Genetic evaluation using single-step genomic best linear unbiased predictor in American Angus1

作者：Daniela A. L. Lourenco, S. Tsuruta, Breno de Oliveira Fragomeni, Yutaka Masuda, Ignácio Aguilar, Andrés Legarra, Joseph Keith Bertrand, T. S. Amen, L. Wang, Daniel W. Moser, I. Misztal · 发表于：Journal of Animal Science · 年份：2015 · DOI：10.2527/jas.2014-8836 · 被引用次数：191 · 研究领域：Genetic and phenotypic traits in livestock、Genetic Mapping and Diversity in Plants and Animals、Genetics and Plant Breeding

Predictive ability of genomic EBV when using single-step genomic BLUP (ssGBLUP) in Angus cattle was investigated. Over 6 million records were available on birth weight (BiW) and weaning weight (WW), almost 3.4 million on postweaning gain (PWG), and over 1.3 million on calving ease (CE). Genomic information was available on, at most, 51,883 animals, which included high and low EBV accuracy animals. Traditional EBV was computed by BLUP and genomic EBV by ssGBLUP and indirect prediction based on SNP effects was derived from ssGBLUP; SNP effects were calculated based on the following reference populations: ref_2k (contains top bulls and top cows that had an EBV accuracy for BiW ≥0.85), ref_8k (contains all parents that were genotyped), and ref_33k (contains all genotyped animals born up to 2012). Indirect prediction was obtained as direct genomic value (DGV) or as an index of DGV and parent average (PA). Additionally, runs with ssGBLUP used the inverse of the genomic relationship matrix calculated by an algorithm for proven and young animals (APY) that uses recursions on a small subset of reference animals. An extra reference subset included 3,872 genotyped parents of genotyped animals (ref_4k). Cross-validation was used to assess predictive ability on a validation population of 18,721 animals born in 2013. Computations for growth traits used multiple-trait linear model and, for CE, a bivariate CE-BiW threshold-linear model. With BLUP, predictivities were 0.29, 0.34, 0.23, and 0....