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http://dx.doi.org/10.7465/jkdi.2015.26.6.1249

Validation of diacylglycerol O-acyltransferase1 gene effect on milk yield using Bayesian regression  

Cho, Kwang-Hyun (National Institute of Animal Science, RDA)
Cho, Chung-Il (National Institute of Animal Science, RDA)
Park, Kyong-Do (Animal Genomics & Breeding Center, Hankyong National University)
Lee, Joon-Ho (Animal Genomics & Breeding Center, Hankyong National University)
Publication Information
Journal of the Korean Data and Information Science Society / v.26, no.6, 2015 , pp. 1249-1258 More about this Journal
Abstract
DGAT1(diacylglycerol O-acyltransferase1) gene is well known as a major gene of milk production in dairy cattle. This study was conducted to investigate how the DGAT1 gene effect on milk yield was appeared from the genome wide association (GWA) using high density whole genome SNP chip. The data set used in this study consisted of 353 Korean Holstein sires with 50k SNP genotypes and deregressed estimated breeding values of milk yield. After quality control 41,051 SNPs were selected and locations on chromosome were mapped using UMD 3.1. Bayesian regression of BayesB method (pi=0.99) was used to estimate the SNP effects and genomic breeding values. Percentages of variance explained by 1 Mb non-overlapping windows were calculated to detect the QTL region. As the result of this study, top 1 and 3 of 2,516 windows were seen around DGAT1 gene region and 0.51% and 0.48% of genetic variance were explained by these two windows. Although SNPs on the DGAT1 gene region are excluded in commercial 50k SNP chip, the effect of DGAT1 gene seem to be reflected on GWA by the SNPs which are in linkage disequilibrium with DGAT1 gene.
Keywords
Bayesian Regression; DGAT1 gene; Holstein; milk yield; SNP;
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