Genome wide association study and genomic prediction for fatty acid composition in Chinese Simmental beef cattle using high density SNP array

BMC Genomics

Research Article

Yong Guo¹  Heming Ni¹  Bo Zhu²  Yan Chen²  Xue Gao²  Wengang Zhang²  Hong Niu²  Huijiang Gao²  Zezhao Wang²  Lupei Zhang²  Long Guan²  Yonghu Liang²  Peng Guo²  Lingyang Xu³  Junya Li³ 

[1] Animal Science and Technology College, Beijing University of Agriculture, Beijing, China;Laboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing, China;Laboratory of Molecular Biology and Bovine Breeding, Institute of Animal Sciences, Chinese Academy of Agricultural Sciences, Beijing, China;Haidian District, Institute of Animal Science, Yuanmingyuan West Road 2#, 100193, Beijing, China;

关键词: Fatty acid;    Genome-wide association study;    Genomic prediction;    High-density genotypes;    Simmental cattle;   

DOI  :  10.1186/s12864-017-3847-7

 received in 2017-01-03, accepted in 2017-06-06,  发布年份 2017

来源: Springer

【 摘 要 】

BackgroundFatty acid composition of muscle is an important trait contributing to meat quality. Recently, genome-wide association study (GWAS) has been extensively used to explore the molecular mechanism underlying important traits in cattle. In this study, we performed GWAS using high density SNP array to analyze the association between SNPs and fatty acids and evaluated the accuracy of genomic prediction for fatty acids in Chinese Simmental cattle.ResultsUsing the BayesB method, we identified 35 and 7 regions in Chinese Simmental cattle that displayed significant associations with individual fatty acids and fatty acid groups, respectively. We further obtained several candidate genes which may be involved in fatty acid biosynthesis including elongation of very long chain fatty acids protein 5 (ELOVL5), fatty acid synthase (FASN), caspase 2 (CASP2) and thyroglobulin (TG). Specifically, we obtained strong evidence of association signals for one SNP located at 51.3 Mb for FASN using Genome-wide Rapid Association Mixed Model and Regression-Genomic Control (GRAMMAR-GC) approaches. Also, region-based association test identified multiple SNPs within FASN and ELOVL5 for C14:0. In addition, our result revealed that the effectiveness of genomic prediction for fatty acid composition using BayesB was slightly superior over GBLUP in Chinese Simmental cattle.ConclusionsWe identified several significantly associated regions and loci which can be considered as potential candidate markers for genomics-assisted breeding programs. Using multiple methods, our results revealed that FASN and ELOVL5 are associated with fatty acids with strong evidence. Our finding also suggested that it is feasible to perform genomic selection for fatty acids in Chinese Simmental cattle.

【 授权许可】

CC BY   
© The Author(s). 2017