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PLoS One. 2014 Aug 15;9(8):e103813. doi: 10.1371/journal.pone.0103813. eCollection 2014.

Selection signatures in worldwide sheep populations.

Author information

1
Génétique, Physiologie et Systèmes d'Élevage, Institut National de la Recherche Agronomique & Ecole Nationale Vétérinaire de Toulouse & Ecole Nationale Supérieure Agronomique de Toulouse, Castanet-Tolosan, France; Instituto de matemática y Estadística Prof. Ing. Rafael Laguardia, Facultad de Ingeniera, Universidad de la República, Montevideo, Uruguay; Bioinformatics Unit, Institut Pasteur, Montevideo, Uruguay.
2
Génétique, Physiologie et Systèmes d'Élevage, Institut National de la Recherche Agronomique & Ecole Nationale Vétérinaire de Toulouse & Ecole Nationale Supérieure Agronomique de Toulouse, Castanet-Tolosan, France.
3
Génétique Animale et Biologie Intégrative, Institut National de la Recherche Agronomique & AgroParisTech, Jouy-en-Josas, France; Origine, Structure et Evolution de la Biodiversité, Museum National d'Histoire Naturelle & Ecole Pratique des Hautes Etudes & CNRS, Paris, France.

Abstract

The diversity of populations in domestic species offers great opportunities to study genome response to selection. The recently published Sheep HapMap dataset is a great example of characterization of the world wide genetic diversity in sheep. In this study, we re-analyzed the Sheep HapMap dataset to identify selection signatures in worldwide sheep populations. Compared to previous analyses, we made use of statistical methods that (i) take account of the hierarchical structure of sheep populations, (ii) make use of linkage disequilibrium information and (iii) focus specifically on either recent or older selection signatures. We show that this allows pinpointing several new selection signatures in the sheep genome and distinguishing those related to modern breeding objectives and to earlier post-domestication constraints. The newly identified regions, together with the ones previously identified, reveal the extensive genome response to selection on morphology, color and adaptation to new environments.

PMID:
25126940
PMCID:
PMC4134316
DOI:
10.1371/journal.pone.0103813
[Indexed for MEDLINE]
Free PMC Article

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