Analysis of polygenic selection in purebred and crossbred pig genomes using generation proxy selection mapping

Table 10 Number of SNPs significantly associated with AGE (difference, in months, between each pig’s birth date and January 2006) for each subset using randomly simulated genotype data

Subset	Populations	Pigs, n	SNPs, n	Significant SNPs, n^a	Error rate, %
1	Duroc	16,595	38,286	1	0.0026
2	Landrace	15,457	45,090	0	0.0000
3	Yorkshire	15,772	45,036	2	0.0044
5	Duroc and Landrace (Method 1)	32,066	46,008	0	0.0000
5	Duroc and Landrace (Method 2)	32,066	46,008	4	0.0087
6	Duroc and Yorkshire (Method 1)	32,387	46,098	0	0.0000
6	Duroc and Yorkshire (Method 2)	32,387	46,098	7	0.0152
8	Landrace and Yorkshire (Method 1)	31,240	46,260	1	0.0022
8	Landrace and Yorkshire (Method 2)	31,240	46,260	3	0.0065
11	Duroc, Landrace, and Yorkshire (Method 1)	47,849	46,422	0	0.0000
11	Duroc, Landrace, and Yorkshire (Method 2)	47,849	46,422	6	0.0129

^aQ < 0.10
Method 1 = genotypes simulated as if populations recently diverged (same founder population); Method 2 = genotypes simulated as if populations are completely unrelated (different founder populations)
Error rate = (Significant SNPs, n/SNPs, n) × 100; n = number

ISSN: 1297-9686