.1073/pnas.1800285115 | Echinoderm | Genome Assembly | Evolution | Chicago, HiRise | |
| Gene annotation and small RNA characterization in the salt water crocodile: Crocodylus porosus A GhoshTexas Tech University (Dissertation), 2018, May | Gene annotation and small RNA characterization in the salt water crocodile: Crocodylus porosus | A Ghosh | Texas Tech University (Dissertation) | 2018 | May | https://ttu-ir.tdl.org/handle/2346/86825 | Reptile | Genome Assembly | Gene Expression | Chicago, HiRise | |
| Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia) C Holt, et al.G3, 2018, May | Improved Genome Assembly and Annotation for the Rock Pigeon (Columba livia) | C Holt, et al. | G3 | 2018 | May | https://academic.oup.com/g3journal/article-abstract/8/5/1391/6028092 | Bird | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Improved de novo genomic assembly for the domestic donkey G Renaud, et al.Science Advances, 2018, April | Improved de novo genomic assembly for the domestic donkey | G Renaud, et al. | Science Advances | 2018 | April | https://www.science.org/doi/abs/10.1126/sciadv.aaq0392 | Mammal | Genome Assembly | Agricultural Biology, Gene Expression | Chicago, HiRise | |
| Three invariant Hi-C interaction patterns: applications to genome assembly S Oddes, et al.Methods, 2018, April | Three invariant Hi-C interaction patterns: applications to genome assembly | S Oddes, et al. | Methods | 2018 | April | https://www.sciencedirect.com/science/article/pii/S1046202317302414 | Other | Genome Assembly | 3D Chromatin Topology | Chicago | |
| Gaining a global perspective on Fagaceae genomic diversification and adaptation CH Cannon, et al.New Phytologist, 2018, April | Gaining a global perspective on Fagaceae genomic diversification and adaptation | CH Cannon, et al. | New Phytologist | 2018 | April | https://www.jstor.org/stable/90020512 | Plant | Genome Assembly | Evolution | Chicago | |
| Intact DNA purified from flow-sorted nuclei unlocks the potential of next-generation genome mapping and assembly in Solanum species P Gaiero, et al.Methods, 2018, April | Intact DNA purified from flow-sorted nuclei unlocks the potential of next-generation genome mapping and assembly in Solanum species | P Gaiero, et al. | Methods | 2018 | April | https://www.sciencedirect.com/science/article/pii/S2215016118300499 | Plant | Genome Assembly | 3D Chromatin Topology | Chicago | |
| The Genome Sequence of Gossypium Herbaceum (A1),a Domesticated Diploid Cotton AJ FreemanBrigham Young University (Dissertation), 2018, April | The Genome Sequence of Gossypium Herbaceum (A1),a Domesticated Diploid Cotton | AJ Freeman | Brigham Young University (Dissertation) | 2018 | April | https://search.proquest.com/openview/eb03f1a5f0fd73124ec2d6a862a062a3/1?pq-origsite=gscholar&cbl=18750&diss=y | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| Iteratively improving Hi-C experiments one step at a time R Golloshi, et al.Methods, 2018, April | Iteratively improving Hi-C experiments one step at a time | R Golloshi, et al. | Methods | 2018 | April | https://www.sciencedirect.com/science/article/pii/S104620231730261X | Other | Epigenetics | 3D Chromatin Topology | Other | |
| A guide to sequence your favorite plant genomes FW Li, et al.Applications in Plant Sciences, 2018, March | A guide to sequence your favorite plant genomes | FW Li, et al. | Applications in Plant Sciences | 2018 | March | https://bsapubs.onlinelibrary.wiley.com/doi/abs/10.1002/aps3.1030 | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| Pm21 from Haynaldia villosa encodes a CC-NBS-LRR protein conferring powdery mildew resistance in wheat L Xing, et al.Molecular Plant, 2018, March | Pm21 from Haynaldia villosa encodes a CC-NBS-LRR protein conferring powdery mildew resistance in wheat | L Xing, et al. | Molecular Plant | 2018 | March | https://www.cell.com/molecular-plant/pdf/S1674-2052(18)30085-6.pdf | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| Recent advances in conservation and population genomics data analysis S Hendricks, et al.Wiley, 2018, February | Recent advances in conservation and population genomics data analysis | S Hendricks, et al. | Wiley | 2018 | February | https://onlinelibrary.wiley.com/doi/abs/10.1111/eva.12659 | Coral | Genome Assembly | Evolution | Chicago | |
| Growing old, yet staying young: the role of telomeres in bats' exceptional longevity NM Foley, et al.Science Advances, 2018, February | Growing old, yet staying young: the role of telomeres in bats' exceptional longevity | NM Foley, et al. | Science Advances | 2018 | February | https://www.science.org/doi/abs/10.1126/sciadv.aao0926 | Mammal | Genome Assembly | Gene Expression | Chicago, HiRise | |
| Hologenomic adaptations underlying the evolution of sanguivory in the common vampire bat ML Zepeda Mendoza, et al.Nature Ecology & Evolution, 2018, February | Hologenomic adaptations underlying the evolution of sanguivory in the common vampire bat | ML Zepeda Mendoza, et al. | Nature Ecology & Evolution | 2018 | February | https://www.nature.com/articles/s41559-018-0476-8 | Mammal | Genome Assembly | Evolution | Chicago, HiRise | |
