Effects of Different Methods and Genomic Relationship Matrices on Reliabilities of Genomic Selection in Dairy Cattle

Authors : Anıl KASAKOLU, Seyrani KONCAGÜL
Pages : 58-64
Doi:10.46897/livestockstudies.1209084
View : 36 | Download : 14
Publication Date : 2022-12-29
Article Type : Research Paper
Abstract :Since genomic prediction is widely used in dairy cattle, we aimed to evaluate the performance of pedigree based insert ignore into journalissuearticles values(ABLUP);, SNP based insert ignore into journalissuearticles values(GBLUP); and single-step GBLUP insert ignore into journalissuearticles values(ss-GBLUP); methods with different sets of information in terms of reliability of genomic prediction. Four different methods were evaluated: insert ignore into journalissuearticles values(Method 1); ABLUP with all available phenotypes and pedigree; insert ignore into journalissuearticles values(Method 2); GBLUP with SNP genotypes and phenotypes of genotyped cows; insert ignore into journalissuearticles values(Method 3); single-step GBLUP with SNP genotypes, phenotypes of genotyped cows and all pedigree and insert ignore into journalissuearticles values(Method 4); single-step GBLUP with SNP genotypes, all phenotypes of both genotyped and nongenotyped cows and all pedigree. SNP based methods also used different genomic relationship matrices insert ignore into journalissuearticles values(GRMs); formed by different approaches: vanRaden, Astle, Yang and Endelman. The simulated dataset replicates a common dairy cattle population. A significant increase in reliability of prediction was observed in ss-GBLUP with all phenotypes and pedigree beside genotyped cows. This increase was apparent for both first lactation milk yield insert ignore into journalissuearticles values(LMY); and milk fat percentage insert ignore into journalissuearticles values(Fat%);. Combining all available information with ss-GBLUP gave about 1.6 and 1.2 times higher reliabilities for LMY and Fat%, respectively, compared to those obtained from the other three methods.
Keywords : Dairy cattle, Genomic relationship matrix, ssGBLUP, Reliability

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