猪小体型相关受选择基因位点的研究

doi:10.11843/j.issn.0366-6964.2016.10.005

Abstract

Abstract:

In this study，we analyzed genetic differentiation between small- and large-sized Chinese indigenous pigs，aiming to detect signatures of selection and to identify candidate genes and mutations related to small body size.Fixation index (Fst) and heterozygosity were calculated based on whole-genome resequencing data from miniature pigs (Wuzhishan and Bamaxiang) and large-sized pigs (Jinhua，Erhualian and Hetao).The regions with larger Fst values and lower heterozygosity were regarded as candidate regions of selection.Through further annotation on gene function，pathway and mutations of the genes located in the candidate regions，we sought to screen genes and mutations related to body size.In total，32 475 218 SNPs were obtained after stringent filtering from whole-genome resequencing data.Fst and heterozygosity were calculated using 40 kb sliding window strategy.And 242 putative selection regions were kept by applying a Z-transformed Fst (Z(Fst))>5.There are 13 regions overlapped between these 242 regions and the 200 regions with lowest Z-transformed heterozygosity (Z(H))，encompassing 28 genes.Seventeen out of the 28 genes are found to be associated with growth or body size through PANTHER annotation.Among these genes，IGF1R and GUCY1A3 were the most promising candidate genes.Together，by applying population genetic methods，we can detect regions of signature of selection related to body size in pigs.And after comprehensive analysis in gene function and mutations，we proposed that mutation(s) associated with small-sized phenotype in Wuzhishan and Bamaxiang pigs might be located in the non-coding regions detected.

Key words: miniature pigs, whole-genome resequencing, signatures of selection, body size, candidate genes

CLC Number:

S828.2

LI Wan-bo，ZHU Ya-ling，AI Hua-shui，GUO Tian-fu. Identifying Signatures of Selection Related to Small Body Size in Pigs[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2016, 47(10): 1977-1985.

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Identifying Signatures of Selection Related to Small Body Size in Pigs

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