Table 5.

Genetic parameters for maternal sow traits where additive genetic variances (${\sigma }_a^2$) estimated with ${\mathbf{A}}^{-1}$ are not different 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*
LVAR	${\mathbf{A}}^{-1}$	640 ± 55	256 ± 39	—	4,201 ± 37	0.18 ± 0.01	0.13 ± 0.02	401
	${\mathbf{H}}_{\mathbf{D}\mathbf{I}\mathbf{R}\mathbf{E}\mathbf{C}\mathbf{T}}^{-1}$	637 ± 46	286 ± 28	—	4,205 ± 37	0.18 ± 0.01	0.12 ± 0.01	51
	${\mathbf{H}}_{\mathbf{M}\mathbf{E}\mathbf{T}\mathbf{A}}^{-1}$	673 ± 49	316 ± 27	—	4,206 ± 38	0.19 ± 0.01	0.13 ± 0.01	900
	${\mathbf{H}}_{\mathbf{A}\mathbf{P}\mathbf{Y}}^{-1}$	676 ± 49	312 ± 27	—	4,206 ± 37	0.19 ± 0.01	0.13 ± 0.01	0
STAY	${\mathbf{A}}^{-1}$	0.003 ± 0.001	—	—	0.068 ± 0.001	0.044 ± 0.014	0.044 ± 0.014	104
	${\mathbf{H}}_{\mathbf{D}\mathbf{I}\mathbf{R}\mathbf{E}\mathbf{C}\mathbf{T}}^{-1}$	0.002 ± 0.001	—	—	0.069 ± 0.001	0.029 ± 0.009	0.029 ± 0.009	80
	${\mathbf{H}}_{\mathbf{M}\mathbf{E}\mathbf{T}\mathbf{A}}^{-1}$	0.002 ± 0.001	—	—	0.069 ± 0.001	0.029 ± 0.011	0.029 ± 0.011	12
	${\mathbf{H}}_{\mathbf{A}\mathbf{P}\mathbf{Y}}^{-1}$	0.001 ± 0.001	—	—	0.069 ± 0.001	0.015 ± 0.008	0.015 ± 0.008	0
STB	${\mathbf{A}}^{-1}$	0.048 ± 0.004	0.027 ± 0.003	0.006 ± 0.001	0.299 ± 0.003	0.21 ± 0.01	0.13 ± 0.01	464
	${\mathbf{H}}_{\mathbf{D}\mathbf{I}\mathbf{R}\mathbf{E}\mathbf{C}\mathbf{T}}^{-1}$	0.052 ± 0.004	0.027 ± 0.002	0.006 ± 0.001	0.299 ± 0.003	0.22 ± 0.01	0.14 ± 0.01	96
	${\mathbf{H}}_{\mathbf{M}\mathbf{E}\mathbf{T}\mathbf{A}}^{-1}$	0.051 ± 0.004	0.030 ± 0.002	0.006 ± 0.001	0.299 ± 0.002	0.23 ± 0.01	0.13 ± 0.01	0
	${\mathbf{H}}_{\mathbf{A}\mathbf{P}\mathbf{Y}}^{-1}$	0.052 ± 0.004	0.029 ± 0.004	0.006 ± 0.001	0.299 ± 0.003	0.23 ± 0.01	0.14 ± 0.01	238
GLE	${\mathbf{A}}^{-1}$	0.950 ± 0.045	0.149 ± 0.003	0.227 ± 0.001	0.888 ± 0.003	0.60 ± 0.02	0.43 ± 0.01	1,409
	${\mathbf{H}}_{\mathbf{D}\mathbf{I}\mathbf{R}\mathbf{E}\mathbf{C}\mathbf{T}}^{-1}$	0.905 ± 0.040	0.226 ± 0.002	0.231 ± 0.001	0.892 ± 0.003	0.60 ± 0.01	0.40 ± 0.01	96
	${\mathbf{H}}_{\mathbf{M}\mathbf{E}\mathbf{T}\mathbf{A}}^{-1}$	0.911 ± 0.043	0.286 ± 0.002	0.231 ± 0.001	0.892 ± 0.002	0.62 ± 0.01	0.39 ± 0.01	0
	${\mathbf{H}}_{\mathbf{A}\mathbf{P}\mathbf{Y}}^{-1}$	0.914 ± 0.044	0.283 ± 0.004	0.231 ± 0.001	0.892 ± 0.003	0.61 ± 0.01	0.39 ± 0.01	38

1LVAR, litter variation; STAY, stayability after second cycle; STB, total number stillborn; GLE, gestation length; ${\mathbf{A}}^{-1}$, 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 (LVAR: 376,393; STAY: 2,215; STB: 61,502; GLE: 102,987), where a smaller value indicates a better fit.