Prediction of genomic breeding values for growth, carcass and meat quality traits in a multi-breed sheep population using a HD SNP chip

Brito, Luiz F.; Clarke, Shannon M.; McEwan, John C.; Miller, Stephen P.; Pickering, Natalie K.; Bain, Wendy E.; Dodds, Ken G.; Sargolzaei, Mehdi; Schenkel, Flávio S.

doi:10.1186/s12863-017-0476-8

Table 9 The ratio, K, of expected (assuming accuracies of molecular breeding values for each scenario) spread to observed spread of molecular breeding values for meat quality traits

From: Prediction of genomic breeding values for growth, carcass and meat quality traits in a multi-breed sheep population using a HD SNP chip

Trait¹	GB0	GB2PC	GB4PC	GB6PC	GB10	GB20	GBRCV	GBKCV	GBC	k5EDM	k5G	k10EDM	K10G1	K10G2
A24	0.86	0.86	0.84	0.84	0.88	0.90	0.45 ± 0.09	0.33 ± 0.06	0.65 ± 0.28	0.88	0.87	0.78	0.62	1.01
A24ad	1.01	1.00	1.02	1.02	1.03	1.05	0.44 ± 0.09	0.32 ± 0.10	0.81 ± 0.23	1.00	1.01	0.87	0.75	1.11
A48	0.66	0.65	0.66	0.63	0.67	0.67	0.44 ± 0.03	0.41 ± 0.07	0.64 ± 0.36	0.65	0.65	0.65	0.38	1.17
A48ad	0.78	0.75	0.79	0.77	0.79	0.80	0.44 ± 0.03	0.49 ± 0.09	0.68 ± 0.36	0.77	0.77	0.82	0.57	1.29
A96	0.67	0.63	0.62	0.57	0.70	0.73	0.40 ± 0.03	0.28 ± 0.07	0.51 ± 0.40	0.65	0.66	0.65	0.31	0.79
A96ad	0.81	0.77	0.78	0.74	0.85	0.89	0.43 ± 0.04	0.35 ± 0.06	0.67 ± 0.41	0.79	0.80	0.81	0.37	0.95
A168	0.12	−0.28	0.35	−0.38	0.14	0.17	0.08 ± 0.02	0.06 ± 0.04	1.96 ± 1.42	0.16	0.10	0.22	0.24	2.49
A168ad	0.69	−0.16	0.24	−0.22	0.77	0.86	0.09 ± 0.02	0.11 ± 0.06	2.26 ± 1.41	0.73	0.66	1.27	0.63	2.97
B24	0.99	0.96	0.98	0.97	1.04	1.09	0.35 ± 0.05	0.27 ± 0.06	0.69 ± 0.67	1.00	0.99	0.92	0.57	1.31
B48	0.81	0.81	0.81	0.80	0.85	0.88	0.29 ± 0.03	0.21 ± 0.06	0.53 ± 0.46	0.84	0.81	0.80	0.58	1.30
B96	1.05	1.06	1.08	1.06	1.08	1.11	0.26 ± 0.02	0.32 ± 0.09	1.79 ± 0.59	1.07	1.04	1.41	1.15	1.78
B168	1.30	1.24	1.31	1.27	1.36	1.43	0.25 ± 0.04	0.33 ± 0.05	1.65 ± 0.59	1.31	1.30	1.79	1.59	1.21
L24	0.96	0.95	0.94	0.93	1.02	1.09	0.50 ± 0.03	0.37 ± 0.04	1.43 ± 0.16	1.01	0.96	1.06	0.75	1.54
L48	0.90	0.92	0.93	0.93	0.95	1.02	0.46 ± 0.04	0.39 ± 0.08	1.25 ± 0.68	0.90	0.90	0.91	0.60	1.61
L96	0.94	0.90	0.94	0.93	1.00	1.07	0.51 ± 0.04	0.39 ± 0.09	1.06 ± 0.48	0.94	0.94	0.90	0.55	1.50
L168	0.96	0.96	0.98	0.97	1.01	1.08	0.50 ± 0.06	0.38 ± 0.05	1.02 ± 0.43	0.97	0.96	1.08	0.77	1.42
LKGF	0.76	0.76	0.78	0.77	0.80	0.85	0.55 ± 0.04	0.43 ± 0.08	0.52 ± 0.35	0.76	0.77	0.71	0.76	0.50
LKGFad	0.80	0.80	0.80	0.78	0.85	0.90	0.58 ± 0.05	0.42 ± 0.08	0.42 ± 0.35	0.79	0.81	0.68	0.69	0.51
MARB	1.16	1.06	1.07	1.07	1.18	1.25	0.72 ± 0.05	0.62 ± 0.05	1.30 ± 0.65	1.12	1.12	1.13	1.05	1.23
MARBad	1.12	1.09	1.10	1.08	1.17	1.24	0.74 ± 0.06	0.67 ± 0.04	1.38 ± 0.58	1.12	1.12	1.17	1.09	1.33
LPH	1.08	1.05	1.00	0.94	1.15	1.23	0.22 ± 0.02	0.17 ± 0.08	1.00 ± 0.63	1.10	1.08	1.06	0.89	1.54
LPHad	1.17	1.14	1.09	1.02	1.24	1.32	0.22 ± 0.03	0.17 ± 0.09	1.02 ± 0.48	1.18	1.17	1.13	0.96	1.68
Average	0.91 ± 0.23	0.86 ± 0.33	0.90 ± 0.24	0.84 ± 0.35	0.94 ± 0.23	0.99 ± 0.25	0.40 ± 0.18	0.32 ± 0.15	1.07 ± 0.50	0.92 ± 0.22	0.90 ± 0.23	0.97 ± 0.36	0.78 ± 0.34	1.35 ± 0.53

¹Abbreviations are presented in Table 1; “ad”: traits that were adjusted for correlated variables; h²: heritability estimate; GB0: spread of molecular breeding values for GBLUP fitting only G matrix; GB10 and GB20: spread of molecular breeding values for GBLUP fitting G matrix and 10 or 20% of A matrix, respectively; GB2PC, GB4PC and GB6PC: spread of molecular breeding values for GBLUP fitting 2, 4 or 6 principal components, respectively; GBRCV: spread of molecular breeding values for GBLUP and random cross-validation; GBKCV: spread of molecular breeding values for GBLUP for K-means clustering; GBC: spread of molecular breeding values for GBLUP for predictions performed within each cluster; K5EDM: spread of molecular breeding values for GBLUP when animals were clustered based on EDM and assuming 5 subpopulations; K5G: spread of molecular breeding values for GBLUP when animals were clustered based on a distance matrix built from G matrix and assuming 5 subpopulations; K10EDM: spread of molecular breeding values for GBLUP when animals were clustered based on EDM and assuming 10 subpopulations; K10G^a: spread of molecular breeding values for GBLUP when animals were clustered based on a distance matrix built from G matrix and assuming 10 subpopulations

Back to article page

ISSN: 2730-6844

Contact us

General enquiries: journalsubmissions@springernature.com

BMC Genomic Data

Contact us