title: Genome-wide SNP scan in a porcine Large White×Minzhu intercross population reveals a locus influencing muscle mass on chromosome 2.
abstract: A high-density single nucleotide polymorphism (SNP) array containing 62 163 markers was employed for a genome-wide association study (GWAS) to identify variants associated with lean meat in ham (LMH, %) and lean meat percentage (LMP, %) within a porcine Large White×Minzhu intercross population. For each individual, LMH and LMP were measured after slaughter at the age of 240±7 days. A total of 557 F2 animals were genotyped. The GWAS revealed that 21 SNPs showed significant genome-wide or chromosome-wide associations with LMH and LMP by the Genome-wide Rapid Association using Mixed Model and Regression-Genomic Control approach. Nineteen significant genome-wide SNPs were mapped to the distal end of Sus Scrofa Chromosome (SSC) 2, where a major known gene responsible for muscle mass, IGF2 is located. A conditioned analysis, in which the genotype of the strongest associated SNP is included as a fixed effect in the model, showed that those significant SNPs on SSC2 were derived from a single quantitative trait locus. The two chromosome-wide association SNPs on SSC1 disappeared after conditioned analysis suggested the association signal is a false association derived from using a F2 population. The present result is expected to lead to novel insights into muscle mass in different pig breeds and lays a preliminary foundation for follow-up studies for identification of causal mutations for subsequent application in marker-assisted selection programs for improving muscle mass in pigs.
authors: Key Laboratory of Farm Animal Genetic Resources and Germplasm Innovation of Ministry of Agriculture of China, Institute of Animal Science, Chinese Academy of Agricultural Sciences, Beijing, China.
authors: Xin
authors: X
authors: Liu
authors: Li Gang
authors: LG
authors: Wang
authors: Wei Zhen
authors: WZ
authors: Luo
authors: Yong
authors: Y
authors: Li
authors: Jing
authors: J
authors: Liang
authors: Hua
authors: H
authors: Yan
authors: Ke Bin
authors: KB
authors: Zhao
authors: Li Xian
authors: LX
authors: Wang
authors: Long Chao
authors: LC
authors: Zhang
mesh_terms: D000818:Animals; D033481:Chromosomes, Mammalian; D005260:Female; D056426:Genetic Loci / Q000235:genetics*; D055106:Genome-Wide Association Study / Q000379:methods*; D008297:Male; D008460:Meat; D009132:Muscles / Q000033:anatomy & histology*; D020641:Polymorphism, Single Nucleotide / Q000235:genetics*; D013552:Swine / Q000033:anatomy & histology / Q000235:genetics*
keywords: genome-wide association study; lean meat in ham; lean meat percentage; pig