Genome-Wide Association Study-Based Identification of SNPs and Haplotypes Associated With Goose Reproductive Performance and Egg Quality

Frontiers in Genetics

Songsong Xu¹  Jing Li²  Chunhui Yin²  Youhui Xie²  Xianzhi Zhao²  Qigui Wang²  Keshan Zhang²  Guangliang Gao²  Rui Wu²  Silu Hu³  Dengfeng Gao⁵ 

[1] Chinese Academy of Sciences, Beijing, China;Chongqing Engineering Research Center of Goose Genetic Improvement, Chongqing, China;Institute of Animal Genetics and Breeding, College of Animal Science and Technology, Sichuan Agricultural University, Chengdu, China;Institute of Poultry Science, Chongqing Academy of Animal Science, Chongqing, China;State Key Laboratory of Agrobiotechnology, China Agricultural University, Beijing, China;

关键词: goose;    GWAS - genome-wide association study;    marker-assisted selection (MAS);    egg production;    egg yolk color;    SNP;   

DOI  :  10.3389/fgene.2021.602583

来源: DOAJ

【 摘 要 】

Geese are one of the most economically important waterfowl. However, the low reproductive performance and egg quality of geese hinder the development of the goose industry. The identification and application of genetic markers may improve the accuracy of beneficial trait selection. To identify the genetic markers associated with goose reproductive performance and egg quality traits, we performed a genome-wide association study (GWAS) for body weight at birth (BBW), the number of eggs at 48 weeks of age (EN48), the number of eggs at 60 weeks of age (EN60) and egg yolk color (EYC). The GWAS acquired 2.896 Tb of raw sequencing data with an average depth of 12.44× and identified 9,279,339 SNPs. The results of GWAS showed that 26 SNPs were significantly associated with BBW, EN48, EN60, and EYC. Moreover, five of these SNPs significantly associated with EN48 and EN60 were in a haplotype block on chromosome 35 from 4,512,855 to 4,541,709 bp, oriented to TMEM161A and another five SNPs significantly correlated to EYC were constructed in haplotype block on chromosome 5 from 21,069,009 to 21,363,580, which annotated by TMEM161A, CALCR, TFPI2, and GLP1R. Those genes were enriched in epidermal growth factor-activated receptor activity, regulation of epidermal growth factor receptor signaling pathway. The SNPs, haplotype markers, and candidate genes identified in this study can be used to improve the accuracy of marker-assisted selection for the reproductive performance and egg quality traits of geese. In addition, the candidate genes significantly associated with these traits may provide a foundation for better understanding the mechanisms underlying reproduction and egg quality in geese.

【 授权许可】

Unknown