Genome-wide association study and scan for signatures of selection point to candidate genes for body temperature maintenance under the cold stress in Siberian cattle populations

Table 1 Regions, SNPs, and genes reported by all types of GWAS and by DCMS

BTA	Coordinates	SNP	Genes	P-value	Q-value
GWAS SNPs
15	2,551,329	BovineHD1500000589	GRIA4	6.97 × 10⁻⁷	0.0682
15	2,030,345	BovineHD1500000472^a	MSANTD4, GRIA4	1.26 × 10⁻⁶	0.0682
GWAS HTR
15	1,991,615	ARS-BFGL-NGS-65843	MSANTD4, GRIA4	7.82 × 10⁻⁷	0.0161
	1,997,589	BovineHD1500000469
	2,030,345	BovineHD1500000472^a
	2,060,428	BovineHD1500000476
22	18,039,089	ARS-BFGL-NGS-52880	GRM7, LMCD1	1.29 × 10⁻⁶	0.0161
	18,080,658	BovineHD2200005201
	18,127,222	BovineHD2200005211
	18,151,738	BovineHD2200005214
	18,158,982	BovineHD2200005216
DCMS
15	1,715,870	BovineHD1500000433	MRE11	0.000421	0.0459
	1,748,346	BovineHD1500000439	ANKRD49; AASDHPPT	5.74 × 10⁻⁵	0.0122
	1,776,278	BovineHD4100011767	AASDHPPT	6.42 × 10⁻⁶	0.0026
	1,784,872	ARS-BFGL-NGS-116439	AASDHPPT	4.80 × 10⁻⁶	0.0022
	1,798,291	BovineHD4100011768	AASDHPPT	4.22 × 10⁻⁶	0.0019
	1,838,326	BovineHD1500000457	AASDHPPT; MSANTD4	7.76 × 10⁻⁶	0.003
	1,889,648	BovineHD1500000462	AASDHPPT; MSANTD4	0.000111	0.0191
	1,958,234	BTA-18366-no-rs	AASDHPPT; MSANTD4	8.03 × 10⁻⁵	0.0153
	1,991,615	ARS-BFGL-NGS-65843	MSANTD4	6.88 × 10⁻⁵	0.0137
	1,997,589	BovineHD1500000469	MSANTD4	6.12 × 10⁻⁵	0.0127
	2,030,345	BovineHD1500000472^a	MSANTD4; GRIA4	6.88 × 10⁻⁵	0.0137
	2,045,135	Hapmap52632-rs29014915	MSANTD4; GRIA4	0.000114	0.0194
	2,060,428	BovineHD1500000476	MSANTD4; GRIA4	0.000412	0.0455
	2,082,429	BovineHD1500000480	MSANTD4; GRIA4	0.000504	0.0508
	2,117,657	BovineHD1500000487	GRIA4	0.000589	0.0558
	2,121,835	Hapmap50196-BTA-105647	GRIA4	0.000402	0.045