Cited by 840Veterinary Equine Medical ResearchGenetic and phenotypic traits in livestockChromosomal and Genetic Variations

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Genome Sequence, Comparative Analysis, and Population Genetics of the Domestic Horse

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Wade, C. M., Giulotto, E., Sigurdsson, S., Zoli, M., Gnerre, S., Imsland, F., Lear, T. L., Adelson, D. L., Bailey, E., Bellone, R. R., Blöcker, H., Distl, O., Edgar, R. C., Garber, M., Leeb, T., Mauceli, E., MacLeod, J. N., Penedo, M. C. T., Raison, J. M., Sharpe, T., Vogel, J., Andersson, L., Antczak, D. F., Biagi, T., Binns, M. M., Chowdhary, B. P., Coleman, S. J., Della Valle, G., Fryc, S., Guérin, G., Hasegawa, T., Hill, E. W., Jurka, J., Kiialainen, A., Lindgren, G., Liu, J., Magnani, E., Mickelson, J. R., Murray, J., Nergadze, S. G., Onofrio, R., Pedroni, S., Piras, M. F., Raudsepp, T., Rocchi, M., Røed, K. H., Ryder, O. A., Searle, S., Skow, L., Swinburne, J. E., Syvänen, A. C., Tozaki, T., Valberg, S. J., Vaudin, M., White, J. R., Zody, M. C., Broad Institute Genome Sequencing Platform, Broad Institute Whole Genome Assembly Team, Lander, E. S., Lindblad-Toh, K.·2009·Science

DOI 10.1126/science.1178158PMC PMC3785132

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Abstract

A Horse Is a Horse, of Course: The history of horse domestication is closely tied to the history of the human society. Wade et al. (p. 865 ) report on the sequencing and provide a single nucleotide polymorphism map of the horse ( Equus caballus ) genome. Horses are a member of the order perissodactyla (odd-toed animals with hooves). The analysis reveals an evolutionarily new centromere on equine chromosome 11 that displays properties of an immature but fully functioning centromere and is devoid of centromeric satellite sequence. The findings clarify the nature of genetic diversity within and across horse breeds and suggest that the horse was domesticated from a relatively large number of females, but few males.

