De novo assembly of the cattle reference genome with single-molecule sequencing

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The Genome Sequence of Taurine Cattle: A Window to Ruminant Biology and Evolution

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A whole-genome assembly of the domestic cow, Bos taurus

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Mapping the Global Distribution of Livestock

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Mind the Gap: Upgrading Genomes with Pacific Biosciences RS Long-Read Sequencing Technology

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Changes in genetic selection differentials and generation intervals in US Holstein dairy cattle as a result of genomic selection

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A 100-Year Review: Methods and impact of genetic selection in dairy cattle—From daughter–dam comparisons to deep learning algorithms

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A physical map of the bovine genome

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Accuracy of direct genomic breeding values for nationally evaluated traits in US Limousin and Simmental beef cattle

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A clone-free, single molecule map of the domestic cow (Bos taurus) genome

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Supporting data for "De novo assembly of the cattle reference genome with single-molecule sequencing"

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A multi-tissue atlas of regulatory variants in cattle

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The critically endangered vaquita is not doomed to extinction by inbreeding depression

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A cattle graph genome incorporating global breed diversity

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Novel Functional Sequences Uncovered through a Bovine Multiassembly Graph

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A review of the pangenome: how it affects our understanding of genomic variation, selection and breeding in domestic animals?

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Whole genome analysis of water buffalo and global cattle breeds highlights convergent signatures of domestication

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Assembly of a Pangenome for Global Cattle Reveals Missing Sequences and Novel Structural Variations, Providing New Insights into Their Diversity and Evolutionary History

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Evolution and Domestication of the Bovini Species

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New Loci and Neuronal Pathways for Resilience to Heat Stress in Cattle

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Structural variant-based pangenome construction has low sensitivity to variability of haplotype-resolved bovine assemblies

Leonard, A. S., Crysnanto, D., Fang, Z., Heaton, M. P., Ley, B. L. V., Herrera, C., Bollwein, H., Bickhart, D. M., Kuhn, K. L., Smith, T. P. L., et al. (2022) · Nature Communications · doi:10.1038/s41467-022-30680-2 · Cited by 76 · see citing works

Genetic Diversity and Signatures of Selection for Thermal Stress in Cattle and Other Two Bos Species Adapted to Divergent Climatic Conditions

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Genomic Analysis Revealed a Convergent Evolution of LINE-1 in Coat Color: A Case Study in Water Buffaloes (Bubalus bubalis)

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Investigating the Immunological and Biological Equilibrium of Reservoir Hosts and Pathogenic Leptospira: Balancing the Solution to an Acute Problem?

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Confirmed effects of candidate variants for milk production, udder health, and udder morphology in dairy cattle

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Characterization of runs of homozygosity, heterozygosity-enriched regions, and population structure in cattle populations selected for different breeding goals

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Long read genome assemblies complemented by single cell RNA-sequencing reveal genetic and cellular mechanisms underlying the adaptive evolution of yak

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Meta-Analysis of Heifer Traits Identified Reproductive Pathways in Bos indicus Cattle

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Transcriptional atlas analysis from multiple tissues reveals the expression specificity patterns in beef cattle

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Genome-wide selection signatures detection in Shanghai Holstein cattle population identified genes related to adaption, health and reproduction traits

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Evolutionary origin of genomic structural variations in domestic yaks

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Bovine breed-specific augmented reference graphs facilitate accurate sequence read mapping and unbiased variant discovery

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Variants at the ASIP locus contribute to coat color darkening in Nellore cattle

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Powerful detection of polygenic selection and evidence of environmental adaptation in US beef cattle

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Activation of cryptic splicing in bovine WDR19 is associated with reduced semen quality and male fertility

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Evaluation of mutation rates, mosaicism and off target mutations when injecting Cas9 mRNA or protein for genome editing of bovine embryos

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Comparative whole genome DNA methylation profiling across cattle tissues reveals global and tissue-specific methylation patterns

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The Bovine Pangenome Consortium: Democratizing Production and Accessibility of Genome Assemblies for Global Cattle Breeds and Other Bovine Species

