Fine mapping of a QTL on bovine chromosome 6 using imputed full sequence data suggests a key role for the group-specific component (GC) gene in clinical mastitis and milk production

Table 1 Results from association analyses for the SNPs on BTA6 from the Illumina BovineHD BeadChip

Trait^a	SNP	bp	−log(p)	Frequency	Effect	SE	A1	A2
CM1	rs110300280	88,744,593	18.1	0.37	0.007	0.0008	A	G
CM4	rs110300280	88,744,593	11.9	0.37	0.006	0.0008	A	G
CM6	rs109066341	88,890,502	11.5	0.41	0.007	0.001	G	A
kg milk	rs110300280	88,744,593	11.4	0.37	46.07	6.619	A	G
kg protein	rs134055603	88,832,335	17.7	0.42	1.65	0.187	A	G
kg fat	rs110679276	88,750,266	9.6	0.38	1.70	0.2669	A	G

For each trait, the most significant SNP for the QTL that was detected close to the GC gene is shown with its position in base pairs (bp), negative logarithm of the p value [−log(p)], minor allele frequency (Freq), allele substitution effect for the first allele of the SNP (Effect), standard error of the SNP effect (SE), and alleles
^aCM1, CM4 and CM6: clinical mastitis in the period from −15 to 30 days postpartum in the first, second and third lactations, respectively. Performance data for kg milk, kg protein and kg fat refers to 305 d lactation yields

ISSN: 1297-9686