A genome-wide association study of production traits in a commercial population of Large White pigs: evidence of haplotypes affecting meat quality

Table 3 Haplotype effects of the SSC1d QTL for meat quality traits (N = 376 pigs)

Trait¹	STD	P-value²	Haplo1 *ACTCTA*		Haplo2 *ACTTTC*		Haplo3 *GTCTCC*
Trait¹	STD	P-value²	β³	P-value⁴	β³	P-value⁴	β³	P-value⁴
pH24 SM	0.15	0.0007	0.16^a	0.0010	0.03^a	0.6438	-0.19^b	0.0021
L*GS	3.49	< 0.0001	-0.16^a	0.0008	-0.14^a	0.0282	0.30^b	< 0.0001
a*GS	1.54	0.0252	-0.13^a	0.0075	0.04^ab	0.4994	0.09^b	0.1508
b*GS	1.43	< 0.0001	-0.18^a	0.0002	-0.13^a	0.0505	0.31^b	< 0.0001
WHC (s)	59.6	0.0113	0.14^a	0.0042	-0.13^b	0.0472	-0.02^ab	0.80
MQI (%)	2.45	< 0.0001	0.20^a	< 0.0001	0.03^a	0.5838	-0.23^b	0.0002

¹See Table 1 for trait abbreviations; ²P-value of the haplotype effect in a linear mixed model including a mean, a random sire effect and multiple regression on the haplotypes; ³estimates of regression coefficients (β) in phenotypic standard deviation (STD) units of the traits estimated using phenotypes adjusted for systematic environmental traits; for a given trait, values with different superscripts (^a or^b) were significantly different (P < 0.05); ⁴P-values for the test of β ≠ 0.

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