Accuracy of genomic selection predictions for hip height in Brahman cattle using different relationship matrices

作者：Farah Michel Marques^*; Fortes Marina Rufino Salinas; Kelly Matthew; Porto Neto Laercio Ribeiro; Meira Camila Tangari; Duitama Carreno Luis Orlando; da Fonseca Ricardo; Moore Stephen Stewart

来源：Pesquisa Agropecuaria Brasileira, 2018, 53(6): 717-726.

DOI：10.1590/S0100-204X2018000600008

• Bos indicus
• beef cattle
• genomics
• rare alleles

The objective of this work was to evaluate the effects of genomic information on the genetic evaluation of hip height in Brahman cattle using different matrices built from genomic and pedigree data. Hip height measurements from 1,695 animals, genotyped with high-density SNP chip or imputed from 50 K high-density SNP chip, were used. The numerator relationship matrix (NRM) was compared with the H matrix, which incorporated the NRM and genomic relationship (G) matrix simultaneously. The genotypes were used to estimate three versions of G: observed allele frequency (H-GOF), average minor allele frequency (H-GMF), and frequency of 0.5 for all markers (H-G50). For matrix comparisons, animal data were either used in full or divided into calibration (80% older animals) and validation (20% younger animals) datasets. The accuracy values for the NRM, H-GOF, and H-G50 were 0.776, 0.813, and 0.594, respectively. The NRM and H-GOF showed similar minor variances for diagonal and off-diagonal elements, as well as for estimated breeding values. The use of genomic information resulted in relationship estimates similar to those obtained based on pedigree; however, H-GOF is the best option for estimating the genomic relationship matrix and results in a higher prediction accuracy. The ranking of the top 20% animals was very similar for all matrices, but the ranking within them varies depending on the method used.

• 出版日期2018-6
• 单位Univ Estadual Paulista