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Additional file 1 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605646
Additional file 13 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605640
Additional file 3 of Runs of homozygosity in Sable Island feral horses reveal the genomic consequences of inbreeding and divergence from domestic breeds
Colpitts, J., McLoughlin, P. D., & Poissant, J. (2022) · Figshare · doi:10.6084/m9.figshare.20296516
Additional file 7 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605667
Additional file 15 of Expanded catalogue of metagenome-assembled genomes reveals resistome characteristics and athletic performance-associated microbes in horse
Li, C., Li, X., Guo, R., Ni, W., Liu, K., Liu, Z., Dai, J., Xu, Y., Abduriyim, S., Wu, Z., et al. (2023) · Figshare · doi:10.6084/m9.figshare.22610692
Additional file 11 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605634
Additional file 21 of Expanded catalogue of metagenome-assembled genomes reveals resistome characteristics and athletic performance-associated microbes in horse
Li, C., Li, X., Guo, R., Ni, W., Liu, K., Liu, Z., Dai, J., Xu, Y., Abduriyim, S., Wu, Z., et al. (2023) · Figshare · doi:10.6084/m9.figshare.22610713
Additional file 12 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605637
Additional file 2 of Machine learning on alignment features for parent-of-origin classification of simulated hybrid RNA-seq
Miller, J. R., & Adjeroh, D. A. (2024) · Figshare · doi:10.6084/m9.figshare.25397673
Additional file 13 of Expanded catalogue of metagenome-assembled genomes reveals resistome characteristics and athletic performance-associated microbes in horse
Li, C., Li, X., Guo, R., Ni, W., Liu, K., Liu, Z., Dai, J., Xu, Y., Abduriyim, S., Wu, Z., et al. (2023) · Figshare · doi:10.6084/m9.figshare.22610686
Additional file 2 of Pathways involved in pony body size development
Fang, J., zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605652
Additional file 5 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605661
Additional file 9 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605673
Additional file 10 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605631
Additional file 6 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605664
Additional file 1 of Machine learning on alignment features for parent-of-origin classification of simulated hybrid RNA-seq
Miller, J. R., & Adjeroh, D. A. (2024) · Figshare · doi:10.6084/m9.figshare.25397436
Additional file 14 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605643
Additional file 2 of Runs of homozygosity in Sable Island feral horses reveal the genomic consequences of inbreeding and divergence from domestic breeds
Colpitts, J., McLoughlin, P. D., & Poissant, J. (2022) · Figshare · doi:10.6084/m9.figshare.20296513
Additional file 4 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605658
Additional file 4 of Expanded catalogue of metagenome-assembled genomes reveals resistome characteristics and athletic performance-associated microbes in horse
Li, C., Li, X., Guo, R., Ni, W., Liu, K., Liu, Z., Dai, J., Xu, Y., Abduriyim, S., Wu, Z., et al. (2023) · Figshare · doi:10.6084/m9.figshare.22610659
Additional file 3 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605655
Additional file 6 of Expanded catalogue of metagenome-assembled genomes reveals resistome characteristics and athletic performance-associated microbes in horse
Li, C., Li, X., Guo, R., Ni, W., Liu, K., Liu, Z., Dai, J., Xu, Y., Abduriyim, S., Wu, Z., et al. (2023) · Figshare · doi:10.6084/m9.figshare.22610665
Additional file 24 of Expanded catalogue of metagenome-assembled genomes reveals resistome characteristics and athletic performance-associated microbes in horse
Li, C., Li, X., Guo, R., Ni, W., Liu, K., Liu, Z., Dai, J., Xu, Y., Abduriyim, S., Wu, Z., et al. (2023) · Figshare · doi:10.6084/m9.figshare.22610725
Additional file 8 of Pathways involved in pony body size development
Fang, J., Zhang, D., Cao, J. W., Zhang, L., Liu, C. X., Xing, Y. P., Wang, F., Xu, H. Y., Wang, S. C., Ling, Y., et al. (2021) · Figshare · doi:10.6084/m9.figshare.13605670
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Authors: Wade, C. M., Giulotto, E., Sigurdsson, S., Zoli, M., Gnerre, S., Imsland, F., Lear, T. L., Adelson, D. L., Bailey, E., Bellone, R. R., Blöcker, H., Distl, O., Edgar, R. C., Garber, M., Leeb, T., Mauceli, E., MacLeod, J. N., Penedo, M. C. T., Raison, J. M., Sharpe, T., Vogel, J., Andersson, L., Antczak, D. F., Biagi, T., Binns, M. M., Chowdhary, B. P., Coleman, S. J., Della Valle, G., Fryc, S., Guérin, G., Hasegawa, T., Hill, E. W., Jurka, J., Kiialainen, A., Lindgren, G., Liu, J., Magnani, E., Mickelson, J. R., Murray, J., Nergadze, S. G., Onofrio, R., Pedroni, S., Piras, M. F., Raudsepp, T., Rocchi, M., Røed, K. H., Ryder, O. A., Searle, S., Skow, L., Swinburne, J. E., Syvänen, A. C., Tozaki, T., Valberg, S. J., Vaudin, M., White, J. R., Zody, M. C., Broad Institute Genome Sequencing Platform, Broad Institute Whole Genome Assembly Team, Lander, E. S., & Lindblad-Toh, K.
Affiliations: Broad Institute (US)
University of Pavia (IT)
Broad Institute, 7 Cambridge Center, Cambridge, MA 02142, USA.
University of Bologna (IT)
Uppsala University (SE)
University of Kentucky (US)
The University of Adelaide (AU)
University of Tampa (US)
Helmholtz Centre for Infection Research (DE)
University of Veterinary Medicine Hannover, Foundation (DE)
