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Estimation of variance components for carcass traits in J apanese B lack cattle using 50 K SNP genotype data
Author(s) -
Watanabe Toshio,
Matsuda Hirokazu,
Arakawa Aisaku,
Yamada Takahisa,
Iwaisaki Hiroaki,
Nishimura Shota,
Sugimoto Yoshikazu
Publication year - 2014
Publication title -
animal science journal
Language(s) - English
Resource type - Journals
SCImago Journal Rank - 0.606
H-Index - 38
eISSN - 1740-0929
pISSN - 1344-3941
DOI - 10.1111/asj.12074
Subject(s) - single nucleotide polymorphism , snp , biology , genotype , genetics , zoology , gene
Genomic selection using high‐density single nucleotide polymorphism ( SNP ) genotype data may accelerate genetic improvements in livestock animals. In this study, we attempted to estimate the variance components of six carcass traits in fattened J apanese B lack steers using SNP genotype data. Six hundred and seventy‐three steers were genotyped using an I llumina B ovine SNP 50 B ead C hip and phenotyped for cold carcass weight, ribeye area, rib thickness, subcutaneous fat thickness, estimated yield percent and marbling score. Additive polygenic variance and the variance attributable to a set of SNPs that had statistically significant effects on the trait were estimated via G ibbs sampling with two models: (i) a model with the chosen SNPs and the additive polygenic effects; and (ii) a model with the polygenic effects alone. The proportion of the estimated variance attributable to the SNPs became higher as the number of SNP effects that fit increased. High correlations between breeding values estimated with the model containing the polygenic effect alone and those estimated by chosen SNPs were obtained. No fraction of the total genetic variance was explained by SNPs associated with the trait at P ≥ 0.1. Our results suggest that for the carcass traits of J apanese B lack cattle, a maximum of half of the total additive genetic variance may be explained by SNPs between 100 several tens to several 100s.