Estimation of breeding value and accuracy using pedigree and genotype of Hanwoo cows (Korean cattle)

Abstract

The genetic improvement of Hanwoo is dependent on the estimated breeding value (EBV) of pedigree‐based Korean proven bull's number, and the genetic evaluation for cows is difficult due to insufficient pedigree and test records. Genomic selection involves utilizing the individual's genotype to estimate the breeding value (BV) and is determined to be an appropriate evaluation method for cows who lack test information. This study used pedigree and genotype to estimate and analyse BV and accuracy of Hanwoo cows in the Gyeongnam area using pedigree best linear unbiased prediction (PBLUP) and genomic best linear unbiased prediction (GBLUP). The test group acquired pedigree and genotype of 919 Hanwoo cows in the Gyeongnam area. The traits used for analysis were carcass weight (CWT), eye muscle areas (EMA), backfat thickness (BFT) and marbling score (MS). PBLUP used Reference group 1 containing the pedigree and phenotype of 919 Hanwoo cows and 545,483 heads to construct the numeric relationship matrix and estimated the EBV and accuracy. GBLUP used Reference group 2 containing the genotype and phenotype of 919 Hanwoo cows and 17,226 heads to construct the genomic relationship matrix and estimated the genomic EBV (GEBV) and accuracy. In the order of CWT, EMA, BFT and MS, the accuracy of PBLUP was 0.488, 0.480, 0.482 and 0.486 while the accuracy of GBLUP was higher with 0.779, 0.758, 0.766 and 0.791. And for 104 cows without relationship coefficient on pedigree to the reference group, the accuracy as PBLUP was estimated to be 0, but for GBLUP, it was possible to estimate the accuracy for all individuals. If GBLUP is applied to cows raised in general farms, the genetic evaluation can be performed even on animals without pedigree and high‐accuracy estimation, enabling selection of excellent cows. Accordingly, by securing the genetic diversity of cows, it is expected to increase the profitability of farms by decreasing the inbreeding rate and increasing efficiency of elite calf production.

Assessment of genomic breeding values and their accuracies for carcass traits in Jeju Black cattle using whole‐genome SNP chip panels

“…The higher accuracy for CWT, EMA, BF, and MS were determined to be 0.779, 0.758, 0.766, and 0.791 by Kim et al (2022), which is nearly identical to our Hanwoo reference findings. They also used the GBLUP approach on 919 Hanwoo cows to evaluate the prediction accuracy.…”

Comparison of accuracy of breeding value for cow from three methods in Hanwoo (Korean cattle) population

“…Many studies have shown that the GBLUP method is superior to PBLUP, and Naserkheil et al [ 26 ] reported that GBLUP (single- and multiple-trait GBLUP) was approximately 19% and 36% more accurate than conventional BLUP models (single- and multiple-trait GBLUP) for carcass traits in Hanwoo. Moreover, GBLUP has performed well in many studies, and the data of the present study showed similar trends [ 27 , 28 ].…”

Impacts of reference population size and methods on the accuracy of genomic prediction for fleece traits in Inner Mongolia Cashmere Goats

“…The effects of the locus for BayesRR follow multiple normal distributions. The hypothetical distribution of all the effects of the marker in each Bayesian method and the formula of effect distribution are shown in Table 1 ( 6 , 23–25 ). In this study, the model of Bayes methods is as follows ( Eq.…”

“…It had been reported that genomic selection has significant advantages in traits with low habitability and which are difficult to measure (5). It was confirmed that genomic selection can improve the accuracy of estimated breeding values, increase genetic progress, and reduce breeding costs (6)(7)(8). The factors that affect the accuracy of genomic selection include methods (9), reference population size (10), heritability (11), and marker density (12).…”