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 2 Variance components estimated with model 1 for carcass weight

No. of SNPs selected	$σ e 2 k g 2 * 1$	$σ g 2 k g 2 * 1$	$σ p 2 k g 2 * 1$	$σ g 2 / σ p 2$
100	1798.9 (193.8) ± 90.7	289.9 (26.4) ± 78.1	2088.8 (103.2) ± 112.9	0.14 ± 0.03
200	1737.7 (187.2) ± 91.1	322.4 (29.4) ± 76.1	2060.0 (101.8) ± 107.7	0.16 ± 0.03
500	1447.0 (155.9) ± 86.0	586.8 (53.5) ± 102.5	2033.7 (100.5) ± 109.3	0.29 ± 0.04
1,000	1290.3 (139.0) ± 90.1	745.1 (68.0) ± 121.9	2035.4 (100.5) ± 111.3	0.36 ± 0.05
2,000	1168.5 (125.9) ± 96.6	844.9 (77.1) ± 135.8	2013.4 (99.5) ± 110.6	0.42 ± 0.05
4,000	1025.2 (110.5) ± 107.7	1008.6 (92.0) ± 160.7	2033.8 (100.5) ± 114.7	0.49 ± 0.06
6,000	1028.9 (110.9) ± 107.5	980.0 (89.4) ± 155.5	2009.0 (99.2) ± 111.2	0.49 ± 0.06
8,000	992.1 (106.9) ± 113.0	1032.1 (94.1) ± 165.5	2024.2 (100.0) ± 113.3	0.51 ± 0.06
10,000	956.4 (103.1) ± 112.5	1065.1 (97.2) ± 166.7	2021.5 (99.9) ± 113.5	0.53 ± 0.06
20,000	895.6 (96.5) ± 117.1	1137.0 (103.7) ± 176.7	2032.6 (100.4) ± 115.5	0.56 ± 0.07
30,000	915.8 (98.7) ± 117.2	1112.6 (101.5) ± 174.2	2028.5 (100.2) ± 114.3	0.55 ± 0.07
38,502	928.1 (100) ± 117.6	1096.3 (100) ± 173.5	2024.4 (100) ±113.7	0.54 ± 0.07
Imp1^*2	867.2 (93.4) ± 119.7	1166.6 (106.4) ± 180.3	2033.8 (100.5) ± 115.6	0.57 ± 0.07
Imp2^*2	931.1 (100.3) ± 118.0	1093.9 (99.8) ± 173.5	2025.0 (100.0) ± 113.7	0.54 ± 0.07

*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