Smith, T. P. L., Bickhart, D. M., Boichard, D., Chamberlain, A. J., Djikeng, A., Jiang, Y., Low, W. Y., Pausch, H., Demyda-Peyrás, S., Prendergast, J., et al. (2023) · Genome biology · doi:10.1186/s13059-023-02975-0 · Cited by 57 · see citing works

Graph construction method impacts variation representation and analyses in a bovine super-pangenome

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Gene expression and RNA splicing explain large proportions of the heritability for complex traits in cattle

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A Reference Genome Assembly of Simmental Cattle, <i>Bos taurus taurus</i>

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Genome-wide association and genotype by environment interactions for growth traits in U.S. Red Angus cattle

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Structural Variation and Introgression from Wild Populations in East Asian Cattle Genomes Confer Adaptation to Local Environment

Xia, X., Zhang, F., Li, S., Luo, X., Peng, L., Dong, Z., Pausch, H., Leonard, A. S., Crysnanto, D., Wang, S., et al. (2023) · Genome biology · doi:10.1186/s13059-023-03052-2 · Cited by 53 · see citing works

Cerebrum, liver, and muscle regulatory networks uncover maternal nutrition effects in developmental programming of beef cattle during early pregnancy

Diniz, W. J. S., Crouse, M. S., Cushman, R. A., McLean, K. J., Caton, J. S. S., Dahlen, C. R., Reynolds, L. P., & Ward, A. K. K. (2021) · Scientific Reports · doi:10.1038/s41598-021-82156-w · Cited by 53 · see citing works

Three-dimensional genome architecture persists in a 52,000-year-old woolly mammoth skin sample

Sandoval‐Velasco, M., Dudchenko, O., Rodríguez, J. A., Estrada, C. P., Dehasque, M., Fontsere, C., Mak, S. S. T., Khan, R., Contessoto, V. G., Junior, A. B. D. O., et al. (2024) · Cell · doi:10.1016/j.cell.2024.06.002 · Cited by 52 · see citing works

Imputation accuracy to whole-genome sequence in Nellore cattle

Júnior, G. A. F., Carvalheiro, R., de Oliveira, H. N., Sargolzaei, M., Costilla, R., Ventura, R. V., Fonseca, L. F. S., Neves, H. H. D. R., Hayes, B. J., & de Albuquerque, L. G. (2021) · Genetics Selection Evolution · doi:10.1186/s12711-021-00622-5 · Cited by 50 · see citing works

Invited review: Good practices in genome-wide association studies to identify candidate sequence variants in dairy cattle

Sahana, G., Cai, Z., Sanchez, M.-P., Bouwman, A. C., & Boichard, D. (2023) · Journal of Dairy Science · doi:10.3168/jds.2022-22694 · Cited by 55 · see citing works

Expanding the stdpopsim species catalog, and lessons learned for realistic genome simulations

Lauterbur, M. E., Cavassim, M. I. A., Gladstein, A. L., Gower, G., Pope, N. S., Tsambos, G., Adrion, J. R., Belsare, S., Biddanda, A., Caudill, V. R., et al. (2023) · eLife · doi:10.7554/elife.84874 · Cited by 48 · see citing works

Sequence-based genome-wide association study of individual milk mid-infrared wavenumbers in mixed-breed dairy cattle

Tiplady, K., Lopdell, T., Reynolds, E., Sherlock, R. G., Keehan, M., Johnson, T., Pryce, J. E., Davis, S. R., Spelman, R. J., Harris, B. L., et al. (2021) · Genetics Selection Evolution · doi:10.1186/s12711-021-00648-9 · Cited by 46 · see citing works

A Reference Genome Assembly of American Bison, Bison bison bison

Oppenheimer, J., Rosen, B. D., Heaton, M. P., Ley, B. L. V., Shafer, W. R., Schuetze, F. T., Stroud, B., Kuehn, L. A., McClure, J. C., Barfield, J. P., et al. (2021) · Journal of Heredity · doi:10.1093/jhered/esab003 · Cited by 42 · see citing works

Genome-wide scans identify biological and metabolic pathways regulating carcass and meat quality traits in beef cattle

