Whole-genome sequencing of eight goat populations for the detection of selection signatures underlying production and adaptive traits

Citations Over TimeTop 10% of 2016 papers

Abstract

The goat (Capra hircus) is one of the first farm animals that have undergone domestication and extensive natural and artificial selection by adapting to various environments, which in turn has resulted in its high level of phenotypic diversity. Here, we generated medium-coverage (9-13×) sequences from eight domesticated goat breeds, representing morphologically or geographically specific populations, to identify genomic regions representing selection signatures. We discovered ~10 million single nucleotide polymorphisms (SNPs) for each breed. By combining two approaches, ZH_p and di values, we identified 22 genomic regions that may have contributed to the phenotypes in coat color patterns, body size, cashmere traits, as well as high altitude adaptation in goat populations. Candidate genes underlying strong selection signatures including coloration (ASIP, KITLG, HTT, GNA11, and OSTM1), body size (TBX15, DGCR8, CDC25A, and RDH16), cashmere traits (LHX2, FGF9, and WNT2), and hypoxia adaptation (CDK2, SOCS2, NOXA1, and ENPEP) were identified. We also identified candidate functional SNPs within selected genes that may be important for each trait. Our results demonstrated the potential of using sequence data in identifying genomic regions that are responsible for agriculturally significant phenotypes in goats, which in turn can be used in the selection of goat breeds for environmental adaptation and domestication.

Related Papers

• → Pig domestication in ancient China(2002)142 cited
• → Nutritional Values and Therapeutic Uses of Capra hircus Milk(2022)11 cited
• → Effect of artificial selection on female choice among domesticated chickens Gallus gallus f.d.(2009)7 cited
• Milk yield and composition in Swedish landrace goats (Capra hircus) kept together with their kids in two different systems Mjölkmängd och sammansättning hos svenska lantrasgetter (Capra hircus) som hålls tillsammans med sina killingar i två olika system(2011)
• → Animal domestications(2013)2 cited