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

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.

DOI: 10.1126/science.1167936

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@article{Gibbs2009GenomewideSO, title={Genome-wide survey of SNP variation uncovers the genetic structure of cattle breeds.}, author={Richard A. Gibbs and Jeremy F. Taylor and Curtis P Van Tassell and William Barendse and Kellye A Eversole and Clare Gill and Ronnie D. Green and Debora L. Hamernik and Steven M. Kappes and Sigbj\orn Lien and Lakshmi K. Matukumalli and J C McEwan and Lynne V. Nazareth and Robert D. Schnabel and George M. Weinstock and David A. Wheeler and Paolo Ajmone-Marsan and Paul J. Boettcher and Alexandre R. Caetano and Jos{\'e} Fernando Garcia and Olivier Hanotte and Paola Mariani and Loren C. Skow and Tad S. Sonstegard and Giulietta Minozzi and Boubacar Djello Diallo and Lemecha Hailemariam and M{\'a}rio Luiz Martinez and Chris A. Morris and Luiz O. C. Silva and Richard J. Spelman and Woudyalew Mulatu and Keyan Zhao and Colette A. Abbey and Morris K. Agaba and Fl{\'a}bio Ribeiro de Ara{\'u}jo and Rowan J. Bunch and James Burton and Chiara Gorni and Hanotte Olivier and Blair E. Harrison and Bill Luff and Marco Antonio Machado and Joel Mwakaya and Graham S. Plastow and Warren Sim and Timothy D. Smith and Merle B Thomas and Alessio Valentini and Paul Williams and James E. Womack and John A. Woolliams and Yue Liu and Xiang Qin and Kim Worley and Chuan Gao and Huaiyang Jiang and Steve Moore and Yanru Ren and Xing-zhi Song and Carlos D. Bustamante and Ryan D. Hernandez and Donna M. Muzny and Shobha D. Patil and Anthony San Lucas and Qing Fu and Matthew Kent and Richard B Vega and Aruna Matukumalli and Sean McWilliam and Gert Sclep and Katarzyna Bryc and Jungwoo Choi and Hong Gao and John J. Grefenstette and Brenda M. Murdoch and Alessandra Stella and Rafael Villa-Angulo and Mark H. Wright and Jan Aerts and Oliver Carl Jann and Riccardo Negrini and M. E. Goddard and Ben J. Hayes and Daniel G Bradley and Marcos Vinicius Gualberto Barbosa da Silva and Lilian P L Lau and George E. Liu and David J. Lynn and Francesca Panzitta and Ken G. Dodds}, journal={Science}, year={2009}, volume={324 5926}, pages={528-32} }