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A Chinese indicine pangenome reveals a wealth of novel structural variants introgressed from other<i>Bos</i>species

Dai, X., Bian, P., Hu, D., Luo, F., Huang, Y., Jiao, S., Wang, X., Gong, M., Li, R., Cai, Y., et al. (2023) · Genome Research · doi:10.1101/gr.277481.122 · Cited by 43 · see citing works

Genome-Wide Local Ancestry and Direct Evidence for Mitonuclear Coadaptation in African Hybrid Cattle Populations ( Bos Taurus/Indicus)

Ward, J. A., McHugo, G. P., Dover, M. J., Hall, T. J., Ng’ang’a, S. I., Sonstegard, T. S., Bradley, D. G., Frantz, L., Salter‐Townshend, M., & MacHugh, D. E. (2022) · iScience · doi:10.1016/j.isci.2022.104672 · Cited by 45 · see citing works

Genome-wide association analyses identify genotype-by-environment interactions of growth traits in Simmental cattle

Braz, C. U., Rowan, T. N., Schnabel, R. D., & Decker, J. E. (2021) · Scientific Reports · doi:10.1038/s41598-021-92455-x · Cited by 43 · see citing works

The intronic branch point sequence is under strong evolutionary constraint in the bovine and human genome

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Maternal Vitamin and Mineral Supplementation and Rate of Maternal Weight Gain Affects Placental Expression of Energy Metabolism and Transport-Related Genes

Diniz, W. J. S., Reynolds, L. P., Borowicz, P. P., Ward, A. K. K., Sedivec, K. K. K., McCarthy, K. L., Kassetas, C. J. J., Baumgaertner, F., Kirsch, J. D., Dorsam, S. T., et al. (2021) · Genes · doi:10.3390/genes12030385 · Cited by 42 · see citing works

Evidence for and localization of proposed causative variants in cattle and pig genomes

Johnsson, M., & Jungnickel, M. K. (2021) · Genetics Selection Evolution · doi:10.1186/s12711-021-00662-x · Cited by 40 · see citing works

Underlying genetic architecture of resistance to mastitis in dairy cattle: A systematic review and gene prioritization analysis of genome-wide association studies

Narayana, S. G., de Jong, E., Schenkel, F. S., Fonseca, P. A. D. S., Chud, T. C. S., Powell, D., Wachoski-Dark, G. L., Ronksley, P. E., Miglior, F., Orsel, K., et al. (2022) · Journal of Dairy Science · doi:10.3168/jds.2022-21923 · Cited by 38 · see citing works

Pangenome-genotyped structural variation improves molecular phenotype mapping in cattlePreprint

Leonard, A. S., Mapel, X. M., & Pausch, H. (2024) · Genome Research · doi:10.1101/gr.278267.123 · Cited by 36 · see citing works

Identification of genomic regions associated with total and progressive sperm motility in Italian Holstein bulls

Ramírez-Díaz, J., Cenadelli, S., Bornaghi, V., Bongioni, G., Montedoro, S. M., Achilli, A., Capelli, C., Rincon, J. C., Milanesi, M., Passamonti, M. M., et al. (2022) · Journal of Dairy Science · doi:10.3168/jds.2021-21700 · Cited by 37 · see citing works

Assembly of complete diploid-phased chromosomes from draft genome sequences

Minio, A., Cochetel, N., Vondras, A. M., Massonnet, M., & Cantù, D. (2022) · G3 Genes Genomes Genetics · doi:10.1093/g3journal/jkac143 · Cited by 37 · see citing works

A multi-tissue single-cell expression atlas in cattle

Han, B., Li, H., Zheng, W., Zhang, Q., Chen, A., Zhu, S., Shi, T., Wang, F., Zou, D., Yu, S., et al. (2025) · Nature Genetics · doi:10.1038/s41588-025-02329-5 · Cited by 36 · see citing works

One-step generation of a targeted knock-in calf using the CRISPR-Cas9 system in bovine zygotes

