A validation study of loci associated with mastitis resistance in two French dairy sheep breeds

Table 4 List of SNPs associated with the different phenotypes for the Lacaune population genotyped with the 3SR-mastitis-960-SNP custom chip

OAR	SNP ID	SNP position	MAF %	Estimation of SNP effect	SE	p value of Wald test	Significant	Trait
2	rs414463145	204256340	23	− 2.1	0.6	1.1E−03		FAT_L1
	rs420100221	204333224	32	− 2.0	0.6	6.9E−04		FAT_L1
	rs409223720	206118959	46	0.0	0.0	1.3E−03		ABSCESS_L1
	rs406554330	206311785	35	0.1	0.0	8.2E−04		ABSCESS_L1
	rs421656393	207088920	34	2.0	0.6	1.2E−03		FAT_L1
	rs409595486	209135680	12	2.6	0.8	7.6E−04		FAT_L1
3	rs428428896	129680367	22	0.6	0.1	9.6E−06	***	LSCS_L1
			22	0.3	0.1	1.4E−03		STAPH_L1
			21	2.0	0.6	1.1E−03		W_1ST_LAMB
	rs425616833	129685397	39	− 0.4	0.1	3.2E−04		LSCS_L1
	rs868996547	129722200	17	0.8	0.1	3.0E−07	***	LSCS_L1
			17	0.3	0.1	6.8E−04		STAPH_L1
			17	1.0	0.3	6.0E−04		W_DAY_100
			17	1.5	0.4	3.7E−04		W_DAY_250
			16	2.4	0.7	5.0E−04		W_1ST_LAMB
			15	2.8	0.9	9.5E−04		W_DAY_920
	rs426941860	129927538	20	0.7	0.1	5.2E−07	***	LSCS_L1
			20	0.8	0.3	1.2E−03		W_DAY_100
			19	2.4	0.7	1.0E−03		W_DAY_920
16	rs404369966	28321220	25	− 0.2	0.0	3.2E−04		W_BIRTH
	rs403769730	35801129	6	34.5	8.4	5.2E−05	***	MILK_L1
			6	1.5	0.4	3.4E−04		W_DAY_100
			7	2.1	0.6	6.8E−04		W_DAY_250
19	rs412825949	25639818	32	− 0.3	0.1	4.1E−04		STAPH_L1
	rs416350585	25684229	14	3.6	0.9	3.4E−05	***	W_DAY_920
	rs400011699	28086791	38	− 14.9	4.0	2.6E−04		MILK_L1

SNPs in italic are significant with the Bonferroni threshold and the others are significant with the suggestive threshold
OAR Ovis aries chromosome, MAF minor allele frequency, SE standard error of the estimated SNP effect

ISSN: 1297-9686