Genome-wide association study and accuracy of genomic prediction for teat number in Duroc pigs using genotyping-by-sequencing

Table 1 Estimates of genomic heritabilities for teat number using 41,108 autosomal SNPs on 2936 Duroc boars

Model	All SNPs as random effects	85 significant SNPs removed	85 significant SNPs as fixed effects
Additive and dominance effects	\(\widehat{\text{h}}_{\upalpha}^{2} = 0.365 \pm 0.030\)	\(\widehat{\text{h}}_{\upalpha}^{2} = 0.346 \pm 0.030\) \(- {\text{c}}_{\text{hi}}^{2} = \, - 5.20\%\)	\(\widehat{\text{h}}_{\upalpha}^{2} = \, 0.260 \pm 0.030\) \(- {\text{c}}_{\text{hi}}^{2} = \, - 28.77\%\)
	\(\widehat{\text{h}}_{\updelta}^{2} = 0.035 \pm 0.019\)	\(\widehat{\text{h}}_{\updelta}^{2} = 0.036 \pm 0.020\) \(- {\text{c}}_{\text{hi}}^{2} = \, + 2.86\%\)	\(\widehat{\text{h}}_{\updelta}^{2} = \, 0.037 \pm 0.022\) \(- {\text{c}}_{\text{hi}}^{2} = \, + 5.71\%\)
	\(\widehat{\text{h}}_{\text{t}}^{2} = 0.400 \pm 0.034\)	\(\widehat{\text{h}}_{\text{t}}^{2} = 0.382 \pm 0.034\) \(- {\text{c}}_{\text{hi}}^{2} = \, - 4.50\%\)	\(\widehat{\text{h}}_{\text{t}}^{2} = \, 0.297 \pm 0.036\) \(- {\text{c}}_{\text{hi}}^{2} = \, - 25.75\%\)
Additive effects only	\(\widehat{\text{h}}_{\upalpha}^{2} = \, 0.368 \pm 0.030\)	\(\widehat{\text{h}}_{\upalpha}^{2} = 0.350 \pm 0.030\) \(- {\text{c}}_{\text{hi}}^{2} = \, - 4.89\%\)	\(\widehat{\text{h}}_{\upalpha}^{2} = \, 0.263 \pm 0.030\) \(- {\text{c}}_{\text{hi}}^{2} = \, - 28.53\%\)

\({\text{h}}_{\upalpha}^{2}\) = narrow-sense heritability. \({\text{h}}_{\updelta}^{2}\) = dominance heritability. \({\text{h}}_{\text{t}}^{2}\) = broad-sense heritability = \({\text{h}}_{\upalpha}^{2} + {\text{h}}_{\updelta}^{2}\). \(- {\text{c}}_{\text{hi}}^{2}\) = decrease in heritability relative to the heritability estimated by using all SNPs fitted as random effects

ISSN: 1297-9686