Owen, J. R., Hennig, S. L., McNabb, B. R., Mansour, T. A., Smith, J. M., Lin, J. C., Young, A. E., Trott, J. F., Murray, J. D., Delany, M. E., et al. (2021) · BMC Genomics · doi:10.1186/s12864-021-07418-3 · Cited by 36 · see citing works

Genomic signatures for drylands adaptation at gene-rich regions in African zebu cattle

Tijjani, A., Salim, B., da Silva, M. V. B., Eltahir, H. A., Musa, T. H., Marshall, K., Hanotte, O., & Musa, H. H. (2022) · Genomics · doi:10.1016/j.ygeno.2022.110423 · Cited by 41 · see citing works

The size and composition of haplotype reference panels impact the accuracy of imputation from low-pass sequencing in cattle

Lloret‐Villas, A., Pausch, H., & Leonard, A. S. (2023) · Genetics Selection Evolution · doi:10.1186/s12711-023-00809-y · Cited by 35 · see citing works

Assessing the genetic background and genomic relatedness of red cattle populations originating from Northern Europe

Schmidtmann, C., Schönherz, A. A., Guldbrandtsen, B., Marjanovic, J., Calus, M. P. L., Hinrichs, D., & Thaller, G. E. (2021) · Genetics Selection Evolution · doi:10.1186/s12711-021-00613-6 · Cited by 39 · see citing works

Trajectory of livestock genomics in South Asia: A comprehensive review

Panigrahi, M., Kumar, H., Saravanan, K. A., Rajawat, D., Nayak, S. S., Ghildiyal, K., Kaisa, K., Parida, S., Bhushan, B., & Dutt, T. (2022) · Gene · doi:10.1016/j.gene.2022.146808 · Cited by 35 · see citing works

X chromosome variants are associated with male fertility traits in two bovine populations

Fortes, M., Porto-Neto, L., Satake, N., Nguyen, L., Freitas, A. C., Melo, T. P., Scalez, D. C. B., Hayes, B., Raidan, F., Reverter, A., et al. (2020) · Genetics Selection Evolution · doi:10.1186/s12711-020-00563-5 · Cited by 22 · see citing works

A Systematic Review of Genomic Regions and Candidate Genes Underlying Behavioral Traits in Farmed Mammals and Their Link with Human Disorders

Alvarenga, A. B., de Oliveira, H. R., Chen, S., Miller, S. P., Marchant, J. N., Grigoletto, L., & Brito, L. F. (2021) · Animals · doi:10.3390/ani11030715 · Cited by 33 · see citing works

Population differentiated copy number variation of Bos taurus, Bos indicus and their African hybrids

Jang, J., Terefe, E., Kim, K., Lee, Y. H., Belay, G., Tijjani, A., Han, J., Hanotte, O., & Kim, H. (2021) · BMC Genomics · doi:10.1186/s12864-021-07808-7 · Cited by 33 · see citing works

Single-cell transcriptomic and chromatin accessibility analyses of dairy cattle peripheral blood mononuclear cells and their responses to lipopolysaccharide

Gao, Y., Li, J., Cai, G., Wang, Y., Yang, W., Li, Y., Zhao, X., Li, R., Gao, Y., Tuo, W., et al. (2022) · BMC Genomics · doi:10.1186/s12864-022-08562-0 · Cited by 33 · see citing works

Sequence-based GWAS meta-analyses for beef production traits

Sanchez, M.-P., Tribout, T., Kadri, N. K., Chitneedi, P., Maak, S., Hozé, C., Boussaha, M., Croiseau, P., Philippe, R., Spengeler, M., et al. (2023) · Genetics Selection Evolution · doi:10.1186/s12711-023-00848-5 · Cited by 33 · see citing works

Telomere-to-telomere assemblies of cattle and sheep Y-chromosomes uncover divergent structure and gene content

Olagunju, T., Rosen, B. D., Neibergs, H. L., Becker, G. M., Davenport, K. M., Elsik, C. G., Hadfield, T. S., Koren, S., Kuhn, K. L., Rhie, A., et al. (2024) · Nature Communications · doi:10.1038/s41467-024-52384-5 · Cited by 35 · see citing works

