基于高密度SNP标记的肉牛人工选择痕迹筛查

doi:10.3724/SP.J.1005.2012.01304

遗传 ›› 2012, Vol. 34 ›› Issue (10): 1304-1313.doi: 10.3724/SP.J.1005.2012.01304

基于高密度SNP标记的肉牛人工选择痕迹筛查

刘喜冬^1,2, 王志鹏², 樊惠中¹, 李俊雅¹, 高会江¹

1. 中国农业科学院北京畜牧兽医研究所, 中国农业科学院肉牛研究中心, 农业部畜禽遗传资源与利用重点开放实验室, 北京 100193 2. 东北农业大学动物科学技术学院, 哈尔滨 150030

收稿日期:2012-05-25 修回日期:2012-08-13 出版日期:2012-10-20 发布日期:2012-10-25
通讯作者: 高会江 E-mail:gaohj111@sina.com
基金资助:
优质肉牛新品种(系)选育与关键技术研究及示范项目(编号：2011BAD28B04), 基于高密度SNP建立中国肉牛群体全基因组选择优化方案(编号：2010jc-2)和现代农业(肉牛)产业技术体系岗位科学家项目(编号：CARS-38)资助

Artificial selection for cattle based on high-density SNP markers

LIU Xi-Dong^1,2, WANG Zhi-Peng², FAN Hui-Zhong¹, LI Jun-Ya¹, GAO Hui-Jiang¹

1. Key Laboratory of Farm Animal Genetic Resources and Utilization of Ministry of Agriculture, Beef Cattle Research Center, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing 100193, China 2. College of Animal Science and Technology, Northeast Agricultural University, Harbin 150030, China

Received:2012-05-25 Revised:2012-08-13 Online:2012-10-20 Published:2012-10-25

摘要/Abstract

摘要： 近年来随着遗传改良工作的实施, 人工选择大大提高了肉牛的生产性能并使其遗传基础发生巨大改变。文章基于Illumina BovineSNP50(54K)和BovineHD(770K)两款芯片数据, 采用F_ST检验方法分析牛群的遗传分化, 并筛查人工选择在牛的基因组留下的印记。通过全基因组范围内的扫描, 共发现47 104个“离群”位点和3064个群体特异的人工选择“候选基因”, 如CLIC5、TG、CACNA2D1、FSHR等。通过基因注释对基因的生物学过程和分子功能进行富集分析。文章构建了我国肉牛的全基因组的选择信号图谱, 为深入研究人工选择和理解生物进化提供线索, 且研究结果也显示人工选择对基因组的影响在牛品种遗传改良中发挥了重要作用。

关键词: 牛的基因组, 人工选择, 单核苷酸多态性, 基因注释

Abstract: With the implementation of genetic improvement in recent years, artificial selection has greatly improved beef cattle production performance and its genetic basis has been dramatically changed. In this study, based on the Illumina BovineSNP50 (54K) and BovineHD (770K) BeadChip and the F_ST value, we analyzed the genetic differentiation of cattle and screened the imprints of selection in bovine genome. Finally, we found 47104 OUTLIER SNP loci and 3064 candidate genes, for example, CLIC5, TG, CACNA2D1, and FSHR etc. The biological proc-esses and molecular functions of genes were analyzed through gene annotation.The results of this study established a ge-nome-wide map of selection footprints in beef cattle genome and a clue for in-depth study of artificial selection and under-standing of biological evolution.Our results indicate that artificial selection has played an important role in cattle breed genetic improvement.

Key words: bovine genome, artificial selection, single nucleotide polymorphism, gene annotation

刘喜冬，王志鹏，樊惠中，李俊雅，高会江. 基于高密度SNP标记的肉牛人工选择痕迹筛查[J]. 遗传, 2012, 34(10): 1304-1313.

LIU Xi-Dong, WANG Zhi-Peng, FAN Hui-Zhong, LI Jun-Ya, GAO Hui-Jiang. Artificial selection for cattle based on high-density SNP markers[J]. HEREDITAS, 2012, 34(10): 1304-1313.

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基于高密度SNP标记的肉牛人工选择痕迹筛查

Artificial selection for cattle based on high-density SNP markers

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