Accuracy of genomic prediction in a simulated pig populations

Abstract Text: Genomic prediction has become the promising paradigm in animal breeding programs.This study was compared prediction accuracies of genomic prediction in terms of selection strategy and candidate phenotypes using ridge regression BLUP. Simulated data mimicking pig genome was used for genomic prediction. The accuracy of traditional EBV estimated using BLUP. However the averages of accuracies between phenotypic and EBV selection were similar. The accuracy of genomic prediction for 1000 individual was calculated by 5-fold cross validation. In terms of selection strategy, accuracies of EBV-selection were 0.81 and 0.84 for phenotype and EBV as candidate phenotype. On the other hand, accuracies of phenotypic selection were 0.75 and 0.73 for phenotype and EBV. As reported in previous research, genomic prediction showed higher(0.13-0.27)accuracy than traditional BLUP method. In this study, EBV-selection with EBV as response variable had most accurate prediction within genomic prediction.

Keywords: Genomic prediction, Simulation, Ridge regression BLUP, Single nucleotide polymorphism