A low-density SNP genotyping panel for the accurate prediction of cattle breeds

Reverter, A., Hudson, N. J., McWilliam, S. M., Alexandre, P. A., Li, Y., Barlow, R. S., Welti, N., Daetwyler, H. D., Neto, L. R. P., & Dominik, S. (2020) · Journal of Animal Science · doi:10.1093/jas/skaa337 · Cited by 32 · see citing works

Single-cell transcriptomic analyses of dairy cattle ruminal epithelial cells during weaning

Gao, Y., Fang, L., Baldwin, R. L., Connor, E. E., Cole, J. B., Tassell, C. P. V., Ma, L., Li, C., & Liu, G. E. (2021) · Genomics · doi:10.1016/j.ygeno.2021.04.039 · Cited by 33 · see citing works

A 16S Next Generation Sequencing Based Molecular and Bioinformatics Pipeline to Identify Processed Meat Products Contamination and Mislabelling

Chaora, N. S., Khanyile, K. S., Magwedere, K., Pierneef, R., Tabit, F. T., & Muchadeyi, F. C. (2022) · Animals · doi:10.3390/ani12040416 · Cited by 32 · see citing works

Genetic variation in histone modifications and gene expression identifies regulatory variants in the mammary gland of cattle

Prowse-Wilkins, C., Lopdell, T., Xiang, R., Jagt, C. J. V., Littlejohn, M. D., Chamberlain, A. J., & Goddard, M. E. (2022) · BMC Genomics · doi:10.1186/s12864-022-09002-9 · Cited by 33 · see citing works

Sequence-based GWAS and post-GWAS analyses reveal a key role of SLC37A1, ANKH, and regulatory regions on bovine milk mineral content

Sanchez, M.-P., Rocha, D., Charles, M., Boussaha, M., Hozé, C., Brochard, M., Delacroix-Buchet, A., Grosperrin, P., & Boichard, D. (2021) · Scientific Reports · doi:10.1038/s41598-021-87078-1 · Cited by 31 · see citing works

Investigating the Effect of Imputed Structural Variants from Whole-Genome Sequence on Genome-Wide Association and Genomic Prediction in Dairy Cattle

Chen, L., Pryce, J. E., Hayes, B. J., & Daetwyler, H. D. (2021) · Animals · doi:10.3390/ani11020541 · Cited by 30 · see citing works

Profiling the immune epigenome across global cattle breeds

Powell, J., Talenti, A., Fisch, A., Hemmink, J. D., Paxton, E. A., Toye, P. G., Santos, I. K. F. D. M., Ferreira, B. R., Connelley, T., Morrison, L. J., et al. (2023) · Genome biology · doi:10.1186/s13059-023-02964-3 · Cited by 30 · see citing works

Genome-wide association and expression quantitative trait loci in cattle reveals common genes regulating mammalian fertility

Forutan, M., Engle, B. N., Chamberlain, A. J., Ross, E. M., Nguyen, L. T., D’Occhio, M. J., Snr, A. C., Kho, E. A., Fordyce, G., Speight, S., et al. (2024) · Communications Biology · doi:10.1038/s42003-024-06403-2 · Cited by 31 · see citing works

Development and comparison of RNA-sequencing pipelines for more accurate SNP identification: practical example of functional SNP detection associated with feed efficiency in Nellore beef cattle

Lam, S., Zeidan, J., Miglior, F., Suárez‐Vega, A., Gómez‐Redondo, I., Fonseca, P. A. D. S., Guan, L. L., Waters, S. M., & Cánovas, Á. (2020) · BMC Genomics · doi:10.1186/s12864-020-07107-7 · Cited by 30 · see citing works

Investigating the impact of reference assembly choice on genomic analyses in a cattle breed

Lloret‐Villas, A., Bhati, M., Kadri, N. K., Fries, R., & Pausch, H. (2021) · BMC Genomics · doi:10.1186/s12864-021-07554-w · Cited by 29 · see citing works

Molecular quantitative trait loci in reproductive tissues impact male fertility in cattle

Mapel, X. M., Kadri, N. K., Leonard, A. S., He, Q., Lloret‐Villas, A., Bhati, M., Hiltpold, M., & Pausch, H. (2024) · Nature Communications · doi:10.1038/s41467-024-44935-7 · Cited by 28 · see citing works

