Dataset Information

Convergent genomic signatures of domestication in sheep and goats.

ABSTRACT: The evolutionary basis of domestication has been a longstanding question and its genetic architecture is becoming more tractable as more domestic species become genome-enabled. Before becoming established worldwide, sheep and goats were domesticated in the fertile crescent 10,500 years before present (YBP) where their wild relatives remain. Here we sequence the genomes of wild Asiatic mouflon and Bezoar ibex in the sheep and goat domestication center and compare their genomes with that of domestics from local, traditional, and improved breeds. Among the genomic regions carrying selective sweeps differentiating domestic breeds from wild populations, which are associated among others to genes involved in nervous system, immunity and productivity traits, 20 are common to Capra and Ovis. The patterns of selection vary between species, suggesting that while common targets of selection related to domestication and improvement exist, different solutions have arisen to achieve similar phenotypic end-points within these closely related livestock species.

SUBMITTER: Alberto FJ

PROVIDER: S-EPMC5840369 | biostudies-literature | 2018 Mar

REPOSITORIES: biostudies-literature

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Convergent genomic signatures of domestication in sheep and goats.

Alberto Florian J FJ Boyer Frédéric F Orozco-terWengel Pablo P Streeter Ian I Servin Bertrand B de Villemereuil Pierre P Benjelloun Badr B Librado Pablo P Biscarini Filippo F Colli Licia L Barbato Mario M Zamani Wahid W Alberti Adriana A Engelen Stefan S Stella Alessandra A Joost Stéphane S Ajmone-Marsan Paolo P Negrini Riccardo R Orlando Ludovic L Rezaei Hamid Reza HR Naderi Saeid S Clarke Laura L Flicek Paul P Wincker Patrick P Coissac Eric E Kijas James J Tosser-Klopp Gwenola G Chikhi Abdelkader A Bruford Michael W MW Taberlet Pierre P Pompanon François F

Nature communications 20180306 1

The evolutionary basis of domestication has been a longstanding question and its genetic architecture is becoming more tractable as more domestic species become genome-enabled. Before becoming established worldwide, sheep and goats were domesticated in the fertile crescent 10,500 years before present (YBP) where their wild relatives remain. Here we sequence the genomes of wild Asiatic mouflon and Bezoar ibex in the sheep and goat domestication center and compare their genomes with that of domest ...[more]

PMID: 29511174

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Project description:BACKGROUND:The current large spectrum of sheep phenotypic diversity results from the combined product of sheep selection for different production traits such as wool, milk and meat, and its natural adaptation to new environments. In this study, we scanned the genome of 25 Sasi Ardi and 75 Latxa sheep from the Western Pyrenees for three types of regions under selection: (1) regions underlying local adaptation of Sasi Ardi semi-feral sheep, (2) regions related to a long traditional dairy selection pressure in Latxa sheep, and (3) regions experiencing the specific effect of the modern genetic improvement program established for the Latxa breed during the last three decades. RESULTS:Thirty-two selected candidate regions including 147 annotated genes were detected by using three statistical parameters: pooled heterozygosity H, Tajima's D, and Wright's fixation index Fst. For Sasi Ardi sheep, chromosomes Ovis aries (OAR)4, 6, and 22 showed the strongest signals and harbored several candidate genes related to energy metabolism and morphology (BBS9, ELOVL3 and LDB1), immunity (NFKB2), and reproduction (H2AFZ). The major genomic difference between Sasi Ardi and Latxa sheep was on OAR6, which is known to affect milk production, with highly selected regions around the ABCG2, SPP1, LAP3, NCAPG, LCORL, and MEPE genes in Latxa sheep. The effect of the modern genetic improvement program on Latxa sheep was also evident on OAR15, on which several olfactory genes are located. We also detected several genes involved in reproduction such as ESR1 and ZNF366 that were affected by this selection program. CONCLUSIONS:Natural and artificial selection have shaped the genome of both Sasi Ardi and Latxa sheep. Our results suggest that Sasi Ardi traits related to energy metabolism, morphological, reproductive, and immunological features have been under positive selection to adapt this semi-feral sheep to its particular environment. The highly selected Latxa sheep for dairy production showed clear signatures of selection in genomic regions related to milk production. Furthermore, our data indicate that the selection criteria applied in the modern genetic improvement program affect immunity and reproduction traits.

Dataset Information

Convergent genomic signatures of domestication in sheep and goats.

Publications

Convergent genomic signatures of domestication in sheep and goats.

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