Effects of single nucleotide polymorphism marker density on degree of genetic variance explained and genomic evaluation for carcass traits in Japanese Black beef cattle

Table 3 Variance components estimated with model 1 for marbling score

No. of SNPs selected	$σ_{e}^{2} {(scor e^{2})}^{* 1}$	$σ_{g}^{2} {(scor e^{2})}^{* 1}$	$σ_{p}^{2} {(scor e^{2})}^{* 1}$	$σ_{g}^{2} / σ_{p}^{2}$
100	10.68 (280.4) ± 0.55	0.93 (11.3) ± 0.38	11.62 (95.9) ± 112.9	0.08 ± 0.03
200	10.81 (283.9) ± 0.57	0.72 (8.7) ± 0.35	11.54 (95.3) ± 107.7	0.06 ± 0.03
500	9.27 (243.4) ± 0.55	2.35 (28.3) ± 0.55	11.63 (96.0) ± 109.3	0.29 ± 0.04
1,000	8.01 (210.4) ± 0.57	3.80 (45.7) ± 0.73	11.81 (97.5) ± 111.3	0.32 ± 0.05
2,000	6.64 (174.2) ± 0.57	5.18 (62.4) ± 0.82	11.82 (97.6) ± 110.6	0.44 ± 0.05
4,000	5.40 (141.8) ± 0.59	6.49 (78.2) ± 0.92	11.89 (98.2) ± 114.7	0.54 ± 0.06
6,000	4.85 (127.2) ± 0.60	7.07 (85.2) ± 0.97	11.92 (98.4) ± 111.2	0.59 ± 0.06
8,000	4.86 (127.7) ± 0.62	7.07 (85.1) ± 0.98	11.93 (98.5) ± 113.3	0.59 ± 0.06
10,000	4.36 (114.5) ± 0.63	7.65 (92.2) ± 1.03	12.01 (99.2) ± 113.5	0.63 ± 0.06
20,000	3.74 (98.1) ± 0.64	8.36 (100.7) ± 1.08	12.10 (99.9) ± 115.5	0.69 ± 0.06
30,000	3.77 (98.8) ± 0.66	8.37 (100.8) ± 1.10	12.13 (100.2) ± 114.3	0.69 ± 0.06
38,502	3.81 (100) ± 0.66	8.30 (100) ± 1.09	12.11 (100) ± 113.7	0.69 ± 0.06
Imp1^*2	4.11 (107.9) ± 0.68	8.01 (96.6) ± 1.09	12.12 (100.1) ± 115.6	0.66 ± 0.06
Imp2^*2	3.91 (102.7) ± 0.66	8.19 (98.7) ± 1.09	12.10 (99.9) ± 113.7	0.67 ± 0.06

*¹Values in parentheses represent the percentage relative to the estimate obtained with model 1 incorporating the G matrix constructed using all available SNPs.
*²Imp1 and imp2: 38,502 SNP genotypes imputed from 4,000 and 10,000 SNPs, respectively.

ISSN: 2730-6844