Zhu Caiye, Fan Hongying, Yuan Zehu, Hu Shijin, Ma Xiaomeng, Xuan Junli, Wang Hongwei, Zhang Li, Wei Caihong, Zhang Qin, Zhao Fuping, Du Lixin
National Center for Molecular Genetics and Breeding of Animals, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China.
College of Animal Science and Technology, China Agricultural University, Beijing 100193, China.
Sci Rep. 2016 Jun 10;6:27822. doi: 10.1038/srep27822.
Chinese indigenous sheep can be classified into three types based on tail morphology: fat-tailed, fat-rumped, and thin-tailed sheep, of which the typical breeds are large-tailed Han sheep, Altay sheep, and Tibetan sheep, respectively. To unravel the genetic mechanisms underlying the phenotypic differences among Chinese indigenous sheep with tails of three different types, we used ovine high-density 600K SNP arrays to detect genome-wide copy number variation (CNV). In large-tailed Han sheep, Altay sheep, and Tibetan sheep, 371, 301, and 66 CNV regions (CNVRs) with lengths of 71.35 Mb, 51.65 Mb, and 10.56 Mb, respectively, were identified on autosomal chromosomes. Ten CNVRs were randomly chosen for confirmation, of which eight were successfully validated. The detected CNVRs harboured 3130 genes, including genes associated with fat deposition, such as PPARA, RXRA, KLF11, ADD1, FASN, PPP1CA, PDGFA, and PEX6. Moreover, multilevel bioinformatics analyses of the detected candidate genes were significantly enriched for involvement in fat deposition, GTPase regulator, and peptide receptor activities. This is the first high-resolution sheep CNV map for Chinese indigenous sheep breeds with three types of tails. Our results provide valuable information that will support investigations of genomic structural variation underlying traits of interest in sheep.
肥尾羊、肥臀羊和瘦尾羊，其典型品种分别为大尾寒羊、阿勒泰羊和藏羊。为了揭示三种不同类型尾巴的中国本土绵羊表型差异背后的遗传机制，我们使用绵羊高密度600K SNP芯片检测全基因组拷贝数变异（CNV）。在大尾寒羊、阿勒泰羊和藏羊中，分别在常染色体上鉴定出371个、301个和66个CNV区域（CNVR），长度分别为71.35 Mb、51.65 Mb和10.56 Mb。随机选择10个CNVR进行验证，其中8个成功验证。检测到的CNVR包含3130个基因，包括与脂肪沉积相关的基因，如PPARA、RXRA、KLF11、ADD1、FASN、PPP1CA、PDGFA和PEX6。此外，对检测到的候选基因进行的多级生物信息学分析在脂肪沉积、GTPase调节和肽受体活性方面显著富集。这是首张针对三种尾巴类型的中国本土绵羊品种的高分辨率绵羊CNV图谱。我们的结果提供了有价值的信息，将支持对绵羊感兴趣性状背后的基因组结构变异的研究。
