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 1 Extent of linkage disequilibrium and distance between two adjacent SNPs and correlations for elements of G matrices

No. of SNPs selected	r ²		d(Mb)		Correlation*
No. of SNPs selected	Mean	SD	Mean	SD	r _D	r _N	r _A
100	0.008	0.011	25.98	3.15	0.61	0.51	0.59
200	0.017	0.027	12.86	1.95	0.74	0.64	0.72
500	0.032	0.060	5.10	1.03	0.82	0.79	0.86
1,000	0.048	0.077	2.55	0.62	0.89	0.88	0.92
2,000	0.057	0.093	1.27	0.39	0.94	0.94	0.96
4,000	0.066	0.108	0.65	0.65	0.97	0.97	0.98
6,000	0.077	0.121	0.44	1.03	0.98	0.98	0.99
8,000	0.086	0.136	0.33	0.66	0.99	0.99	0.99
10,000	0.096	0.151	0.26	0.45	0.99	0.99	0.99
20,000	0.144	0.215	0.13	0.29	0.99	0.99	0.99
30,000	0.187	0.261	0.09	0.24	0.99	0.99	0.99
38,502	0.204	0.275	0.07	0.20	-	-	-

*Correlations between the diagonal (r_D), upper triangular (r_N) and all the elements (r_A) of two G matrices constructed using a given SNP subset and all available SNPs.

ISSN: 2730-6844