ACTA VETERINARIA ET ZOOTECHNICA SINICA ›› 2015, Vol. 46 ›› Issue (9): 1502-1514.doi: 10.11843/j.issn.0366-6964.2015.09.004

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A Genome-wide Association Study on Body Composition of Jinghai Yellow Chicken

ZHANG Tao1,2,FAN Qing-can1,2,ZHANG Xiang-qian1,2,ZHANG Gen-xi1,2,WANG Jin-yu1,2* ,GU Yu-ping3   

  1. (1.College of Animal Science and Technology,Yangzhou University,Yangzhou 225009,China;2.Key Laboratory of Animal Genetics,Breeding,Reproduction and Molecular Design of Jiangsu Province,Yangzhou 225009,China;3.Jiangsu Jinghai Poultry Group Co.,Ltd.,Nantong 226103,China)
  • Received:2014-10-13 Online:2015-09-23 Published:2015-09-23

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,NCAPGKCNIP4,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 LCORLQDPRKCNIP4,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,NCAPGKCNIP4,CACNA2D2,LCORLQDPRKCNIP4,LDB2,FAM184B genes might play important role in regulation of body composition of Jinghai Yellow chicken.

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