Table 3.

Genetic parameters for maternal sow traits where additive genetic variances (${\sigma }_a^2$) estimated with ${\mathbf{A}}^{-1}$ are significantly greater 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*
TNB	${\mathbf{A}}^{-1}$	1.893 ± 0.158	1.124 ± 0.109	0.435 ± 0.040	8.971 ± 0.083	0.28 ± 0.01	0.15 ± 0.01	6,119
	${\mathbf{H}}_{\mathbf{D}\mathbf{I}\mathbf{R}\mathbf{E}\mathbf{C}\mathbf{T}}^{-1}$	1.540 ± 0.120	1.426 ± 0.081	0.429 ± 0.040	9.000 ± 0.083	0.27 ± 0.01	0.12 ± 0.01	5,911
	${\mathbf{H}}_{\mathbf{M}\mathbf{E}\mathbf{T}\mathbf{A}}^{-1}$	1.488 ± 0.117	1.546 ± 0.077	0.430 ± 0.040	9.003 ± 0.083	0.28 ± 0.01	0.12 ± 0.01	5,881
	${\mathbf{H}}_{\mathbf{A}\mathbf{P}\mathbf{Y}}^{-1}$	1.512 ± 0.120	1.534 ± 0.077	0.430 ± 0.040	9.002 ± 0.083	0.28 ± 0.01	0.12 ± 0.01	0
PIWI	${\mathbf{A}}^{-1}$	177.5 ± 25.46	—	—	976.8 ± 23.49	0.15 ± 0.02	0.15 ± 0.02	17
	${\mathbf{H}}_{\mathbf{D}\mathbf{I}\mathbf{R}\mathbf{E}\mathbf{C}\mathbf{T}}^{-1}$	115.1 ± 15.94	—	—	1030.9 ± 18.95	0.10 ± 0.01	0.10 ± 0.01	17
	${\mathbf{H}}_{\mathbf{M}\mathbf{E}\mathbf{T}\mathbf{A}}^{-1}$	118.4 ± 15.95	—	—	1037.6 ± 18.42	0.10 ± 0.02	0.10 ± 0.02	0
	${\mathbf{H}}_{\mathbf{A}\mathbf{P}\mathbf{Y}}^{-1}$	117.0 ± 15.96	—	—	1038.8 ± 18.47	0.10 ± 0.01	0.10 ± 0.01	5

1TNB, total number born; PIWI, prolonged interval between weaning and first insemination; ${\mathbf{A}}^{-1}$, 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 (TNB: 169,900; PIWI: 76,119), where a smaller value indicates a better fit.