Meta-analysis of six dairy cattle breeds reveals biologically relevant candidate genes for mastitis resistance

Cai, Z., Iso‐Touru, T., Sanchez, M.-P., Kadri, N. K., Bouwman, A. C., Chitneedi, P., MacLeod, I. M., Jagt, C. J. V., Chamberlain, A. J., Gredler, B., et al. (2024) · Genetics Selection Evolution · doi:10.1186/s12711-024-00920-8 · Cited by 28 · see citing works

Whole genome characterization of autochthonous Bos taurus brachyceros and introduced Bos indicus indicus cattle breeds in Cameroon regarding their adaptive phenotypic traits and pathogen resistance

Paguem, A., Abanda, B., Achukwi, M. D., Baskaran, P., Czemmel, S., Renz, A., & Eisenbarth, A. (2020) · BMC Genetics · doi:10.1186/s12863-020-00869-9 · Cited by 28 · see citing works

Autosomal recessive loci contribute significantly to quantitative variation of male fertility in a dairy cattle population

Hiltpold, M., Kadri, N. K., Janett, F., Witschi, U., Schmitz‐Hsu, F., & Pausch, H. (2021) · BMC Genomics · doi:10.1186/s12864-021-07523-3 · Cited by 28 · see citing works

Genomic diversity and relationship analyses of endangered German Black Pied cattle (DSN) to 68 other taurine breeds based on whole-genome sequencing

Neumann, G. B., Korkuć, P., Arends, D., Wolf, M. J., May, K., König, S., & Brockmann, G. A. (2023) · Frontiers in Genetics · doi:10.3389/fgene.2022.993959 · Cited by 28 · see citing works

Symposium review: Advances in sequencing technology herald a new frontier in cattle genomics and genome-enabled selection

Bickhart, D. M., McClure, J. C., Schnabel, R. D., Rosen, B. D., Medrano, J. F. F., & Smith, T. P. L. (2020) · Journal of Dairy Science · doi:10.3168/jds.2019-17693 · Cited by 28 · see citing works

Variations in antibody repertoires correlate with vaccine responsesPreprint

Safonova, Y., Shin, S. B., Kramer, L., Reecy, J. M., Watson, C. T., Smith, T. P. L., & Pevzner, P. A. (2022) · Genome Research · doi:10.1101/gr.276027.121 · Cited by 28 · see citing works

Candidate genes for mastitis resistance in dairy cattle: a data integration approach

Brajnik, Z., & Ogorevc, J. (2023) · Journal of Animal Science and Biotechnology/Journal of animal science and biotechnology · doi:10.1186/s40104-022-00821-0 · Cited by 31 · see citing works

Genome-wide association study for carcass weight in pasture-finished beef cattle in Hawai’i

Adhikari, M., Kantar, M. B., Longman, R. J., Lee, C. N., Oshiro, M. A., Caires, K. C., & He, Y. (2023) · Frontiers in Genetics · doi:10.3389/fgene.2023.1168150 · Cited by 27 · see citing works

Breed identification using breed-informative SNPs and machine learning based on whole genome sequence data and SNP chip data

Zhao, P., Wang, D., Teng, J., Yang, C., Zhang, X., Wei, X., & Zhang, Q. (2023) · Journal of Animal Science and Biotechnology/Journal of animal science and biotechnology · doi:10.1186/s40104-023-00880-x · Cited by 28 · see citing works

The Resilient Dairy Genome Project—A general overview of methods and objectives related to feed efficiency and methane emissions

van Staaveren, N., de Oliveira, H. R., Houlahan, K., Chud, T. C. S., Júnior, G. A. O., Hailemariam, D., Kistemaker, G. J., Miglior, F., Plastow, G. S., Schenkel, F. S., et al. (2023) · Journal of Dairy Science · doi:10.3168/jds.2022-22951 · Cited by 27 · see citing works

Sequenced-based GWAS for linear classification traits in Belgian Blue beef cattle reveals new coding variants in genes regulating body size in mammals

