Genetic Diversity in the Modern Horse Illustrated from Genome-Wide SNP Data

Jessica L. Petersen, James R. Mickelson, E. Gus Cothran, Lisa S. Andersson, Jeanette Axelsson, Ernie Bailey, Danika Bannasch, Matthew M. Binns, Alexandre S. Borges, Pieter Brama, Artur da Câmara Machado, Ottmar Distl, Michela Felicetti, Laura Fox-Clipsham, Kathryn T. Graves, Gérard Guérin, Bianca Haase, Telhisa Hasegawa, Karin Hemmann, Emmeline W. HillTosso Leeb, Gabriella Lindgren, Hannes Lohi, Maria Susana Lopes, Beatrice A. McGivney, Sofia Mikko, Nicholas Orr, M. Cecilia T. Penedo, Richard J. Piercy, Marja Raekallio, Stefan Rieder, Knut H. Røed, Maurizio Silvestrelli, June Swinburne, Teruaki Tozaki, Mark Vaudin, Claire M. Wade, Molly E. McCue

Research output: Contribution to journalArticle

88 Citations (Scopus)

Abstract

Horses were domesticated from the Eurasian steppes 5,000-6,000 years ago. Since then, the use of horses for transportation, warfare, and agriculture, as well as selection for desired traits and fitness, has resulted in diverse populations distributed across the world, many of which have become or are in the process of becoming formally organized into closed, breeding populations (breeds). This report describes the use of a genome-wide set of autosomal SNPs and 814 horses from 36 breeds to provide the first detailed description of equine breed diversity. FST calculations, parsimony, and distance analysis demonstrated relationships among the breeds that largely reflect geographic origins and known breed histories. Low levels of population divergence were observed between breeds that are relatively early on in the process of breed development, and between those with high levels of within-breed diversity, whether due to large population size, ongoing outcrossing, or large within-breed phenotypic diversity. Populations with low within-breed diversity included those which have experienced population bottlenecks, have been under intense selective pressure, or are closed populations with long breed histories. These results provide new insights into the relationships among and the diversity within breeds of horses. In addition these results will facilitate future genome-wide association studies and investigations into genomic targets of selection.

Original languageEnglish (US)
Article numbere54997
JournalPloS one
Volume8
Issue number1
DOIs
StatePublished - Jan 30 2013

Fingerprint

Horses
Single Nucleotide Polymorphism
Genes
Genome
breeds
horses
genetic variation
genome
Military operations
Agriculture
Population
Genome-Wide Association Study
Population Density
Breeding
horse breeds
history
outcrossing
steppes
provenance
population size

ASJC Scopus subject areas

  • Biochemistry, Genetics and Molecular Biology(all)
  • Agricultural and Biological Sciences(all)

Cite this

Petersen, J. L., Mickelson, J. R., Cothran, E. G., Andersson, L. S., Axelsson, J., Bailey, E., ... McCue, M. E. (2013). Genetic Diversity in the Modern Horse Illustrated from Genome-Wide SNP Data. PloS one, 8(1), [e54997]. https://doi.org/10.1371/journal.pone.0054997

Genetic Diversity in the Modern Horse Illustrated from Genome-Wide SNP Data. / Petersen, Jessica L.; Mickelson, James R.; Cothran, E. Gus; Andersson, Lisa S.; Axelsson, Jeanette; Bailey, Ernie; Bannasch, Danika; Binns, Matthew M.; Borges, Alexandre S.; Brama, Pieter; da Câmara Machado, Artur; Distl, Ottmar; Felicetti, Michela; Fox-Clipsham, Laura; Graves, Kathryn T.; Guérin, Gérard; Haase, Bianca; Hasegawa, Telhisa; Hemmann, Karin; Hill, Emmeline W.; Leeb, Tosso; Lindgren, Gabriella; Lohi, Hannes; Lopes, Maria Susana; McGivney, Beatrice A.; Mikko, Sofia; Orr, Nicholas; Penedo, M. Cecilia T.; Piercy, Richard J.; Raekallio, Marja; Rieder, Stefan; Røed, Knut H.; Silvestrelli, Maurizio; Swinburne, June; Tozaki, Teruaki; Vaudin, Mark; M. Wade, Claire; McCue, Molly E.

In: PloS one, Vol. 8, No. 1, e54997, 30.01.2013.

Research output: Contribution to journalArticle

Petersen, JL, Mickelson, JR, Cothran, EG, Andersson, LS, Axelsson, J, Bailey, E, Bannasch, D, Binns, MM, Borges, AS, Brama, P, da Câmara Machado, A, Distl, O, Felicetti, M, Fox-Clipsham, L, Graves, KT, Guérin, G, Haase, B, Hasegawa, T, Hemmann, K, Hill, EW, Leeb, T, Lindgren, G, Lohi, H, Lopes, MS, McGivney, BA, Mikko, S, Orr, N, Penedo, MCT, Piercy, RJ, Raekallio, M, Rieder, S, Røed, KH, Silvestrelli, M, Swinburne, J, Tozaki, T, Vaudin, M, M. Wade, C & McCue, ME 2013, 'Genetic Diversity in the Modern Horse Illustrated from Genome-Wide SNP Data', PloS one, vol. 8, no. 1, e54997. https://doi.org/10.1371/journal.pone.0054997
Petersen JL, Mickelson JR, Cothran EG, Andersson LS, Axelsson J, Bailey E et al. Genetic Diversity in the Modern Horse Illustrated from Genome-Wide SNP Data. PloS one. 2013 Jan 30;8(1). e54997. https://doi.org/10.1371/journal.pone.0054997
Petersen, Jessica L. ; Mickelson, James R. ; Cothran, E. Gus ; Andersson, Lisa S. ; Axelsson, Jeanette ; Bailey, Ernie ; Bannasch, Danika ; Binns, Matthew M. ; Borges, Alexandre S. ; Brama, Pieter ; da Câmara Machado, Artur ; Distl, Ottmar ; Felicetti, Michela ; Fox-Clipsham, Laura ; Graves, Kathryn T. ; Guérin, Gérard ; Haase, Bianca ; Hasegawa, Telhisa ; Hemmann, Karin ; Hill, Emmeline W. ; Leeb, Tosso ; Lindgren, Gabriella ; Lohi, Hannes ; Lopes, Maria Susana ; McGivney, Beatrice A. ; Mikko, Sofia ; Orr, Nicholas ; Penedo, M. Cecilia T. ; Piercy, Richard J. ; Raekallio, Marja ; Rieder, Stefan ; Røed, Knut H. ; Silvestrelli, Maurizio ; Swinburne, June ; Tozaki, Teruaki ; Vaudin, Mark ; M. Wade, Claire ; McCue, Molly E. / Genetic Diversity in the Modern Horse Illustrated from Genome-Wide SNP Data. In: PloS one. 2013 ; Vol. 8, No. 1.
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