基于群体分化指数FST的绵羊全基因组选择信号检测

doi:10.11843/j.issn.0366-6964.2013.12.005

畜牧兽医学报 ›› 2013, Vol. 44 ›› Issue (12): 1891-1899.doi: 10.11843/j.issn.0366-6964.2013.12.005

基于群体分化指数F_ST的绵羊全基因组选择信号检测

曾滔^1,2,赵福平²，王光凯²，吴明明^2,3，魏彩虹²，张莉²，李利¹，张红平^1*，杜立新^2*

(1.四川农业大学动物科技学院，雅安 625014； 2.中国农业科学院北京畜牧兽医研究所，北京 100193；3.中国农业大学动物科技学院，北京 100193)

收稿日期:2013-07-11 出版日期:2013-12-23 发布日期:2013-12-24
通讯作者: 张红平，教授，E-mail：zhp2847@sohu.com；杜立新，教授，E-mail：lxdu@263.net
作者简介:曾滔（1988-），男，四川雅安人，硕士，主要从事动物遗传育种研究，E-mail:596670682@qq.com；赵福平（1981-），男，湖南衡阳人，助理研究员，博士，主要从事动物遗传育种研究，E-mail：zhaofuping@caas.cn。二者为并列第一作者
基金资助:
现代农业产业技术体系建设专项肉羊体系岗位科学家（CARS-39-04B）；中国农业科学院北京畜牧兽医研究所中央级公益性科研院所基本科研业务费专项资金项目（2012cj-2）

Genome-wide Detection of Selection Signatures in Sheep Populations with Use of Population Differentiation Index F_ST

ZENG Tao^1,2, ZHAO Fu-ping², WANG Guang-kai², WU Ming-ming^2,3,WEI Cai-hong², ZHANG Li², LI Li¹, ZHANG Hong-ping^1*, DU Li-xin^2*

(1.College of Animal Science and Technology, Sichuan Agricultural University, Ya′an 625014, China;2. Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing 100193, China;3. College of Animal Science and Technology, China Agricultural University, Beijing 100193, China)

Received:2013-07-11 Online:2013-12-23 Published:2013-12-24
Supported by:

摘要/Abstract

摘要：

本研究基于苏尼特羊（n=66）、德国肉用美利奴羊(n=159)和杜泊羊(n=93)3个群体的Illumina Ovine SNP50 芯片分型数据，借助群体分化指数F_ST法进行群体间选择信号的检测分析，应用生物信息学方法分析寻找选择信号区域内的重要基因。结果，共找到343个“离群”位点，通过基因注释找到这些位点对应的365个候选基因。其中部分基因与绵羊生长、繁殖及肉质性状相关，如IGF2PB3、IGF1R、BMP2、BMPR1B、CAPN3等，本研究结果也进一步验证了前期利用CNV和GWAS研究检测到的基因结果。通过GO分析发现，这些基因主要富集在新陈代谢和去甲基化等条目。通过群体分化指数F_ST能有效地检测到具有选择信号的基因，其中包括绵羊部分重要经济性状的候选基因，研究结果能为绵羊的育种提供参考。

关键词: 绵羊基因组, 选择信号, 候选基因, 群体分化指数（F_ST）

Abstract:

Based on the Illumina Ovine SNP50 Breadchip genotyping data of Sunite sheep (n=66), German Mutton sheep (n=159) and Dorper sheep（n=93）, population differentiation index F_ST was adopted to detect the selection signatures, and the genes located in selection signature regions were found by bioinformatics analyses. 343 OUTLIER SNP loci were found, harboring 365 candidate genes. Some of them were related to reproduction, meat quality and growth-related traits, such as IGF2PB3, IGF1R, BMP2, BMPR1B and CAPN3, which validated the results of our previous CNV and GWAS analyses. The result of GO analysis showed that these candidate genes enriched in the GO terms related to metabolic process and demethylation. Population differentiation index F_ST can be used for detecting the genes with selection signatures. These genes identified can be used as candidate genes affecting the economically important traits in sheep. This study can provide theoretical references for sheep breeding.

Key words: sheep genome, selection signatures, candidate gene, population differentiation index F_ST

中图分类号:

S826
S813.1

曾滔,赵福平，王光凯，吴明明，魏彩虹，张莉，李利，张红平，杜立新. 基于群体分化指数F_ST的绵羊全基因组选择信号检测[J]. 畜牧兽医学报, 2013, 44(12): 1891-1899.

ZENG Tao, ZHAO Fu-ping, WANG Guang-kai, WU Ming-ming,WEI Cai-hong, ZHANG Li, LI Li, ZHANG Hong-ping, DU Li-xin. Genome-wide Detection of Selection Signatures in Sheep Populations with Use of Population Differentiation Index F_ST[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2013, 44(12): 1891-1899.

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基于群体分化指数F_ST的绵羊全基因组选择信号检测

Genome-wide Detection of Selection Signatures in Sheep Populations with Use of Population Differentiation Index F_ST

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基于群体分化指数FST的绵羊全基因组选择信号检测

Genome-wide Detection of Selection Signatures in Sheep Populations with Use of Population Differentiation Index FST

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基于群体分化指数F_ST的绵羊全基因组选择信号检测

Genome-wide Detection of Selection Signatures in Sheep Populations with Use of Population Differentiation Index F_ST