Duarte, J. L. G., Yuan, C., Gori, A.-S., Moreira, G. C. M., Takeda, H., Coppieters, W. R., Charlier, C., Georges, M., & Druet, T. (2023) · Genetics Selection Evolution · doi:10.1186/s12711-023-00857-4 · Cited by 30 · see citing works

Integrative genomics of the mammalian alveolar macrophage response to intracellular mycobacteria

Hall, T. J., Mullen, M. P., McHugo, G. P., Killick, K. E., Ring, S. C., Berry, D. P., Correia, C. N., Browne, J. A., Gordon, S. V., & MacHugh, D. E. (2021) · BMC Genomics · doi:10.1186/s12864-021-07643-w · Cited by 30 · see citing works

Large-Scale Multiplexing Permits Full-Length Transcriptome Annotation of 32 Bovine Tissues From a Single Nanopore Flow Cell

Halstead, M. M., Islas‐Trejo, A., Goszczynski, D. E., Medrano, J. F. F., Zhou, H., & Ross, P. J. (2021) · Frontiers in Genetics · doi:10.3389/fgene.2021.664260 · Cited by 26 · see citing works

Four novel candidate causal variants for deficient homozygous haplotypes in Holstein cattle

Häfliger, I. M., Spengeler, M., Seefried, F. R., & Drögemüller, C. (2022) · Scientific Reports · doi:10.1038/s41598-022-09403-6 · Cited by 26 · see citing works

BayesR3 enables fast MCMC blocked processing for largescale multi-trait genomic prediction and QTN mapping analysis

Breen, E. J., MacLeod, I. M., Ho, P. N., Haile‐Mariam, M., Pryce, J. E., Thomas, C. D., Daetwyler, H. D., & Goddard, M. E. (2022) · Communications Biology · doi:10.1038/s42003-022-03624-1 · Cited by 26 · see citing works

A High-Quality Blue Whale Genome, Segmental Duplications, and Historical Demography

Bukhman, Y. V., Morin, P. A., MEYER, S. R., Chu, L., Jacobsen, J. K., Antosiewicz‐Bourget, J., Mamott, D., Gonzales, M., Argus, C., Bolin, J. M., et al. (2024) · Molecular Biology and Evolution · doi:10.1093/molbev/msae036 · Cited by 26 · see citing works

Genomic regions underlying positive selection in local, Alpine cattle breeds

Signer‐Hasler, H., Casanova, L., Barenco, A., Maitre, B., Bagnato, A., Vevey, M., Berger, B., Simčić, M., Boichon, D., Capitan, A., et al. (2023) · Animal Genetics · doi:10.1111/age.13295 · Cited by 25 · see citing works

Weighted Gene Correlation Network Meta-Analysis Reveals Functional Candidate Genes Associated with High- and Sub-Fertile Reproductive Performance in Beef Cattle

Fonseca, P. A. D. S., Suárez‐Vega, A., & Cánovas, Á. (2020) · Genes · doi:10.3390/genes11050543 · Cited by 25 · see citing works

Genome-Wide Association Analyses of Fertility Traits in Beef Heifers

Stegemiller, M. R., Murdoch, G. K., Rowan, T. N., Davenport, K. M., Becker, G. M., Hall, J. B., & Murdoch, B. M. (2021) · Genes · doi:10.3390/genes12020217 · Cited by 26 · see citing works

An Epigenetic Aging Clock for Cattle Using Portable Sequencing Technology

Hayes, B. J., Nguyen, L. T., Forutan, M., Engle, B. N., Lamb, H. J., Copley, J. P., Randhawa, I. A. S., & Ross, E. M. (2021) · Frontiers in Genetics · doi:10.3389/fgene.2021.760450 · Cited by 25 · see citing works

GWAS and genomic prediction of milk urea nitrogen in Australian and New Zealand dairy cattle

van den Berg, I., Ho, P. N., Nguyen, T. V., Haile‐Mariam, M., MacLeod, I. M., Beatson, P. R., O’Connor, E. S., & Pryce, J. E. (2022) · Genetics Selection Evolution · doi:10.1186/s12711-022-00707-9 · Cited by 25 · see citing works

