Genomic prediction based on selective linkage disequilibrium pruning of low-coverage whole-genome sequence variants in a pure Duroc population

Table 2 Variance components for different traits estimated on four marker panels, based on GBLUP and BayesR

Trait	Marker panel	Number of markers	Vg (se)		Ve (se)		Heritability (se)
			GBLUP	BayesR	GBLUP	BayesR	GBLUP	BayesR
AGE	CC 80k	55,216	9.89 (2.30)	11.97 (3.27)	68.37 (2.58)	58.38 (3.22)	0.13 (0.03)	0.17 (0.03)
	CC 50k	36,851	9.87 (2.33)	10.20 (3.43)	68.51 (2.57)	59.92 (3.24)	0.13 (0.03)	0.15 (0.03)
	GBS	89,012	9.30 (2.22)	10.13 (3.29)	68.82 (2.57)	59.84 (3.46)	0.12 (0.03)	0.15 (0.04)
	LCS	10,109,688	9.92 (2.31)	11.42 (3.86)	68.32 (2.58)	58.59 (4.03)	0.13 (0.03)	0.16 (0.04)
BF	CC 80k	55,216	1.31 (0.17)	1.43 (0.17)	2.63 (0.12)	2.54 (0.13)	0.33 (0.03)	0.36 (0.03)
	CC 50k	36,851	1.29 (0.17)	1.37 (0.18)	2.67 (0.11)	2.60 (0.13)	0.33 (0.03)	0.34 (0.03)
	GBS	89,012	1.25 (0.16)	1.37 (0.17)	2.66 (0.11)	2.57 (0.13)	0.32 (0.03)	0.35 (0.03)
	LCS	10,109,688	1.28 (0.17)	1.43 (0.19)	2.64 (0.11)	2.53 (0.13)	0.33 (0.03)	0.36 (0.04)
TTN	CC 80k	55,216	0.31 (0.04)	0.29 (0.05)	0.81 (0.03)	0.81 (0.03)	0.27 (0.03)	0.26 (0.03)
	CC 50k	36,851	0.32 (0.04)	0.27 (0.05)	0.80 (0.03)	0.82 (0.03)	0.28 (0.03)	0.25 (0.04)
	GBS	89,012	0.29 (0.04)	0.29 (0.05)	0.82 (0.03)	0.80 (0.03)	0.26 (0.03)	0.26 (0.03)
	LCS	10,109,688	0.29 (0.04)	0.29 (0.05)	0.82 (0.03)	0.81 (0.04)	0.26 (0.03)	0.27 (0.04)

AGE age to 100 kg live weight, BF back fat thickness, TTN total teat number, CC 80k commercial chip 80K, CC commercial chips 50K, GBS genotyping-by-sequencing, LCS low-coverage sequencing

ISSN: 1297-9686