Effects of Different Methods and Genomic Relationship Matrices on Reliabilities of Genomic Selection in Dairy Cattle
2022
Kasakolu, Anil | Koncagul, Seyrani
Since genomic prediction is widely used in dairy cattle, we aimed to evaluate the performance of pedigree based (ABLUP), SNP based (GBLUP) and single-step GBLUP (ssGBLUP) methods with different sets of information in terms of reliability of genomic prediction. Four different methods were evaluated: (Method 1) ABLUP with all available phenotypes and pedigree; (Method 2) GBLUP with SNP genotypes and phenotypes of genotyped cows; (Method 3) single-step GBLUP with SNP genotypes, phenotypes of genotyped cows and all pedigree and (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 (GRMs) formed by different approaches: vanRaden, Astle, Yang and Endelman. The simulated dataset replicates a common dairy cattle population.
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