De novo genome assembly depicts the immune genomic characteristics of cattle

Li, T., Xia, T., Wu, J., Hong, H., Sun, Z., Wang, M., Ding, F.-R., Wang, J., Jiang, S., Li, J., et al. (2023) · Nature Communications · doi:10.1038/s41467-023-42161-1 · Cited by 25 · see citing works

Comparison of the genetic characteristics of directly measured and Fourier-transform mid-infrared-predicted bovine milk fatty acids and proteins

Tiplady, K., Lopdell, T., Sherlock, R. G., Johnson, T., Spelman, R. J., Harris, B. L., Davis, S. R., Littlejohn, M. D., & Garrick, D. J. (2022) · Journal of Dairy Science · doi:10.3168/jds.2022-22089 · Cited by 24 · see citing works

Genome-wide assessment and mapping of inbreeding depression identifies candidate genes associated with semen traits in Holstein bulls

Ghoreishifar, S. M., Vahedi, S. M., Ardestani, S. S., Khansefid, M., & Pryce, J. E. (2023) · BMC Genomics · doi:10.1186/s12864-023-09298-1 · Cited by 24 · see citing works

Whole genome sequencing of simmental cattle for SNP and CNV discovery

Sun, T., Pei, S., Liu, Y., Hanif, Q., Xu, H., Chen, N., Lei, C., & Yue, X. (2023) · BMC Genomics · doi:10.1186/s12864-023-09248-x · Cited by 23 · see citing works

Cross-species oncogenomics offers insight into human muscle-invasive bladder cancer

Wong, K., Abascal, F., Ludwig, L., Aupperle‐Lellbach, H., Grassinger, J. M., Wright, C. W., Allison, S. J., Pinder, E., Phillips, R. M., Romero, L. P., et al. (2023) · Genome biology · doi:10.1186/s13059-023-03026-4 · Cited by 23 · see citing works

Distinct effector functions mediated by Fc regions of bovine IgG subclasses and their interaction with Fc gamma receptors

Noble, A., Paudyal, B., Schwartz, J. C., Mwangi, W. N., Munir, D., Tchilian, E. Z., Hammond, J. A., & Graham, S. P. (2023) · Frontiers in Immunology · doi:10.3389/fimmu.2023.1286903 · Cited by 23 · see citing works

Symposium review: Advances in sequencing technology herald a new frontier in cattle genomics and genome-enabled selection

Bickhart, D. M., McClure, J. C., Schnabel, R. D., Rosen, B. D., Medrano, J. F. F., & Smith, T. P. L. (2020) · Journal of Dairy Science · doi:10.3168/jds.2019-17693 · Cited by 28 · see citing works

Investigating the impact of reference assembly choice on genomic analyses in a cattle breed

Lloret‐Villas, A., Bhati, M., Kadri, N. K., Fries, R., & Pausch, H. (2021) · BMC Genomics · doi:10.1186/s12864-021-07554-w · Cited by 29 · see citing works

508. Impact of the bovine reference genome (ARS-UCD1.2) on functional annotation at genome, transcriptome and methylome level

Cánovas, Á., Fonseca, P. A. D. S., McKay, S., & Medrano, J. F. F. (2022) · World Congress on Genetics Applied to Livestock Production (WCGALP) · doi:10.3920/978-90-8686-940-4_508

The new bovine reference genome assembly provides new insight into genomic organization of the bovine major histocompatibility complex

Zorc, M., Ogorevc, J., & Dovč, P. (2019) · Journal of Central European Agriculture · doi:10.5513/jcea01/20.4.2679 · Cited by 19 · see citing works

An improved ovine reference genome assembly to facilitate in-depth functional annotation of the sheep genome

Davenport, K. M., Bickhart, D. M., Worley, K. C., Murali, S. C., Salavati, M., Clark, E. L., Cockett, N. E., Heaton, M. P., Smith, T. P. L., Murdoch, B. M., et al. (2022) · GigaScience · doi:10.1093/gigascience/giab096 · Cited by 88 · see citing works