Maximizing crossbred performance through purebred genomic selection

Table 4 Partitioning accuracies of breeding values due to additive and dominance effects for a low correlation of LD phase

		Ref scenario			Scenario 1			Scenario 2			Scenario 3			Scenario 4
Breed A	G	BV	Add	Dom	BV	Add	Dom	BV	Add	Dom	BV	Add	Dom	BV	Add	Dom
	1	0.86	0.81	0.53	0.73	0.80	0.22	0.69	0.80	0.15	0.70	0.78	0.26	0.72	0.76	0.31
	2	0.64	0.69	0.56	0.57	0.65	0.20	0.46	0.69	0.19	0.59	0.69	0.27	0.54	0.65	0.22
	3	0.48	0.63	0.57	0.48	0.50	0.23	0.39	0.63	0.20	0.47	0.61	0.21	0.47	0.61	0.22
	4	0.37	0.59	0.60	0.42	0.52	0.24	0.33	0.57	0.21	0.34	0.54	0.18	0.40	0.58	0.24
	5	0.31	0.56	0.61	0.36	0.47	0.23	0.25	0.52	0.20	0.28	0.48	0.20	0.32	0.52	0.26
		Ref scenario			Scenario 1			Scenario 2			Scenario 3			Scenario 4
Breed B	G	BV	Add	Dom	BV	Add	Dom	BV	Add	Dom	BV	Add	Dom	BV	Add	Dom
	1	0.85	0.77	0.47	0.87	0.81	0.56	0.74	0.81	0.13	0.88	0.85	0.60	0.72	0.82	0.19
	2	0.64	0.65	0.43	0.60	0.64	0.55	0.55	0.68	0.16	0.71	0.76	0.59	0.54	0.69	0.18
	3	0.50	0.58	0.49	0.42	0.59	0.55	0.45	0.59	0.18	0.59	0.70	0.63	0.40	0.62	0.16
	4	0.38	0.58	0.53	0.37	0.56	0.54	0.37	0.54	0.19	0.49	0.65	0.68	0.36	0.56	0.15
	5	0.30	0.55	0.56	0.24	0.54	0.58	0.32	0.49	0.18	0.35	0.60	0.68	0.28	0.48	0.14

Reference scenario = selection criteria in both breeds A and B were for purebred performance (P) and both breeds had each a separate training set; scenario 1 = selection criteria in breed A was for crossbred performance (C) and selection criteria in breed B was for purebred performance and both breeds had each a separate training set; scenario 2 = selection criteria in both breeds A and B were for crossbred performance and both breeds had each a separate training set; scenario 3 = selection criteria in breed A was for crossbred performance and selection criteria in breed B was for purebred performance and both breeds had a common training set; scenario 4 = selection criteria in both breeds A and B were for crossbred performance and both breeds had a common training set.

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