Multivariate analysis of a genome-wide association study in dairy cattle

Journal of Dairy Science
S BolormaaM E Goddard

Abstract

Multiple-trait genome-wide association study (GWAS) analyses were compared with single-trait GWAS for power to discover and subsequently validate genetic markers (single nucleotide polymorphisms; SNP) associated with dairy traits. The SNP associations were discovered in 1 Holstein population and validated in both a Holstein population consisting of bulls younger than those in the discovery population and a Jersey population. The multivariate methods used were a principal component analysis and a series of bivariate analyses. The statistical power of detecting associations using multiple-trait GWAS was as good as or better than that of the best single-trait GWAS. Additional SNP associations were found with the multivariate methods that had not been discovered in the single-trait analyses; this was achieved without an increase in the false discovery rate. From the multivariate analysis, 4 common pleiotropic patterns were identified among the putative quantitative trait loci (QTL) affecting the Australian selection index. These patterns could be interpreted as a primary effect of the putative QTL on 1 or more milk components and secondary effects on other components. The multivariate analysis did not appear to increase the precisi...Continue Reading

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Citations

Jun 4, 2013·Twin Research and Human Genetics : the Official Journal of the International Society for Twin Studies·Miguel E RenteríaSarah E Medland
Aug 18, 2012·Human Molecular Genetics·Kathryn E Kemper, Mike E Goddard
Jul 20, 2013·Genetics, Selection, Evolution : GSE·Lesley-Ann RavenBen J Hayes
Sep 11, 2012·Journal of Animal Science and Biotechnology·Hui ZhangHui Li
Feb 13, 2014·BMC Genomics·Ezequiel Luis NicolazziAlessandra Stella
Nov 20, 2014·Genetics, Selection, Evolution : GSE·Jennie E PryceBen J Hayes
Mar 13, 2016·BMC Genomics·Sunduimijid BolormaaHans D Daetwyler
Oct 18, 2015·Genetics, Selection, Evolution : GSE·Jingwei YuanNing Yang
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Aug 18, 2018·Frontiers in Genetics·Sayed M Hosseini-VardanjaniMojtaba Tahmoorespur
May 30, 2019·Frontiers in Genetics·Jicai JiangYang Da
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Aug 3, 2019·Tropical Animal Health and Production·Raquel Rodrigues Costa MelloMarco Roberto Bourg de Mello
May 22, 2017·Journal of Dairy Science·S A BoisonM V G B da Silva
Aug 6, 2020·Animals : an Open Access Journal From MDPI·Elisabetta MancaCorrado Dimauro

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