Genome-wide survey of SNP variation uncovers the genetic structure of cattle breeds.

TitleGenome-wide survey of SNP variation uncovers the genetic structure of cattle breeds.
Publication TypeJournal Article
Year of Publication2009
AuthorsGibbs, RA, Taylor, JF, Van Tassell, CP, Barendse, W, Eversole, KA, Gill, CA, Green, RD, Hamernik, DL, Kappes, SM, Lien, S, Matukumalli, LK, McEwan, JC, Nazareth, LV, Schnabel, RD, Weinstock, GM, Wheeler, DA, Ajmone-Marsan, P, Boettcher, PJ, Caetano, AR, Garcia, JFernando, Hanotte, O, Mariani, P, Skow, LC, Sonstegard, TS, Williams, JL, Diallo, B, Hailemariam, L, Martinez, ML, Morris, CA, Silva, LOC, Spelman, RJ, Mulatu, W, Zhao, K, Abbey, CA, Agaba, M, Araujo, FR, Bunch, RJ, Burton, J, Gorni, C, Olivier, H, Harrison, BE, Luff, B, Machado, MA, Mwakaya, J, Plastow, G, Sim, W, Smith, T, Thomas, MB, Valentini, A, Williams, P, Womack, J, Woolliams, JA, Liu, Y, Qin, X, Worley, KC, Gao, C, Jiang, H, Moore, SS, Ren, Y, Song, X-Z, Bustamante, CD, Hernandez, RD, Muzny, DM, Patil, S, San Lucas, A, Fu, Q, Kent, MP, Vega, R, Matukumalli, A, McWilliam, S, Sclep, G, Bryc, K, Choi, J, Gao, H, Grefenstette, JJ, Murdoch, B, Stella, A, Villa-Angulo, R, Wright, M, Aerts, J, Jann, O, Negrini, R, Goddard, ME, Hayes, BJ, Bradley, DG, da Silva, MBarbosa, Lau, LPL, Liu, GE, Lynn, DJ, Panzitta, F, Dodds, KG
Corporate AuthorsBovine HapMap Consortium
JournalScience
Volume324
Issue5926
Pagination528-32
Date Published2009 Apr 24
ISSN1095-9203
KeywordsAnimals, Breeding, Cattle, Female, Gene Frequency, Genetic Variation, Genome, Male, Molecular Sequence Data, Mutation, Polymorphism, Single Nucleotide, Population Density
Abstract

The imprints of domestication and breed development on the genomes of livestock likely differ from those of companion animals. A deep draft sequence assembly of shotgun reads from a single Hereford female and comparative sequences sampled from six additional breeds were used to develop probes to interrogate 37,470 single-nucleotide polymorphisms (SNPs) in 497 cattle from 19 geographically and biologically diverse breeds. These data show that cattle have undergone a rapid recent decrease in effective population size from a very large ancestral population, possibly due to bottlenecks associated with domestication, selection, and breed formation. Domestication and artificial selection appear to have left detectable signatures of selection within the cattle genome, yet the current levels of diversity within breeds are at least as great as exists within humans.

DOI10.1126/science.1167936
Alternate JournalScience
PubMed ID19390050
PubMed Central IDPMC2735092
Grant ListBBS/E/D/05191130 / / Biotechnology and Biological Sciences Research Council / United Kingdom
R01 GM083606 / GM / NIGMS NIH HHS / United States
R01 GM083606-02 / GM / NIGMS NIH HHS / United States
U54 HG003273 / HG / NHGRI NIH HHS / United States