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

Table 4 Estimates of SNP additive heritabilities of teat number when using 41,108 autosomal SNPs or every other (20,554) of the 41,108 SNPs

SNP set	Average \(\widehat{\text{h}}_{{{\text{k}}\upalpha}}^{2}\) per SNP	Ratio	Total \(\widehat{\text{h}}_{{\upalpha{\text{i}}}}^{2}\)
20,554 SNPs	\({\bar{\text{h}}}_{{\upalpha1}}^{2} = 1.75\;\left( {10^{ - 5} } \right)\)	\({\bar{\text{h}}}_{{\upalpha1}}^{2} /{\bar{\text{h}}}_{{\upalpha2}}^{2} = 1.960\)	\(\widehat{\text{h}}_{{\upalpha1}}^{2} = \, 0.360\)
20,554 SNPs with all 41,108 SNPs in the mixed model	\({\bar{\text{h}}}_{{\upalpha2}}^{2} = 8.93\;\left( {10^{ - 6} } \right)\)	\({\bar{\text{h}}}_{{\upalpha2}}^{2} /{\bar{\text{h}}}_{{\upalpha3}}^{2} = 0.998\)	\(\widehat{\text{h}}_{{\upalpha2}}^{2} = 0.184\)
41,108 SNPs	\({\bar{\text{h}}}_{{\upalpha3}}^{2} = 8.95\;\left( {10^{ - 6} } \right)\)	\({\bar{\text{h}}}_{{\upalpha1}}^{2} /{\bar{\text{h}}}_{{\upalpha3}}^{2} = 1.955\)	\(\widehat{\text{h}}_{{\upalpha3}}^{2} = \, 0.368\)

\(\widehat{\text{h}}_{{{\text{k}}\upalpha}}^{2}\) is the heritability of the \({\text{k}}\)th SNP. \({\bar{\text{h}}}_{{\upalpha{\text{i}}}}^{2} = \sum\nolimits_{{{\text{k}} = 1}}^{\text{mi}} {\widehat{\text{h}}_{\text{ka}}^{2} } /{\text{m}}_{\text{i}}\) is the average of SNP additive heritability of the \({\text{i}}\)th SNP set, \(\widehat{\text{h}}_{{\upalpha{\text{i}}}}^{2} = \sum\nolimits_{{{\text{k}} = 1}}^{{{\text{m}}_{\text{i}} }} {\widehat{\text{h}}_{\text{ka}}^{2} }\) is the total additive heritability of all SNPs in the \({\text{i}}\)th SNP set, where \({\text{m}}_{\text{i}}\) is the number of SNPs in the \({\text{i}}\)th SNP set

ISSN: 1297-9686