| Recent progress in whole genome sequencing, high-density linkage maps, and genomic databases of ornamental plants M YagiBreed Science, 2018, February | Recent progress in whole genome sequencing, high-density linkage maps, and genomic databases of ornamental plants | M Yagi | Breed Science | 2018 | February | https://www.jstage.jst.go.jp/article/jsbbs/68/1/68_17080/_article/-char/ja/ | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| Multiple hybrid de novo genome assembly of finger millet, an orphan allotetraploid crop M Hatakeyama, et al.DNA Research, 2018, February | Multiple hybrid de novo genome assembly of finger millet, an orphan allotetraploid crop | M Hatakeyama, et al. | DNA Research | 2018 | February | https://academic.oup.com/dnaresearch/article-abstract/25/1/39/4103403 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Whole-genome assembly of the coral reef Pearlscale Pygmy Angelfish (Centropyge vrolikii) I Fernandez-Silva, et al.Scientific Reports, 2018, January | Whole-genome assembly of the coral reef Pearlscale Pygmy Angelfish (Centropyge vrolikii) | I Fernandez-Silva, et al. | Scientific Reports | 2018 | January | https://www.nature.com/articles/s41598-018-19430-x | Fish | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Chromosome Level Assembly of the Water Buffalo Genome L Low, et al.Plant and Animal Genome Conference, 2018, January | Chromosome Level Assembly of the Water Buffalo Genome | L Low, et al. | Plant and Animal Genome Conference | 2018 | January | https://www.ars.usda.gov/research/publications/publication/?seqNo115=348469 | Mammal | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| The genome of Schmidtea mediterranea and the evolution of core cellular mechanisms MA Grohme, et al.Nature, 2018, January | The genome of Schmidtea mediterranea and the evolution of core cellular mechanisms | MA Grohme, et al. | Nature | 2018 | January | https://www.nature.com/articles/nature25473 | Triclad | Genome Assembly | Stem Cell Research, Evolution | Chicago, HiRise | |
| Is It Ordered Correctly? Validating Genome Assemblies by Optical Mapping J Udall, et al.Plant Cell, 2018, January | Is It Ordered Correctly? Validating Genome Assemblies by Optical Mapping | J Udall, et al. | Plant Cell | 2018 | January | https://www.ncbi.nlm.nih.gov/pmc/articles/PMC5810561/pdf/PC_TPC2017COM00514R2.pdf | Other | Genome Assembly | Genetic Analysis | Chicago | |
| Assessment of genetic diversity and recombination in maize A OttIowa State University (Dissertation), 2017, na | Assessment of genetic diversity and recombination in maize | A Ott | Iowa State University (Dissertation) | 2017 | na | https://search.proquest.com/openview/8930e1235212be7b505be187689a1ae8/1?pq-origsite=gscholar&cbl=18750 | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| Genome sequencing and assembly by long reads in plants C Li, et al.Genes, 2017, December | Genome sequencing and assembly by long reads in plants | C Li, et al. | Genes | 2017 | December | https://www.mdpi.com/2073-4425/9/1/6 | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| High-quality genome assemblies of plant species using third generation genomic technologies and comprehensive genotypic characterization of Arabis inter-species introgression lines W JiaoUniversity of Cologne (Dissertation), 2017, na | High-quality genome assemblies of plant species using third generation genomic technologies and comprehensive genotypic characterization of Arabis inter-species introgression lines | W Jiao | University of Cologne (Dissertation) | 2017 | na | https://kups.ub.uni-koeln.de/8963/1/Thesis.Jiao.v5.2018.pdf | Plant | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Hybrid de novo genome assembly and centromere characterization of the gray mouse lemur (Microcebus murinus) PA Larsen, et al.BMC Biology, 2017, November | Hybrid de novo genome assembly and centromere characterization of the gray mouse lemur (Microcebus murinus) | PA Larsen, et al. | BMC Biology | 2017 | November | https://link.springer.com/article/10.1186/s12915-017-0439-6 | Mammal | Genome Assembly | 3D Chromatin Topology | Chicago | |
| A 3-way hybrid approach to generate a new high-quality chimpanzee reference genome (Pan_tro_3. 0) LFK Kuderna, et al.GigaScience, 2017, October | A 3-way hybrid approach to generate a new high-quality chimpanzee reference genome (Pan_tro_3. 0) | LFK Kuderna, et al. | GigaScience | 2017 | October | https://academic.oup.com/gigascience/article-abstract/6/11/gix098/4577581 | Mammal | Genome Assembly | Evolution | Chicago | |
| The draft genome of tropical fruit durian (Durio zibethinus) BT Teh, et al.Nature Genetics, 2017, October | The draft genome of tropical fruit durian (Durio zibethinus) | BT Teh, et al. | Nature Genetics | 2017 | October | https://www.nature.com/articles/ng.3972 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Application of next_generation sequencing to the study of non_model insects N Wachi, et al.Entomological Science, 2017, September | Application of next_generation sequencing to the study of non_model insects | N Wachi, et al. | Entomological Science | 2017 | September | https://www.researchgate.net/publication/319884071_Application_of_next-generation_sequencing_to_the_study_of_non-model_insects | Insect | Genome Assembly | Conservation | Chicago | |
