Genomic predictions for economically important traits in Brazilian Braford and Hereford beef cattle using true and imputed genotypes

Table 6 DGV validation accuracy in the validation population for the SCE2 and SCE3 scenarios^{a, b}

Traits^c	8 K^d						15 K^d						50 K^d	777 K^{d, e}
Traits^c	10	20	30	40	50	60	10	20	30	40	50	60
Traits in the selection index
WGBW	0.33	0.33	0.32	0.33	0.32	0.32	0.32	0.32	0.32	0.32	0.32	0.32	0.32	0.34
WGWY	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.36
CW	0.29	0.29	0.29	0.29	0.29	0.29	0.28	0.28	0.28	0.28	0.29	0.29	0.29	0.32
CY	0.27	0.26	0.26	0.26	0.25	0.26	0.26	0.26	0.26	0.26	0.26	0.26	0.26	0.29
PW	0.31	0.31	0.31	0.31	0.31	0.32	0.31	0.30	0.30	0.31	0.31	0.31	0.31	0.32
PY	0.34	0.34	0.34	0.33	0.33	0.34	0.34	0.34	0.34	0.34	0.33	0.34	0.34	0.34
MW	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.35	0.37
MY	0.35	0.35	0.35	0.34	0.34	0.35	0.35	0.35	0.34	0.34	0.34	0.35	0.35	0.36
SCa	0.18	0.19	0.18	0.19	0.19	0.18	0.18	0.19	0.19	0.19	0.19	0.19	0.18	0.17
SCaw	0.20	0.20	0.20	0.20	0.20	0.19	0.20	0.20	0.20	0.20	0.20	0.20	0.20	0.20
Average	0.30	0.30	0.30	0.30	0.29	0.30	0.29	0.29	0.29	0.29	0.29	0.30	0.30	0.31
Traits not in the selection index
BW	0.22	0.21	0.21	0.22	0.21	0.21	0.21	0.21	0.21	0.21	0.21	0.21	0.21	0.21
BA	0.13	0.14	0.14	0.14	0.14	0.15	0.15	0.15	0.15	0.15	0.15	0.16	0.14	0.11
SW	0.33	0.34	0.34	0.34	0.33	0.33	0.33	0.33	0.33	0.33	0.33	0.33	0.33	0.36
SY	0.36	0.36	0.36	0.35	0.35	0.35	0.36	0.36	0.36	0.35	0.36	0.36	0.36	0.37
NW	0.54	0.54	0.53	0.53	0.53	0.53	0.54	0.54	0.54	0.54	0.54	0.54	0.54	0.56
NY	0.54	0.54	0.54	0.54	0.54	0.54	0.54	0.54	0.54	0.55	0.55	0.54	0.54	0.57
HW	0.71	0.71	0.71	0.71	0.71	0.71	0.71	0.71	0.71	0.71	0.71	0.71	0.71	0.71
HY	0.81	0.81	0.81	0.81	0.81	0.81	0.81	0.81	0.81	0.80	0.81	0.81	0.81	0.80
TR	0.62	0.62	0.62	0.62	0.62	0.62	0.62	0.62	0.62	0.62	0.62	0.62	0.62	0.62
OP	0.66	0.66	0.66	0.66	0.66	0.66	0.66	0.66	0.66	0.66	0.66	0.66	0.66	0.64
Average	0.49	0.49	0.49	0.49	0.49	0.49	0.49	0.49	0.49	0.49	0.49	0.49	0.49	0.50
Overall mean	0.39	0.39	0.39	0.39	0.39	0.39	0.39	0.39	0.39	0.39	0.39	0.39	0.39	0.40

^a DGV validation accuracy means Pearson’s correlation between DGVs and EBVs in the validation population; ^b SCE2 scenario that the percentage of animals with imputed genotypes in the training population varied and SCE3 scenario was created with only one percentage of animals with imputed genotypes and only one training population size; ^cAbreviation descriptions are presented in Table 1; ^d 8 K: means that the base panel is the 8 K SNP panel imputed to the 50 K SNP panel; 15 K: means that the base panel is the 15 K SNP panel imputed to the 50 K SNP panel; 50 K: means the true 50 K SNP panel; 777 K: means that the base panel is the 50 K SNP panel imputed to the 777 K SNP panel; ^e When the 777 K SNP panel was used, all animals had their genotypes imputed from the 50 K SNP panel to the 777 K SNP panel, except for 212 animals in the training population (SCE3)

ISSN: 2730-6844