45 Monterey Drive, Tiburon, CA 94920, USA.
University of Bern (CH)
University of California, Davis (US)
Wellcome Sanger Institute (GB)
Cornell University (US)
Royal Veterinary College (GB)
Dipartimento di Biologia, Università di Bologna, Via Selmi 3, 40126 Bologna, Italy.
Génétique Animale et Biologie Intégrative (FR)
Japan Racing Association (JP)
University College Dublin (IE)
Genetic Information Research Institute (US)
Swedish University of Agricultural Sciences (SE)
University of Minnesota (US)
Dipartimento di Genetica e Microbiologia, Università di Pavia, Via Ferrata 1, 27100 Pavia, Italy.
University of Bari Aldo Moro (IT)
San Diego Zoo Institute for Conservation Research (US)
Texas A&M University (US)
Animal Health Trust (GB)
Laboratory of Racing Chemistry (JP)
Corresponding author: Wade, C. M.
ORCID: Wade, C. M.
Giulotto, E.
Zoli, M.
Imsland, F.
Adelson, D. L.
Bailey, E.
Bellone, R. R.
Distl, O.
Edgar, R. C.
Garber, M.
Leeb, T.
MacLeod, J. N.
Penedo, M. C. T.
Raison, J. M.
Andersson, L.
Antczak, D. F.
Coleman, S. J.
Hill, E. W.
Kiialainen, A.
Lindgren, G.
Liu, J.
Mickelson, J. R.
Murray, J.
Nergadze, S. G.
Raudsepp, T.
Rocchi, M.
Røed, K. H.
Ryder, O. A.
Skow, L.
Tozaki, T.
Valberg, S. J.
Zody, M. C.
Lander, E. S.
Venue: Science
Publisher: American Association for the Advancement of Science (AAAS)
Published: 2009-11-06
Volume: 326
Issue: 5954
Pages: 865-867
ISSN: 0036-8075 (ISSN-L)
1095-9203
DOI: 10.1126/science.1178158
PMC: PMC3785132
OpenAlex: W2032367243
Cited by: 822
References: 17
Citations by year: 2026: 18 · 2025: 22 · 2024: 23 · 2023: 55 · 2022: 40 · 2021: 58 · 2020: 47 · 2019: 44 · 2018: 56 · 2017: 60 · 2016: 37 · 2015: 54 · 2014: 70 · 2013: 73 · 2012: 56
FWCI: 88.04
Type: journal article
Language: en
Open access: green
www.ncbi.nlm.nih.gov
Locations: Science (publishedVersion)
PubMed (publishedVersion)
Europe PMC (PubMed Central) (acceptedVersion)
PubMed Central (acceptedVersion)
HAL (submittedVersion)
Bern Open Repository and Information System (University of Bern) (submittedVersion)
Archivio istituzionale della ricerca (Alma Mater Studiorum Università di Bologna) (submittedVersion)
Adelaide Research & Scholarship (AR&S) (University of Adelaide) (submittedVersion)
RVC Research Online (Royal Veterinary College) (submittedVersion, cc-by)
CINECA IRIS Institutional Research Information System (University of Bari Aldo Moro) (submittedVersion)
Funders: U.S. Department of Defense (W81XWH1810404, W81XWH, W81XWH1810440, W81XWH2010595, W81XWH-18, W81XWH1910668)
U.S. Department of Veterans Affairs (IBX004121A)
Cancer Research Institute (18/SPP/3522)
Breast Cancer Research Foundation (CCRC13GAL, 17–194, CA116201)
Bristol-Myers Squibb
Eli Lilly and Company
AstraZeneca (18/SPP/3522)
Gilead Sciences
Susan G. Komen
Wellcome Trust (098051)
Irish Research eLibrary
Cancer Research UK (CRUK/07/012, C45982/A21808, A21808, CA116201)
European Commission (860627, HORIZON2020, CA116201)
National Breast Cancer Foundation (CA116201, EC-17-001)
Higher Education Authority
Irish Cancer Society ((CCRC13GAL))
Science Foundation Ireland (18/SPP/3522, 15/IA/3104, 15/IA/)
Agence Nationale de la Recherche (ANR‐19, ANR-19-P3IA-0001, ANR-17, ANR-17-CONV-0005, CA116201)
Ministerie van Volksgezondheid, Welzijn en Sport
Svenska Sällskapet för Medicinsk Forskning
KU Leuven
Fondation ARC pour la Recherche sur le Cancer
Ligue Contre le Cancer (CA116201)
Peter MacCallum Cancer Centre (UH3CA225021, U24CA215109)
KWF Kankerbestrijding (CA116201)
National Institutes of Health (CA11620 1, 1u54ca254566-01, -0001, W81XWH, 1r33ca263705-01, CA196521, CA225655, DK124165, P50 CA247749 01, CA224319)
Medical Research Council (CA116201)
Engineering and Physical Sciences Research Council (EP/W02909X/1)
National Health and Medical Research Council (1162318, 1193630)
Japan Society for the Promotion of Science (21102, 21K06909)
National Human Genome Research Institute (U54HG003067)
National Cancer Institute (CA247749, UH3CA225021, R01CA216579, 1U54CA254566‐01, P50-CA247749-01, CA-116201, CA196521, U01CA239055, R01CA208236, DK124165, R01CA202752, R01CA220581, R01CA268207-01A1, U24CA215109,, R37CA225655, P50CA247749, R01CA268287A1, CA224319, R01CA257612, R01CA249992, P50CA116201, U01CA269181)
DOD Prostate Cancer Research Program (W81XWH-21-1-0160, W81XWH-20-1-0851)
DOD Peer Reviewed Cancer Research Program (W81XWH-21-1-0160, W81XWH‐21‐1‐0345, W81XWH-18-1-0440, W81XWH-18-1-0404)
Topics: Health Sciences › Veterinary › Equine › Veterinary Equine Medical Research
Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Genetic and phenotypic traits in livestock
Life Sciences › Biochemistry, Genetics and Molecular Biology › Genetics › Chromosomal and Genetic Variations
Keywords: horses, horse genome, comparative genomics, karyotype evolution, synteny, centromere evolution, centromeric satellite DNA, linkage disequilibrium, domestication, haplotype sharing, horse breeds, population genetics
MeSH terms: Animals, Animals, Domestic, Centromere, Chromosome Mapping, Dogs, Female, Genes, Haplotypes, Horses, Humans, Molecular Sequence Data, Phylogeny, Repetitive Sequences, Nucleic Acid, Genome, Sequence Analysis, DNA, Evolution, Molecular, Computational Biology, Synteny, Chromosomes, Mammalian, DNA Copy Number Variations

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Genome Sequence, Comparative Analysis, and Population Genetics of the Domestic Horse

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