| The new bovine reference assembly and its value for genomic research JF Medrano, et al.Association for the Advancement of Animal Breeding and Genetics, 2017, September | The new bovine reference assembly and its value for genomic research | JF Medrano, et al. | Association for the Advancement of Animal Breeding and Genetics | 2017 | September | http://www.aaabg.org/aaabghome/AAABG22papers/37Medrano22161.pdf | Mammal | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments RK Varshney, et al.Nature Biotechnology, 2017, September | Pearl millet genome sequence provides a resource to improve agronomic traits in arid environments | RK Varshney, et al. | Nature Biotechnology | 2017 | September | https://www.nature.com/articles/nbt.3943 | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| Multiple introductions, admixture and bridgehead invasion characterize the introduction history of Ambrosia artemisiifolia in Europe and Australia LA van Boheemen, et al.Molecular Ecology, 2017, August | Multiple introductions, admixture and bridgehead invasion characterize the introduction history of Ambrosia artemisiifolia in Europe and Australia | LA van Boheemen, et al. | Molecular Ecology | 2017 | August | https://onlinelibrary.wiley.com/doi/abs/10.1111/mec.14293 | Plant | Genome Assembly | Evolution | Chicago | |
| Rapid cloning of genes in hexaploid wheat using cultivar-specific long-range chromosome assembly AK Thind, et al.Nature Biotechnology, 2017, August | Rapid cloning of genes in hexaploid wheat using cultivar-specific long-range chromosome assembly | AK Thind, et al. | Nature Biotechnology | 2017 | August | https://www.nature.com/articles/nbt.3877 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Strategies for optimizing BioNano and Dovetail explored through a second reference quality assembly for the legume model, Medicago truncatula KM Moll, et al.BMC Genomics, 2017, August | Strategies for optimizing BioNano and Dovetail explored through a second reference quality assembly for the legume model, Medicago truncatula | KM Moll, et al. | BMC Genomics | 2017 | August | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-017-3971-4 | Plant | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Toward genomics-based breeding in C3 cool-season perennial grasses SK Talukder, et al.Frontiers in Plant Science, 2017, July | Toward genomics-based breeding in C3 cool-season perennial grasses | SK Talukder, et al. | Frontiers in Plant Science | 2017 | July | https://www.frontiersin.org/articles/10.3389/fpls.2017.01317/full | Plant | Genome Assembly | Agricultural Biology | Chicago | |
| The house spider genome reveals an ancient whole-genome duplication during arachnid evolution EE Schwager, et al.BioMed Central, 2017, July | The house spider genome reveals an ancient whole-genome duplication during arachnid evolution | EE Schwager, et al. | BioMed Central | 2017 | July | https://bmcbiol.biomedcentral.com/articles/10.1186/s12915-017-0399-x?sf102366037=1&sap-outbound-id=A74107296B0150F01FA13C893C411A6F376D65B4 | Arachnid | Genome Assembly | Evolution | Chicago, HiRise | |
| Improving and correcting the contiguity of long-read genome assemblies of three plant species using optical mapping and chromosome conformation capture data WB Jiao, et al.Genome Research, 2017, May | Improving and correcting the contiguity of long-read genome assemblies of three plant species using optical mapping and chromosome conformation capture data | WB Jiao, et al. | Genome Research | 2017 | May | https://genome.cshlp.org/content/27/5/778.short | Plant | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling ES Rice, et al.Genome Research, 2017, May | Improved genome assembly of American alligator genome reveals conserved architecture of estrogen signaling | ES Rice, et al. | Genome Research | 2017 | May | https://genome.cshlp.org/content/27/5/686.short | Reptile | Genome Assembly | Gene Expression | Chicago, HiRise | |
| The impact of third generation genomic technologies on plant genome assembly WB Jiao, et al.Current Opinion in Plant Biology, 2017, April | The impact of third generation genomic technologies on plant genome assembly | WB Jiao, et al. | Current Opinion in Plant Biology | 2017 | April | https://www.sciencedirect.com/science/article/pii/S1369526616301315 | Plant | Genome Assembly, Epigenetics | Agricultural Biology | Chicago | |
| Genome assembly with in vitro proximity ligation data and whole-genome triplication in lettuce S Reyes-Chin-Wo, et al.Nature Communications, 2017, April | Genome assembly with in vitro proximity ligation data and whole-genome triplication in lettuce | S Reyes-Chin-Wo, et al. | Nature Communications | 2017 | April | https://www.nature.com/articles/ncomms14953 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| The genome of Chenopodium quinoa DE Jarvis, et al.Nature, 2017, February | The genome of Chenopodium quinoa | DE Jarvis, et al. | Nature | 2017 | February | https://www.nature.com/articles/nature21370 | Plant | Genome Assembly | Gene Expression, Agricultural Biology | Chicago, HiRise | |
