Genetic analysis of teat number in pigs reveals some developmental pathways independent of vertebra number and several loci which only affect a specific side

Rohrer, Gary A.; Nonneman, Dan J.

doi:10.1186/s12711-016-0282-1

Genetics Selection Evolution

Table 3 Results of additive effects of SNPs in the validation population (n = 5453) for TTN with positions based on S. scrofa build 10.2

From: Genetic analysis of teat number in pigs reveals some developmental pathways independent of vertebra number and several loci which only affect a specific side

Chr.	Position	SNP name	Additive effect	Previous association	Previous references
1	181,741,697	ASGA0005093	0.116	TTN^a
2	59,489,740	INRA0008845	−0.073	LTN, MAX
2	81,675,738	ALGA0014021	−0.031	RTN
3	49,321,597	H3GA0009450	0.059	MAX	[6, 11, 13]
3	134,660,431	MARC0090699	0.069	LTN	[11, 13]
4	25,899,175	DRGA0004616	−0.103	LTN	[11, 40]
4	33,780,262	ALGA0024379	0.031	RTN, TTN	[11, 40]
5	252,858	H3GA0017369	−0.061	RTN	[34]
6	157,649,704	M1GA0009139	−0.071	LTN	[11, 50]
7	103,208,408	VRTN/NV090	0.335	LTN, MAX, RTN, TTN	[6, 12, 13, 16, 17, 50]
7	124,146,658	MARC0073407	−0.039	LTN	[11]
8	16,445,414	ALGA0046611	0.077	TTN	[12, 51]
8	37,492,529	ALGA0047617	−0.127	LTN, MAX	[13]
10	51,681,377	DIAS0002581	−0.034	LTN	[13, 33–35, 43]
10	52,456,152	H3GA0030271	−0.062	LTN, MAX, RTN, TTN	[13, 33–35, 43]
10	52,679,135	MARC0018399	0.137	LTN, MAX, RTN, TTN	[13, 33–35, 43]
10	56,365,810	ASGA0103067	0.027	MAX	[11, 13, 33, 34]
10	58,071,987	ASGA0048302	0.029	MAX	[11, 13, 33, 34]
10	60,511,977	ASGA0048404	−0.044	MAX, RTN, TTN	[11, 33, 34]
12	26,420,000	ALGA0065784	−0.038	MAX	[11, 33, 34]
13	146,433,577	H3GA0037388	−0.123	LTN, MAX
14	29,780,586	M1GA0018459	0.123	LTN, TTN
14	41,043,761	ASGA0062848	0.106	LTN
14	51,173,806	ASGA0063286	0.017	RTN
14	52,942,907	ALGA0077532	0.016	RTN
14	53,370,377	ASGA0063370	−0.062	MAX, RTN
14	54,744,215	H3GA0040220	0.093	MAX, RTN, TTN
14	54,791,585	ASGA0063388	NA^a	MAX, RTN, TTN
14	54,867,498	MARC0059175	NA^a	MAX, RTN, TTN
14	55,003,669	ASGA0063395	0.125	MAX, RTN
14	55,429,701	ASGA0063406	NA	MAX, RTN
15	37,205,130	ASGA0069274	−0.030	LTN	[50]
16	35,144,613	ALGA0090150	0.068	TTN	[11, 52]
16	50,977,092	MARC0028125	0.083	MAX	[11, 52]
18	4,400,270	ASGA0095800	−0.063	MAX	[13]
18	22,976,763	ALGA0097407	0.039	LTN	[53]

LTN left side teat number, MAX maximum teat number of a side, RTN right side teat number, TTN total teat number
^aThis SNP was not analyzed due to high linkage disequilibrium with another SNP included in the analysis
^bTrait which originally exceeded the 1.4% genomic variation

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ISSN: 1297-9686

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