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

Table 5 High heritability scenario for females with phenotype

Method	Quantitative trait		Gene content		Candidates genotyped
Method	Accuracy	Slope	Accuracy	Slope	Candidates genotyped
Simple BLUP	0.78 ± 0.01	1.01 ± 0.03	–	–
GCMTBLUP	0.78 ± 0.01	1.01 ± 0.03	0.68 ± 0.02	1.02 ± 0.03	No
Method of Gengler et al.	0.78 ± 0.01	1.04 ± 0.03	0.56 ± 0.04	1.02 ± 0.03	No
Iterative peeling	0.78 ± 0.01	1.04 ± 0.03	0.57 ± 0.04	1.00 ± 0.03	No
GCMTBLUP	0.78 ± 0.01	1.01 ± 0.03	0.71 ± 0.02	1.02 ± 0.02	Yes
Method of Gengler et al.	0.78 ± 0.01	1.04 ± 0.02	0.61 ± 0.03	1.02 ± 0.02	Yes
Iterative peeling	0.78 ± 0.01	1.04 ± 0.02	0.62 ± 0.03	1.00 ± 0.02	Yes
All genotyped^a	0.86 ± 0.01	1.00 ± 0.02	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