| De novo hybrid assembly of the rubber tree genome reveals evidence of paleotetraploidy in Hevea species W Pootakham, et al.Scientific Reports, 2017, February | De novo hybrid assembly of the rubber tree genome reveals evidence of paleotetraploidy in Hevea species | W Pootakham, et al. | Scientific Reports | 2017 | February | https://www.nature.com/articles/srep41457 | Plant | Genome Assembly | Evolution | Chicago, HiRise | |
| Discovery of large genomic inversions using long range information M Eslami Rasekh, et al.BMC Genomics, 2017, January | Discovery of large genomic inversions using long range information | M Eslami Rasekh, et al. | BMC Genomics | 2017 | January | https://bmcgenomics.biomedcentral.com/articles/10.1186/s12864-016-3444-1 | Human | Genome Assembly | 3D Chromatin Topology | Chicago | |
| Progress on the Genome Characterisation of the Sydney Rock Oyster (Saccostrea glomerata) D Powell, et al.Plant and Animal Genome Conference, 2017, January | Progress on the Genome Characterisation of the Sydney Rock Oyster (Saccostrea glomerata) | D Powell, et al. | Plant and Animal Genome Conference | 2017 | January | https://research.usc.edu.au/esploro/outputs/abstract/Progress-on-the-Genome-Characterisation-of/99451131102621 | Mollusc | Genome Assembly | Evolution | Chicago, HiRise | |
| An advanced reference genome of Trifolium subterraneum L. reveals genes related to agronomic performance P Kaur, et al.Plant Biotechnology Journal, 2017, January | An advanced reference genome of Trifolium subterraneum L. reveals genes related to agronomic performance | P Kaur, et al. | Plant Biotechnology Journal | 2017 | January | https://onlinelibrary.wiley.com/doi/abs/10.1111/pbi.12697 | Plant | Genome Assembly | Gene Expression, Agricultural Biology | Chicago | |
| A century of sex determination in flowering plants A Harkess, et al.Journal of Heredity, 2016, November | A century of sex determination in flowering plants | A Harkess, et al. | Journal of Heredity | 2016 | November | https://academic.oup.com/jhered/article-abstract/108/1/69/2631568 | Plant | Genome Assembly | Evolution | Chicago | |
| S0123 The adaptation of farm animals to northern and arctic environments J Kantanen, et al.Journal of Animal Science, 2016, September | S0123 The adaptation of farm animals to northern and arctic environments | J Kantanen, et al. | Journal of Animal Science | 2016 | September | https://academic.oup.com/jas/article-abstract/94/suppl_4/12/4740691 | Mammal | Genome Assembly | Conservation, Agricultural Biology | Chicago | |
| Homology, Homoplasy and The Holobiont: A Comparative Genomics Approach BS KamelPennState University (Dissertation), 2016, September | Homology, Homoplasy and The Holobiont: A Comparative Genomics Approach | BS Kamel | PennState University (Dissertation) | 2016 | September | https://etda.libraries.psu.edu/catalog/13477bsk176 | Mollusc | Genome Assembly | Gene Expression | Chicago, HiRise | |
| The evolution of invasiveness in poeciliid fishes: insights from life history and genomics NJ TroendleUniversity of Georgia (Dissertation), 2016, June | The evolution of invasiveness in poeciliid fishes: insights from life history and genomics | NJ Troendle | University of Georgia (Dissertation) | 2016 | June | http://getd.libs.uga.edu/pdfs/troendle_nicholas_j_201608_phd.pdf | Fish | Genome Assembly | Evolution | Chicago, HiRise | |
| Quality assessment of domesticated animal genome assemblies SE Seemann, et al.Bioinformatics and Biology Insights, 2016, June | Quality assessment of domesticated animal genome assemblies | SE Seemann, et al. | Bioinformatics and Biology Insights | 2016 | June | https://journals.sagepub.com/doi/abs/10.4137/BBI.S29333 | Multiple | Genome Assembly | Gene Expression | Chicago | |
| A hybrid approach for de novo human genome sequence assembly and phasing Y Mostovoy, et al.Nature, 2016, May | A hybrid approach for de novo human genome sequence assembly and phasing | Y Mostovoy, et al. | Nature | 2016 | May | https://www.nature.com/articles/nmeth.3865 | Human | Genome Assembly | 3D Chromatin Topology | Chicago | |
| Effects of Drift, Selection and Gene Flow on Immune Genes in Prairie Grouse Z BatesonUniversity of Wisconsin Milwaukee , 2016, May | Effects of Drift, Selection and Gene Flow on Immune Genes in Prairie Grouse | Z Bateson | University of Wisconsin Milwaukee | 2016 | May | https://dc.uwm.edu/etd/1113/ | Bird | Genome Assembly | Evolution, Immunology | Chicago, HiRise | |
| Third-generation sequencing and the future of genomics H Lee, et al.BioRiv (pre-print), 2016, April | Third-generation sequencing and the future of genomics | H Lee, et al. | BioRiv (pre-print) | 2016 | April | https://www.biorxiv.org/content/10.1101/048603.abstract | Multiple | Genome Assembly, Genetic Analysis | 3D Chromatin Topology | Chicago | |
| Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity JV Bredeson, et al.Nature Biotechnology, 2016, April | Sequencing wild and cultivated cassava and related species reveals extensive interspecific hybridization and genetic diversity | JV Bredeson, et al. | Nature Biotechnology | 2016 | April | https://www.nature.com/articles/nbt.3535 | Plant | Genome Assembly | Agricultural Biology | Chicago, HiRise | |
| Chromosome-scale shotgun assembly using an in vitro method for long-range linkage NH Putnam, et al.Genome Research, 2016, February | Chromosome-scale shotgun assembly using an in vitro method for long-range linkage | NH Putnam, et al. | Genome Research | 2016 | February | https://genome.cshlp.org/content/26/3/342.short | Human | Genome Assembly | 3D Chromatin Topology | Chicago, HiRise | |
| Algorithms and Applications in Genome Assembly using Long Read Sequencing Technology H LeeState University of New York, Stony Brook (Dissertation), 2015, August | Algorithms and Applications in Genome Assembly using Long Read Sequencing Technology | H Lee | State University of New York, Stony Brook (Dissertation) | 2015 | August | https://search.proquest.com/openview/81ae62c8cde161decc330d5478114edc/1?pq-origsite=gscholar&cbl=18750 | Other | Genome Assembly, Genetic Analysis | 3D Chromatin Topology | Chicago | |
| The Genetic Basis of Divergence and Speciation in Alpine and Arctic Finches ER FunkUniversity of Colorado (Dissertation), 2022, na | The Genetic Basis of Divergence and Speciation in Alpine and Arctic Finches | ER Funk | University of Colorado (Dissertation) | 2022 | na | https://search.proquest.com/openview/4a1a17a33809b4d46fd0723340c453db/1?pq-origsite=gscholar&cbl=18750&diss=y | Bird | Genome Assembly | Evolution | Omni-C | |
| Loss of KMT2C, A Subunit of the Compass-Like Complex, Cooperates with Oncogenic Signaling in Cancer G PradoUniversity of Florida (Dissertation), 2022, na | Loss of KMT2C, A Subunit of the Compass-Like Complex, Cooperates with Oncogenic Signaling in Cancer | G Prado | University of Florida (Dissertation) | 2022 | na | https://search.proquest.com/openview/ac7dafcd91b9afcec30945cb04712073/1?pq-origsite=gscholar&cbl=18750&diss=y | Human | Genome Assembly | Cancer | Omni-C | |
| A highly contiguous genome assembly for the California quail (Callipepla californica) PM Benham, et al.Journal of Heredity, 2023, Feburary | A highly contiguous genome assembly for the California quail (Callipepla californica) | PM Benham, et al. | Journal of Heredity | 2023 | Feburary | https://academic.oup.com/jhered/article-abstract/114/4/418/7034149 | Bird | Genome Assembly | Evolution | Omni-C | |
| CASTING A WIDER NET: USING RAY-FINNED FISH GENOMES TO GAIN NOVEL INSIGHTS INTO VERTEBRATE MOLECULAR EVOLUTION R MallikUniversity of North Carolina (Dissertation), 2024, | CASTING A WIDER NET: USING RAY-FINNED FISH GENOMES TO GAIN NOVEL INSIGHTS INTO VERTEBRATE MOLECULAR EVOLUTION | R Mallik | University of North Carolina (Dissertation) | 2024 | https://www.proquest.com/openview/00f1597a91226e0db6b60ae62150ef29/1?pq-origsite=gscholar&cbl=18750&diss=y | Fish | Genome Assembly | Evolution | Hi-C, Chicago | ||
| Signatures of Selection, Gene Flow, and Genetic Drift on the Genomes of a Recent Avian Radiation F CamachoThe University of Texas, El Paso (Dissertation), 2024, | Signatures of Selection, Gene Flow, and Genetic Drift on the Genomes of a Recent Avian Radiation | F Camacho | The University of Texas, El Paso (Dissertation) | 2024 | https://www.proquest.com/openview/f3117d4ea8c40a83b63b6d8c9bb92265/1?pq-origsite=gscholar&cbl=18750&diss=y | Bird | Genome Assembly | Conservation, Evolution | Chicago, HiRise | ||
| Mechanisms and Evolution of Phenotypic Plasticity in Social Insects L RevelyUniversity College London (Dissertation), 2024, Februrary | Mechanisms and Evolution of Phenotypic Plasticity in Social Insects | L Revely | University College London (Dissertation) | 2024 | Februrary | https://discovery.ucl.ac.uk/id/eprint/10191490/7/Revely_10191490_thesis_sigs_removed.pdf | Insect | Genome Assembly | Evolution | Omni-C | |
| Annotation of the Leukocyte Receptor Complex Genomic Region in Camels AL Jelinck, et al.University of Veterinary and Pharmaceutical Sciences Brno (Dissertation), 2024, | Annotation of the Leukocyte Receptor Complex Genomic Region in Camels | AL Jelinck, et al. | University of Veterinary and Pharmaceutical Sciences Brno (Dissertation) | 2024 | https://theses.cz/id/ute49o/thesis_Jelinek.pdf | Mammal | Genome Assembly | Immunology | Chicago | ||
| Mechanistic Insights into EWS::FLI-driven Genome Regulation in Ewing Sarcoma A BayanjargalOhio State University (Dissertation), 2024, | Mechanistic Insights into EWS::FLI-driven Genome Regulation in Ewing Sarcoma | A Bayanjargal | Ohio State University (Dissertation) | 2024 | https://etd.ohiolink.edu/acprod/odb_etd/ws/send_file/send?accession=osu1713204298221286&disposition=inline | Human | Epigenetics | Cancer, Gene Expression | Micro-C | ||
