Table 3.

Odds Ratio, carriage rate per clonal complex and GenBank references of genes associated with clinical mastitis based on a genome wide association study performed on 276 S. aureus isolates obtained from bovine clinical and subclinical mastitis in 11 European countries.

Genea	Odds Ratiob	Best pairwise comparision pc	CC151 (%)d	CC97 (%)	CC479 (%)	CC133 (%)	CC398 (%)	CC1 (%)	CC20 (%)	CC8 (%)	Other CCs (%)5	Weighted average (%)	GenBank reference
DUF3310 domain-containing protein	2.35	< 0.001	82	60	97	74	95	79	80	30	50	75	WP_001624706.1
DUF2483 domain-containing phage protein	2.36	0.01	43	35	97	12	0	7	0	11	10	33	WP_001077279.1
NAD-specific glutamate dehydrogenase	2.83	0.01	100	0	97	60	0	0	0	0	30	50	SAO39934.1
phiPVL ORF050-like protein	2.23	0.02	98	77	100	0	0	14	30	0	17	59	ABD21348.1
Staphylococcal enterotoxin type C1/U	2.21	0.03	98	0	100	0	0	0	0	0	66	44	WP_109162118.1
Staphylococcal enterotoxin type G	1.95	0.04	98	0	100	0	0	0	100	0	43	49	WP_141060424.1
Staphylococcal enterotoxin type N	1.95	0.04	98	0	100	0	0	0	100	0	43	49	WP_109162119.1
Staphylococcal enterotoxin type I	1.95	0.04	98	0	100	0	0	0	100	0	43	49	QCW39073.1
Multidrug transporter protein (SaPIbov3)	2.31	0.04	99	77	100	0	0	14	30	0	17	59	WP_065315972.1
Intramembrane metalloprotease/(SaPIbov3)	2.31	0.04	99	77	100	0	0	14	30	0	17	59	WP_070008570.1
Hypothetical protein (SaPIbov3)	2.31	0.04	99	77	100	0	0	14	30	0	17	59	WP_000921697.1
Staphylococcal enterotoxin type M	2.07	0.06	98	0	100	0	0	0	0	0	20	43	WP_109162116.1
SAS066 AgrD ( type II)	2.52	0.06	98	0	100	0	0	0	0	0	47	46	SCU54394.1
Accessory gene regulator protein B4 (type II)	2.52	0.06	98	0	100	0	0	0	0	0	47	46	CZQ66246.1
Hypothetical protein	2.83	0.06	100	13	100	0	0	0	0	0	3	44	WP_000389772.1
TfoX/Sxy family protein	2.83	0.06	100	13	100	0	0	0	0	0	3	44	WP_000179903.1
Arsenate reductase	1.97	0.06	99	0	100	100	0	0	0	100	66	61	WP_000163240.1
Trypsin-like serine protease	2.61	0.06	0	0	100	0	0	0	0	0	50	17	WP_043054986.1
SACOL0901 pathogenicity island protein	2.82	0.07	98	88	100	84	0	14	30	28	27	71	WP_109183239.1
DUF1433 domain-containing protein	3.42	0.07	98	98	100	100	0	0	100	0	63	79	WP_031900638.1

^aGene annotation by prokka and confirmed using BLAST search of gene sequence 4. Carriage rate of gene per clonal complex.

^bOdds Ratio of causing clinical rather than subclinical mastitis from the Genome wide association study 5. Includes isolates belonging to CC9, CC50, CC5, CC49, CC7, CC45, CC101, CC20, CC30 and CC425.

^cBest pairwise comparison P value from GWAS performed using scoary.