京海黄鸡腹脂重性状的全基因组关联分析

doi:10.16431/j.cnki.1671-7236.2016.05.003

›› 2016, Vol. 43 ›› Issue (5): 1140-1147.doi: 10.16431/j.cnki.1671-7236.2016.05.003

京海黄鸡腹脂重性状的全基因组关联分析

段炼^1,2, 王文浩³, 李婷婷^1,2, 王金玉^1,2, 韩昆鹏^1,2, 王永娟^1,4

1. 扬州大学动物科学与技术学院, 扬州 225009;
2. 江苏省动物遗传繁育与分子设计重点实验室, 扬州 225009;
3. 宜春学院生命科学与环境资源学院, 宜春 336000;
4. 江苏京海集团, 南通 226103

收稿日期:2015-10-14 出版日期:2016-05-20 发布日期:2016-05-23
通讯作者: 王金玉 E-mail:jywang@yzu.edu.cn
作者简介:段炼(1989-),男,江苏扬州人,硕士生,研究方向:动物遗传育种与繁殖,E-mail:517900178@qq.com
基金资助:
国家肉鸡产业技术体系(nycytx-42-G1-05);江苏高校优势学科建设工程;江苏省动物遗传繁育与分子设计重点实验室

Genome-wide Association Study on Abdominal Fat Weight in Jinghai Yellow Chicken

DUAN Lian^1,2, WANG Wen-hao³, LI Ting-ting^1,2, WANG Jin-yu^1,2, HAN Kun-peng^1,2, WANG Yong-juan^1,4

1. College of Animal Science and Technology, Yangzhou University, Yangzhou 225009, China;
2. Key Laboratory for Animal Genetics, Breeding, Reproduction and Molecular Design of Jiangsu Province, Yangzhou 225009, China;
3. College of Life Sciences and Environment Resource, Yichun University, Yichun 336000, China;
4. Jiangsu Jinghai Industry Poultry Group Co., Ltd., Nantong 226103, China

Received:2015-10-14 Online:2016-05-20 Published:2016-05-23

摘要/Abstract

摘要： 试验旨在揭示京海黄鸡腹脂重性状的遗传基础,寻找可用于京海黄鸡腹脂重性状改良的分子标记。本研究以京海黄鸡核心群母鸡为研究对象,测定屠宰时的腹脂重,利用简化基因组测序技术进行全基因组关联研究(GWAS),检测与腹脂重相关的SNPs位点。结果显示,共检测到5个在全基因组水平上与腹脂重存在潜在显著关联的SNP位点(P<1.1×10^-5),并且4个处于染色体水平显著,分别为rs18144674、rs18144680、rs12246236、rs12257795。其中rs18144674、rs18144680、rs19745739位于2号染色体上一个1.6Mb区域内,rs12246236、rs12257795位于14号染色体上1个12kb区域内。筛选这2个区域0.1Mb范围内的基因,共找到11个可能的候选基因,分别为VIM、TRDMT1、AXIN1、PDIA2、ARHGDIG、gga-mir-1763、gga-mir-1564、CLCN7、ECL1、DNASE1和SDOS基因。使用GO数据库对该基因的细胞组分、分子功能和参与的生物进程进行分析,由结果推断出这些基因可能为影响京海黄鸡腹脂重性状的候选基因。

关键词: 简化基因组测序; 京海黄鸡; 腹脂重; 全基因组关联分析

Abstract: The study was conducted to reveal the genetic basis of abdominal fat weight trait and scan molecular markers which could be used to improve the abdominal fat weight.The abdominal fat weight of female Jinghai Yellow chicken in core group were measured after being slaughtered.Genome-wide association study was carried out using specific-locus amplified fragment sequencing technology to detect SNPs associated with abdominal fat weight.Finally, five SNPs that associated with abdominal fat weight and reached suggestive genome-wide significance (P<1.1×10^-5) were found, and four of them (rs18144674, rs18144680, rs12246236 and rs12257795) reached chromosome significance level.Three SNPs (rs18144674, rs18144680 and rs19745739) located in a 1.6 Mb area of chromosome 2, and two SNPs (rs12246236 and rs12257795) located in a 12 kb area of chromosome 14.Genes in the candidate regions with 0.1 Mb windows were screened.Finally, eleven candidate genes of VIM, TRDMT1, AXIN1, PDIA2, ARHGDIG, gga-mir-1763, gga-mir-1564, CLCN7, ECL1, DNASE1 and SDOS were obtained.The molecular function and biological processes were analyzed using GO database.The results showed that those genes might be candidate genes affecting abdominal fat weight in Jinghai Yellow chicken.

Key words: SLAF-seq; Jinghai Yellow chicken; abdominal fat weight; genome-wide association study

中图分类号:

段炼, 王文浩, 李婷婷, 王金玉, 韩昆鹏, 王永娟. 京海黄鸡腹脂重性状的全基因组关联分析[J]. , 2016, 43(5): 1140-1147.

DUAN Lian, WANG Wen-hao, LI Ting-ting, WANG Jin-yu, HAN Kun-peng, WANG Yong-juan. Genome-wide Association Study on Abdominal Fat Weight in Jinghai Yellow Chicken[J]. , 2016, 43(5): 1140-1147.

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京海黄鸡腹脂重性状的全基因组关联分析

Genome-wide Association Study on Abdominal Fat Weight in Jinghai Yellow Chicken

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