| A phased, chromosome-scale genome of ‘Honeycrisp’ apple (Malus domestica) A Khan, et al.GigaByte, 2022, September | A phased, chromosome-scale genome of ‘Honeycrisp’ apple (Malus domestica) | A Khan, et al. | GigaByte | 2022 | September | https://pubmed.ncbi.nlm.nih.gov/36824509/ | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Genome assembly and chemogenomic profiling of National Flower of Singapore Papilionanthe Miss Joaquim ‘Agnes’ reveals metabolic pathways regulating floral traits AH Lim, et al.Communications Biology, 2022, September | Genome assembly and chemogenomic profiling of National Flower of Singapore Papilionanthe Miss Joaquim ‘Agnes’ reveals metabolic pathways regulating floral traits | AH Lim, et al. | Communications Biology | 2022 | September | https://www.nature.com/articles/s42003-022-03940-6 | Plant | Genome Assembly | Developmental Biology | Omni-C | |
| The genomic basis of the plant island syndrome in Darwin’s giant daisies J Cerca, et al.Nature Communications, 2022, June | The genomic basis of the plant island syndrome in Darwin’s giant daisies | J Cerca, et al. | Nature Communications | 2022 | June | https://www.nature.com/articles/s41467-022-31280-w | Plant | Genome Assembly | Evolution, Conservation | Omni-C | |
| Novel QTL associated with Rhizoctonia solani Kühn resistance identified in two table beet _ sugar beet F2:3 populations using a new table beet reference genome KS Wigg, et al.Crop Science, 2022, October | Novel QTL associated with Rhizoctonia solani Kühn resistance identified in two table beet _ sugar beet F2:3 populations using a new table beet reference genome | KS Wigg, et al. | Crop Science | 2022 | October | https://acsess.onlinelibrary.wiley.com/doi/full/10.1002/csc2.20865 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Genome of the ramshorn snail Biomphalaria straminea—an obligate intermediate host of schistosomiasis W Nong, et al.GigaScience, 2022, February | Genome of the ramshorn snail Biomphalaria straminea—an obligate intermediate host of schistosomiasis | W Nong, et al. | GigaScience | 2022 | February | https://academic.oup.com/gigascience/article/doi/10.1093/gigascience/giac012/6528774 | Mollusc | Genome Assembly | Other Disease | Omni-C | |
| Genome assembly of the rare and endangered Grantham’s camellia, Camellia granthamiana Hong Kong Biodiversity ConsortiumGigaByte, 2024, January | Genome assembly of the rare and endangered Grantham’s camellia, Camellia granthamiana | Hong Kong Biodiversity Consortium | GigaByte | 2024 | January | https://gigabytejournal.com/articles/124 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| “The genome assembly of the duckweed fern, Azolla caroliniana” MJ Song, et al.BioRxiv (Pre-print), 2024, October | “The genome assembly of the duckweed fern, Azolla caroliniana” | MJ Song, et al. | BioRxiv (Pre-print) | 2024 | October | https://www.biorxiv.org/content/10.1101/2024.10.22.619683v1.abstract | Plant | Genome Assembly | Conservation | Omni-C | |
| Insights on macrosynteny, ‘rebel’ genes, and a new sex-linked region in anurans from comparative genomics and a new chromosome-level genome for the western chorus frog Y Chen, et al.BioRxiv (Pre-print), 2024, October | Insights on macrosynteny, ‘rebel’ genes, and a new sex-linked region in anurans from comparative genomics and a new chromosome-level genome for the western chorus frog | Y Chen, et al. | BioRxiv (Pre-print) | 2024 | October | https://www.biorxiv.org/content/10.1101/2024.10.27.620512v1.abstract | Amphibian | Genome Assembly | Conservation, Evolution | Omni-C | |
| Interspeci c behavioural interference and range dynamics: genomic analysis of rubyspot damsel ies CW PattersonDurham University (Dissertation), 2024, | Interspeci c behavioural interference and range dynamics: genomic analysis of rubyspot damsel ies | CW Patterson | Durham University (Dissertation) | 2024 | https://etheses.dur.ac.uk/15756/1/Patterson000899143_upload.pdf | Insect | Genome Assembly | Developmental Biology | Omni-C | ||
| Resolving chromatin interaction and transcriptional networks in mammalian nuclei Y ZhuInternational Max Planck Research School for Molecular Biology (Dissertation), 2024, | Resolving chromatin interaction and transcriptional networks in mammalian nuclei | Y Zhu | International Max Planck Research School for Molecular Biology (Dissertation) | 2024 | https://ediss.uni-goettingen.de/handle/11858/15426 | Human | Epigenetics | 3D Chromatin Topology, Stem Cell Research | Micro-C | ||
| Deciphering gene regulatory programs underlying functionally divergent naïve T cell subsets H Zhu, et al.BioRxiv (Pre-print), 2024, November | Deciphering gene regulatory programs underlying functionally divergent naïve T cell subsets | H Zhu, et al. | BioRxiv (Pre-print) | 2024 | November | https://www.biorxiv.org/content/10.1101/2024.11.06.621737v1.abstract | Mouse | Epigenetics | Gene Expression | Micro-C | |
| A first look at the genome structure of hexaploid “Mitcham” peppermint (Mentha × piperita L.) SC Talbot, et al.G3, 2024, November | A first look at the genome structure of hexaploid “Mitcham” peppermint (Mentha × piperita L.) | SC Talbot, et al. | G3 | 2024 | November | https://academic.oup.com/g3journal/advance-article/doi/10.1093/g3journal/jkae195/7904854 | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| ERGA-BGE Reference Genome of the Northern chamois (Rupicapra rupicapra): Europe’s most abundant mountain ungulate E Buzan, et al.BioRxiv (Pre-print), 2024, November | ERGA-BGE Reference Genome of the Northern chamois (Rupicapra rupicapra): Europe’s most abundant mountain ungulate | E Buzan, et al. | BioRxiv (Pre-print) | 2024 | November | https://www.biorxiv.org/content/10.1101/2024.11.20.624344v1.abstract | Mammal | Genome Assembly | Evolution, Conservation | Omni-C | |
