Table 4.

Effect of the production system (husbandry) on the relative mRNA expression of MyHCs and selected genes related to energy metabolism in the longissimus dorsi muscle of Krškopolje pigs.

Husbandry
	C	O	Cohen's d	p-value	RMSE	Fold change
	(11)	(10)				compared to C
MyHC	ΔCt	ΔCt
MyHC I	−5.3	−4.3a	1.4	0.006	0.7	2.0 (2.6–1.5)
MyHC IIa	−5.8	−4.4a	2.2	<0.001	0.6	2.6 (3.4–2.0)
MyHC IIx	−2.5	−1.2	1.8	<0.001	0.7	2.4 (3.1–1.9)
MyHC IIb	−2.4	−4.2a	1.5	0.005	1.3	−3.5 (−2.4 to −5.1)
Energy metabolism-related genes
PGC-1α	−10.9	−11.7	0.7	0.181	1.3	−1.7 (−1.1 to −2.7)
HK2	−10.6	−10.2	0.4	0.337	0.8	1.3 (1.6–1.0)
GYS1	−8.3	−8.0	0.4	0.400	0.6	1.2 (1.4 to −1.0)
PPARγ	−13.4	−13.4	0.0	0.914	0.8	1.0 (1.3 to −1.3)
LPL	−7.4	−7.5	0.1	0.764	0.8	−1.1 (1.2 to −1.3)
FASN	−10.2	−10.7	0.5	0.239	0.9	−1.4 (−1.0 to −1.9)
CPT-1B	−11.5	−11.6	0.2	0.671	0.8	−1.1 (1.2 to −1.5)

Given here are the mean ΔCt values of target transcripts derived using the comparative Ct method (ΔCt = Ct_{geometric mean of controls} – Ct_{target transcript}) and the mean fold changes with upper and lower limits in expression for group O pigs in comparison to the group C pigs. A fold-change value <1 was replaced by the negative inverse of the original fold change value.

Conventional (C) and organic (O) group; number of animals is given in parentheses; Cohen's d denotes effect size; d value above 0.5 is considered medium and above 0.8 a large effect. RMSE, root-mean-square error.

^a-significantly different from the C group (p ≤ 0.05).