Genomic divergence of zebu and taurine cattle identified through high-density SNP genotyping

BMC Genomics

Table 2 Balancing selection: regions in the bottom 1% smoothed F_STvalues

Region	BTA	SNP start pos	SNP end pos	Lowest	CNV [21]	Within cattle type**	Candidate genes	Cross reference
B1	4	110,295,764	111,378,106	0.070	2
B2	4	111,742,866	112,562,902	0.076	2		CNTNAP2
B3	5	19,457,756	19,898,237	0.075	0		ATP2B1
B4	5	76,719,327	77,207,435	0.067	0		PKP2
B5	6	2,883,313	4,231,143	0.059	6		CCNA2, ANXA5
B6	6	12,490,545	13,266,473	0.062	1		CAMK2D
B7	6	54,759,464	55,199,755	0.062	4
B8	6	61,590,746	61,892,976	0.076	0		APBB2
B9	6	118,252,961	118,649,364	0.061	0	Guz
B10	7	65,205,183	65,242,121	0.079	0		GLRA1
B11	7	98,598,188	99,371,157	0.050	3		ERAP2, LNPEP
B12	11	11,993,676	13,090,823	0.072	0		DYSF
B13	11	16,914,701	17,716,204	0.074	2
B14	12	70,094,561	76,785,743	0.059	6		ABCC4
B15	14	53,550,213	54,231,380	0.066	2	Nel, Guz, Jer
B16	16	16,039,261	17,069,240	0.076	1		FAM5C
B17	16	19,740,336	20,450,779	0.073	0		ESRRG
B18	16	36,476,830	37,151,556	0.068	1		XCL2
B19	17	8,512,165	8,575,700	0.079	0
B20	21	69,852,429	70,269,531	0.054	0	Guz
B21	22	1,504,583	1,623,884	0.078	1		SEC61G, NEK10
B22*	23	24,242,547	31,194,961	0.025	30	Ang, Cha, Her, Lim	BOLA (MHC) genes, TNF, AGER, NCR3, C2, CFB, LY6G6F, BTNL2, IL17A, IL17F, CLIC1, CSNK2B, MOG	[12, 24]
B23	23	32,608,468	33,237,258	0.069	1	Cha	ALDH5A1, TDP2, GMNN
B24	26	46,663,802	47,234,109	0.055	0	Cha

^*Regions containing smoothed FST (sFST) in the bottom 0.1%.
^**Regions at sFST bottom 1% of within taurine and within zebu breeds. Full table of within cattle type results for candidate regions under balancing selection is on Additional file 7: Table S4. Ang – Angus; Bro – Brown Swiss, Cha – Charolais, Gue – Guernsey, Jer – Jersey, Her – Hereford, Hol – Holstein, Lim – Limousin, Nor – Norwegian Red, Guz – Guzera, Nel – Nelore.

ISSN: 1471-2164