| Diversification of Linanthus in Western North America: Integrating Genomics and Chemical Ecology to Study the Evolution of Desert Plants IG AnghelUniversity of California, Los Angeles (Dissertation), 2024, | Diversification of Linanthus in Western North America: Integrating Genomics and Chemical Ecology to Study the Evolution of Desert Plants | IG Anghel | University of California, Los Angeles (Dissertation) | 2024 | https://www.proquest.com/openview/aeec39e5551ff349b80bad7e95129f6f/1?pq-origsite=gscholar&cbl=18750&diss=y | Plant | Genome Assembly | Evolution, Conservation | Omni-C | ||
| Applications of next-generation sequencing towards identifying novel disease resistance genes M SmithUniversity of St Andrews (Dissertation), 2025, | Applications of next-generation sequencing towards identifying novel disease resistance genes | M Smith | University of St Andrews (Dissertation) | 2025 | https://research-repository.st-andrews.ac.uk/handle/10023/31020 | Plant | Genome Assembly | Agricultural Biology | Omni-C | ||
| Genomic Resources for the Scuttle Fly Megaselia abdita: A Model Organism for Comparative Developmental Studies in Flies A Tenger-Trolander, et al.BioRxiv (Pre-print), 2025, Feburary | Genomic Resources for the Scuttle Fly Megaselia abdita: A Model Organism for Comparative Developmental Studies in Flies | A Tenger-Trolander, et al. | BioRxiv (Pre-print) | 2025 | Feburary | https://www.biorxiv.org/content/10.1101/2025.01.13.631075v2 | Insect | Genome Assembly | Gene Expression, Developmental Biology | Omni-C | |
| Investigating the distribution and dynamicsof transposableelementsingenomesofnon-model species: frommolecularprocessesto population-level pressures L AnconaPolytechnic University of Marche (Dissertation), 2024, | Investigating the distribution and dynamicsof transposableelementsingenomesofnon-model species: frommolecularprocessesto population-level pressures | L Ancona | Polytechnic University of Marche (Dissertation) | 2024 | https://iris.univpm.it/retrieve/f49b50ab-8f63-4538-a1f8-3899fbc2f47f/Tesi_Ancona.pdf | Amphibian | Genome Assembly | Gene Expression | Omni-C | ||
| Long-term human influence on the demography and genetic diversity of the hyperdominant Bertholletia excelsa in the Amazon Basin H Wang, et al.Current Biology, 2025, Feburary | Long-term human influence on the demography and genetic diversity of the hyperdominant Bertholletia excelsa in the Amazon Basin | H Wang, et al. | Current Biology | 2025 | Feburary | https://www.cell.com/current-biology/fulltext/S0960-9822(24)01691-9 | Plant | Genome Assembly | Conservation | Omni-C | |
| Comparative Genomics in Cultivated and Wild Brassicaceae Species JT DavisUniversity of California Davis (Dissertation), 2024, | Comparative Genomics in Cultivated and Wild Brassicaceae Species | JT Davis | University of California Davis (Dissertation) | 2024 | https://www.proquest.com/openview/e5b589e6d646c6db37ad90183b2c8eef/1?pq-origsite=gscholar&cbl=18750&diss=y | Plant | Genome Assembly | Agricultural Biology, Conservation | Hi-C, HiRise | ||
| Epigenomic insights into extreme longevity in the world’s oldest terrestrial animal, Jonathan B Vaisvil, et al.BioRxiv (Pre-print), 2024, | Epigenomic insights into extreme longevity in the world’s oldest terrestrial animal, Jonathan | B Vaisvil, et al. | BioRxiv (Pre-print) | 2024 | https://www.proquest.com/openview/e5b589e6d646c6db37ad90183b2c8eef/1?pq-origsite=gscholar&cbl=18750&diss=y | Reptile | Genome Assembly | Gene Expression, Developmental Biology | Omni-C | ||
| Genomic evidence for supergene control of Darwin’s “complex marriage arrangement” – the tristylous floral polymorphism H Xue, et al.BioRxiv (Pre-print), 2024, April | Genomic evidence for supergene control of Darwin’s “complex marriage arrangement” – the tristylous floral polymorphism | H Xue, et al. | BioRxiv (Pre-print) | 2024 | April | https://www.biorxiv.org/content/10.1101/2024.01.15.575583v2.abstract | Plant | Genome Assembly | Gene Expression | Omni-C | |
| ERGA-BGE genome of Noah’s Ark shell (Arca noae Linnaeus, 1758),a Mediterranean bivalve species K Vasileiadou, et al.BioRxiv (Pre-print), 2025, February | ERGA-BGE genome of Noah’s Ark shell (Arca noae Linnaeus, 1758),a Mediterranean bivalve species | K Vasileiadou, et al. | BioRxiv (Pre-print) | 2025 | February | https://www.biorxiv.org/content/10.1101/2025.02.10.632159v1.full | Mollusc | Genome Assembly | Conservation | Omni-C | |
| A chromosome-level reference genome assembly for Gilbert’s skink Plestiodon gilberti JQ Richmond, et al.Journal of Heredity, 2025, June | A chromosome-level reference genome assembly for Gilbert’s skink Plestiodon gilberti | JQ Richmond, et al. | Journal of Heredity | 2025 | June | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esaf040/8171814 | Reptile | Genome Assembly | Conservation, Evolution | Omni-C | |
