京海黄鸡体组成性状的全基因组关联分析

doi:10.11843/j.issn.0366-6964.2015.09.004

摘要/Abstract

摘要：

为了获得影响京海黄鸡体组成性状的SNPs标记及候选基因，为京海黄鸡的进一步遗传改良提供新的方法，本研究使用Illumina公司的鸡60K SNP芯片，对京海黄鸡13个体组成性状进行全基因组关联分析。共筛选出13个与体组成性状达到5％Bonferroni全基因组显著相关的SNPs（P<1.8E-6），130个达到5％Bonferroni全基因组潜在相关的SNPs（P<3.59E-5）。13个显著SNPs位于GRIK1、NCAPG、KCNIP4和CACNA2D2等12个基因的附近或内部，其中6个SNPs位于4号染色体上一个1.6 Mb区域（74.3～75.9 Mb）。130个潜在显著的SNPs中，有25个集中分布在4号染色体上的一个7.4 Mb（71.5～78.9 Mb）的区域内。共构建了5 650种单倍型，其中，14个与京海黄鸡6个体组成性状显著相关，14个单倍型中，9个位于4号染色体74.3～75.9 Mb区域内，该区域内包括LCORL、QDPR、KCNIP4、LDB2和FAM184B在内的多个功能基因。本研究结果表明，位于4号染色体的71.5～78.9 Mb区域以及该区域附近的GRIK1、NCAPG、KCNIP4、CACNA2D2、LCORL、QDPR、KCNIP4、LDB2和FAM184B基因对京海黄鸡的体组成有重要影响。

Abstract:

To scan SNPs and candidate genes affecting body composition traits and provide new methods for further genetic improvement of Jinghai Yellow chicken，a genome-wide association study on 13 body composition traits was carried out using the Illumina chicken 60K SNP Beadchip in Jinghai Yellow chicken in the present study.The result showed that a total of 13 SNPs reached 5％ Bonferroni genome-wide significant level(P<1.8E-6) and 130 SNPs reached “suggestive” genome-wide significant level(P<3.59E-5) with body composition traits.The 13 significant SNPs were located nearby or in 12 candidate genes including GRIK1，NCAPG， KCNIP4，CACNA2D2，and so on，among which 6 SNPs were located in a region approximately 1.6 Mb in length on chicken chromosome 4(74.3-75.9 Mb).Among the 130 “suggestive” significant SNPs，25 SNPs were located in a region 7.4 Mb(71.5-78.9 Mb) in length on chicken chromosome 4.5 650 haplotpyes were established and 14 of them were found to be associated with 6 body composition traits.Nine out of 14 haplotypes were located in the region of 74.3-75.9 Mb on chicken chromosome 4.Five candidate genes of LCORL，QDPR，KCNIP4，LDB2 and FAM184B were located in this region.The present study suggested that genes located in the region of 71.5-78.9 Mb on chicken chromosome 4 and GRIK1，NCAPG，KCNIP4，CACNA2D2，LCORL，QDPR，KCNIP4，LDB2，FAM184B genes might play important role in regulation of body composition of Jinghai Yellow chicken.

中图分类号:

S831.2

张涛，樊庆灿，张向前，张跟喜，王金玉，顾玉萍. 京海黄鸡体组成性状的全基因组关联分析[J]. 畜牧兽医学报, 2015, 46(9): 1502-1514.

ZHANG Tao，FAN Qing-can，ZHANG Xiang-qian，ZHANG Gen-xi，WANG Jin-yu，GU Yu-ping. A Genome-wide Association Study on Body Composition of Jinghai Yellow Chicken[J]. ACTA VETERINARIA ET ZOOTECHNICA SINICA, 2015, 46(9): 1502-1514.

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