Table 4.

Genetic parameters for maternal sow traits where additive genetic variances (${\sigma }_a^2$) estimated with ${\mathbf{A}}^{-1}$ are greater but not significantly than with ${\mathbf{H}}_{\mathbf{D}\mathbf{I}\mathbf{R}\mathbf{E}\mathbf{C}\mathbf{T}}^{-1}$, with permanent environmental variance (${\sigma }_{\mathrm{p}\mathrm{e}}^2$), sire variance (${\sigma }_{\mathrm{s}\mathrm{i}\mathrm{r}\mathrm{e}}^2$), and residual variance (${\sigma }_e^2$) estimates included for the calculation of repeatability (r) and heritability ($h^2$), with standard errors (± SE)1

Trait	Method	${\sigma }_a^2$	${\sigma }_{\mathrm{p}\mathrm{e}}^2$	${\sigma }_{\mathrm{s}\mathrm{i}\mathrm{r}\mathrm{e}}^2$	${\sigma }_e^2$	r	$h^2$	-2LogL difference*
MAX	${\mathbf{A}}^{-1}$	0.151 ± 0.034	—	—	1.285 ± 0.034	0.11 ± 0.02	0.11 ± 0.02	0
	${\mathbf{H}}_{\mathbf{D}\mathbf{I}\mathbf{R}\mathbf{E}\mathbf{C}\mathbf{T}}^{-1}$	0.117 ± 0.025	—	—	1.316 ± 0.029	0.08 ± 0.02	0.08 ± 0.02	1
	${\mathbf{H}}_{\mathbf{M}\mathbf{E}\mathbf{T}\mathbf{A}}^{-1}$	0.143 ± 0.028	—	—	1.307 ± 0.028	0.10 ± 0.02	0.10 ± 0.02	35
	${\mathbf{H}}_{\mathbf{A}\mathbf{P}\mathbf{Y}}^{-1}$	0.119 ± 0.024	—	—	1.326 ± 0.028	0.08 ± 0.02	0.08 ± 0.02	1
LMO	${\mathbf{A}}^{-1}$	16.06 ± 1.99	17.32 ± 1.82	—	195.00 ± 1.80	0.15 ± 0.01	0.07 ± 0.01	23
	${\mathbf{H}}_{\mathbf{D}\mathbf{I}\mathbf{R}\mathbf{E}\mathbf{C}\mathbf{T}}^{-1}$	13.45 ± 1.44	18.75 ± 1.49	—	195.71 ± 1.82	0.14 ± 0.01	0.06 ± 0.01	20
	${\mathbf{H}}_{\mathbf{M}\mathbf{E}\mathbf{T}\mathbf{A}}^{-1}$	13.78 ± 1.43	19.34 ± 1.44	—	195.80 ± 1.82	0.15 ± 0.01	0.06 ± 0.01	0
	${\mathbf{H}}_{\mathbf{A}\mathbf{P}\mathbf{Y}}^{-1}$	13.62 ± 1.43	19.34 ± 1.45	—	195.82 ± 1.82	0.14 ± 0.01	0.06 ± 0.01	3
FRT	${\mathbf{A}}^{-1}$	5.31 ± 1.59	3.89 ± 2.47	11.95 ± 1.42	466.06 ± 4.24	0.043 ± 0.001	0.011 ± 0.001	1
	${\mathbf{H}}_{\mathbf{D}\mathbf{I}\mathbf{R}\mathbf{E}\mathbf{C}\mathbf{T}}^{-1}$	3.36 ± 1.59	5.41 ± 2.29	11.91 ± 1.41	466.22 ± 4.24	0.043 ± 0.006	0.007 ± 0.002	0
	${\mathbf{H}}_{\mathbf{M}\mathbf{E}\mathbf{T}\mathbf{A}}^{-1}$	3.05 ± 0.97	5.95 ± 2.28	11.90 ± 1.41	466.22 ± 4.24	0.043 ± 0.006	0.006 ± 0.002	4
	${\mathbf{H}}_{\mathbf{A}\mathbf{P}\mathbf{Y}}^{-1}$	2.92 ± 0.93	6.05 ± 2.28	11.89 ± 1.41	466.22 ± 4.24	0.043 ± 0.005	0.006 ± 0.002	5

1MAX, maximum cycle number; LMO, litter mortality; FRT, farrowing rate; ${\mathbf{A}}^{-1}$, inverted pedigree relationship matrix; ${\mathbf{H}}_{\mathbf{D}\mathbf{I}\mathbf{R}\mathbf{E}\mathbf{C}\mathbf{T}}^{-1}$, ${\mathbf{G}}^{-1}$ inverted from the full genomic relationship matrix (G); ${\mathbf{H}}_{\mathbf{M}\mathbf{E}\mathbf{T}\mathbf{A}}^{-1}$, ${\mathbf{G}}^{-1}$ inverted from the full G with metafounder included in ${\mathbf{A}}^{-1}$; ${\mathbf{H}}_{\mathbf{A}\mathbf{P}\mathbf{Y}}^{-1}$, ${\mathbf{G}}^{-1}$ approximation based on recursion of core animals in G.

*Difference between maximum likelihood function of the model fitted and the lowest value obtained for the trait (MAX: 18,619; LMO: 265,007; FRT: 300,766), where a smaller value indicates a better fit.