| A chromosome-level genome assembly of the mountain lion, Puma concolor MA Supple, et al.Journal of Heredity, 2024, November | A chromosome-level genome assembly of the mountain lion, Puma concolor | MA Supple, et al. | Journal of Heredity | 2024 | November | https://academic.oup.com/jhered/article/116/4/479/7882854 | Mammal | Genome Assembly | Conservation | Omni-C | |
| De novo genome assembly of a Geomyid rodent, Botta’s pocket gopher (Thomomys bottae bottae) ER Voss, et al.Journal of Heredity, 2025, July | De novo genome assembly of a Geomyid rodent, Botta’s pocket gopher (Thomomys bottae bottae) | ER Voss, et al. | Journal of Heredity | 2025 | July | https://academic.oup.com/jhered/article/116/4/513/7742293 | Mouse | Genome Assembly | Conservation, Evolution | Omni-C | |
| Evolution and functioning of an X–A balance sex-determining system in hops T Akagi, et al.Nature Plants, 2025, June | Evolution and functioning of an X–A balance sex-determining system in hops | T Akagi, et al. | Nature Plants | 2025 | June | https://www.nature.com/articles/s41477-025-02017-6 | Plant | Genome Assembly | Evolution, Agricultural Biology | Omni-C | |
| Transgenerational epigenetic effect of kings’ aging on offspring’s caste fate mediated by sperm DNA methylation in termites M Takata, et al.PNAS, 2025, June | Transgenerational epigenetic effect of kings’ aging on offspring’s caste fate mediated by sperm DNA methylation in termites | M Takata, et al. | PNAS | 2025 | June | https://www.pnas.org/doi/abs/10.1073/pnas.2509506122 | Plant | Genome Assembly | Developmental Biology | Omni-C | |
| Genomics of Telomere Dysfunction and Alternative Lengthening of Telomeres H LeeSeoul National University (Dissertation), 2024, December | Genomics of Telomere Dysfunction and Alternative Lengthening of Telomeres | H Lee | Seoul National University (Dissertation) | 2024 | December | https://s-space.snu.ac.kr/handle/10371/220935 | Mouse | Genome Assembly | Stem Cell Research | Micro-C | |
| A near chromosome-level assembly of the serpentine endemic columbine, Aquilegia eximia J Johns, et al.Journal of Heredity, 2025, June | A near chromosome-level assembly of the serpentine endemic columbine, Aquilegia eximia | J Johns, et al. | Journal of Heredity | 2025 | June | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esaf035/8159613 | Plant | Genome Assembly | Conservation | Omni-C | |
| A high-quality genome assembly for a desert-adapted rodent, Merriam’s kangaroo rat (Dipodomys merriami) E Voss, et al.Journal of Heredity, 2025, April | A high-quality genome assembly for a desert-adapted rodent, Merriam’s kangaroo rat (Dipodomys merriami) | E Voss, et al. | Journal of Heredity | 2025 | April | https://academic.oup.com/jhered/advance-article/doi/10.1093/jhered/esaf023/8115377 | Rodent | Genome Assembly | Conservation, Evolution | Omni-C | |
| Chromosome-level genome assembly of the spangled emperor, Lethrinus nebulosus (Forsskål 1775) L Parata, et al.Scientific Data, 2025, March | Chromosome-level genome assembly of the spangled emperor, Lethrinus nebulosus (Forsskål 1775) | L Parata, et al. | Scientific Data | 2025 | March | https://www.nature.com/articles/s41597-025-04690-w | Fish | Genome Assembly | Agricultural Biology | Omni-C | |
| Chromosome-level haplotype-resolved genome assembly of bread wheat’s wild relative Aegilops mutica S Grewal, et al. Scientific Data, 2025, March | Chromosome-level haplotype-resolved genome assembly of bread wheat’s wild relative Aegilops mutica | S Grewal, et al. | Scientific Data | 2025 | March | https://www.nature.com/articles/s41597-025-04737-y | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Exceptionally low genomic diversity in the underutilised legume Kersting’s groundnut T Cheung, et al.Nature Communications, 2025, June | Exceptionally low genomic diversity in the underutilised legume Kersting’s groundnut | T Cheung, et al. | Nature Communications | 2025 | June | https://www.nature.com/articles/s41467-025-60494-x | Plant | Genome Assembly | Agricultural Biology | Omni-C | |
| Genome assemblies of Nuttall’s White-crowned sparrow (Zonotrichia leucophrys nuttalli) and Rufous-collared sparrow (Zonotrichia capensis) Z Wu, et al.Scientific Data, 2025, April | Genome assemblies of Nuttall’s White-crowned sparrow (Zonotrichia leucophrys nuttalli) and Rufous-collared sparrow (Zonotrichia capensis) | Z Wu, et al. | Scientific Data | 2025 | April | https://www.nature.com/articles/s41597-025-04889-x | Bird | Genome Assembly | Evolution, Conservation | Omni-C | |
| Whole-genome sequence of Potamopyrgus antipodarum—a model system for the maintenance of sexual reproduction—reveals a recent whole-genome duplicatio J Jalinsky, et al.BioRxiv (pre-print), 2025, March | Whole-genome sequence of Potamopyrgus antipodarum—a model system for the maintenance of sexual reproduction—reveals a recent whole-genome duplicatio | J Jalinsky, et al. | BioRxiv (pre-print) | 2025 | March | https://www.biorxiv.org/content/10.1101/2025.03.16.643514v1.abstract | Mollusc | Genome Assembly | Evolution | Hi-C, ChiCAGO |