Genetic evaluation with major genes and polygenic inheritance when some animals are not genotyped using gene content multiple-trait BLUP

Table 3 Low heritability scenario for females with phenotype

Method	Quantitative trait		Gene content		Candidates genotyped
Method	Accuracy	Slope	Accuracy	Slope	Candidates genotyped
Simple BLUP	0.36 ± 0.04	0.85 ± 0.09	–	–
GCMTBLUP	0.43 ± 0.04	0.94 ± 0.09	0.53 ± 0.05	0.98 ± 0.05	No
Method of Gengler et al.	0.42 ± 0.04	0.94 ± 0.08	0.52 ± 0.05	0.98 ± 0.06	No
Iterative peeling	0.42 ± 0.04	0.92 ± 0.07	0.52 ± 0.05	0.96 ± 0.06	No
GCMTBLUP	0.45 ± 0.03	0.95 ± 0.07	0.59 ± 0.04	1.02 ± 0.04	Yes
Method of Gengler et al.	0.44 ± 0.03	0.92 ± 0.07	0.58 ± 0.04	1.02 ± 0.04	Yes
Iterative peeling	0.45 ± 0.03	0.88 ± 0.05	0.60 ± 0.04	0.98 ± 0.04	Yes
All genotyped^a	0.57 ± 0.03	0.99 ± 0.04	1	1

Accuracy, intercept and slope of the comparison of estimated and true breeding values of 2800 females in generation 9 with phenotype but not genotype for the model including gene content (GCMTBLUP) or not (Simple BLUP), for the method of Gengler et al. [13], and for the iterative peeling method of gene prediction
^aAll individuals are genotyped

ISSN: 1297-9686