Table 2.

List of genes upregulated ≥1.5-fold (p < 0.05) in rat middle ear mucosae colonized with MRSA and PA and upregulated or downregulated with MRSA or PA single species colonization.

Serial number	Gene accession	Gene ID	Gene name	Protein	Fold change in mixed inoculation	p-value	Fold change with single species SA	p-value	Fold change with single species PA	p-value
1	XLOC_007451	TBIG007451	CHI3L1	Chitinase-3-like protein 1	1.5	0.0127	1.35	0.0061	1.21	0.0636
2	XLOC_008245	TBIG008245	PPP2R3D	Serine/threonine-protein phosphatase 2A regulatory subunit B” subunit delta	1.52	0.0412	1.67	0.00865	1.38	0.08015
3	XLOC_010172	TBIG010172	JAK3	Tyrosine-protein kinase JAK3	1.52	0.01095	1.31	0.01205	1.64	0.0179
4	XLOC_016832	TBIG016832	FCN2	Ficolin-2	1.53	0.04235	0.547	0.38185	0.917	0.2557
5	XLOC_015362	TBIG015362	RT1-BA	Rano class II histocompatibility antigen, B alpha chain	1.54	0.0146	1.42	0.00855	0.573	0.35145
6	XLOC_026947	TBIG026947	TLR7	Toll-like receptor 7	1.55	0.0207	1.68	0.0028	1.4	0.0428
7	XLOC_023774	TBIG023774	SLA	Src-like-adapter	1.55	0.01355	1.65	0.0038	1.47	0.04885
8	XLOC_002817	TBIG002817	CORO1A	Coronin-1A	1.56	0.0055	1.5	0.00155	1.43	0.019
9	XLOC_014051	TBIG014051	CFI	Complement factor I	1.57	0.04835	0.89	0.1797	1.96	0.0404
10	XLOC_017708	TBIG017708	CTSZ	Cathepsin Z	1.57	0.0143	1.36	0.0164	0.876	0.19125
11	XLOC_013234	TBIG013234	CDH6	Cadherin-6	1.61	0.0029	1.22	0.00625	2.64	5.00E−05
12	XLOC_009200	TBIG009200	DNASE1L3	Deoxyribonuclease gamma	1.63	0.0323	1.61	0.01495	0.767	0.3716
13	XLOC_004746	TBIG004746	PRSS22	Brain-specific serine protease 4	1.66	0.0247	0.698	0.2435	2.12	0.0144
14	XLOC_025304	TBIG025304	RPLP1	60S acidic ribosomal protein P1	1.67	0.00535	1.6	0.00365	0.472	0.41575
15	XLOC_024595	TBIG024595	STRA6	Stimulated by retinoic acid gene 6 protein homolog	1.67	0.0355	0.526	0.4289	2.35	0.011
16	XLOC_026676	TBIG026676	ST8SIA4	CMP-N-acetylneuraminate-poly-alpha-2,8-sialyltransferase	1.67	0.0333	1.43	0.02115	2.04	0.01315
17	XLOC_006363	TBIG006363	TFRC	Transferrin receptor protein 1	1.69	0.0043	0.726	0.1144	0.124	0.82765
18	XLOC_016540	TBIG016540	HCK	Tyrosine-protein kinase HCK	1.7	0.00685	1.94	0.00045	1.36	0.04235
19	XLOC_006164	TBIG006164	SAMSN1	SAM domain-containing protein SAMSN-1	1.71	0.0231	1.8	0.00595	1.34	0.09725
20	XLOC_019232	TBIG019232	ENV	Envelope glycoprotein gp70	1.71	0.0325	1.3	0.0364	1.87	0.0289
21	XLOC_007736	TBIG007736	LAMB3	Laminin subunit beta-3	1.71	0.0046	1.01	0.0415	2.27	0.0012
22	XLOC_014992	TBIG014992	RT1-BB	Rano class II histocompatibility antigen, B-1 beta chain	1.72	0.0213	1.54	0.0081	0.402	0.48745
23	XLOC_014993	TBIG014993	RT1-DB1	Rano class II histocompatibility antigen, D-1 beta chain	1.74	0.00385	1.59	0.00255	1.3	0.0427
24	XLOC_020229	TBIG020229	CNR2	Cannabinoid receptor 2	1.74	0.04435	1.69	0.0167	1.57	0.12025
25	XLOC_002804	TBIG002804	LAT	Linker for activation of T-cells family member 1	1.77	0.0202	1.37	0.0229	1.34	0.10215
26	XLOC_016951	TBIG016951	RPS17	40S ribosomal protein S17	1.8	0.04525	1.42	0.06125	−0.406	0.725
27	XLOC_023263	TBIG023263	KRT7	Keratin, type II cytoskeletal 7	1.81	0.003	0.839	0.10965	2.18	0.00285
28	XLOC_025817	TBIG025817	C3	Complement C3	1.85	0.0068	1.81	0.00065	0	1
29	XLOC_015648	TBIG015648	ELL3	RNA polymerase II elongation factor ELL3	1.9	0.04245	1.08	0.12345	0.566	0.57055
30	XLOC_002984	TBIG002984	GAL	Galanin peptides	1.91	0.03065	0.656	0.36215	−0.583	0.604
31	XLOC_016373	TBIG016373	NMES1	Normal mucosa of esophagus-specific gene 1 protein	2.04	0.01855	1.79	0.0102	1.43	0.1201
32	XLOC_018558	TBIG018558	KLRD1	Natural killer cells antigen CD94	2.07	0.0351	1.83	0.05635	0.31	0.8115
33	XLOC_001187	TBIG001187	SRCRM_HUMAN	Putative scavenger receptor cysteine-rich domain-containing protein LOC619207	2.07	0.0019	2.57	5.00E−05	0.401	0.5927
34	XLOC_018355	TBIG018355	CD8A	T-cell surface glycoprotein CD8 alpha chain	2.11	0.0217	2.51	0.00255	1.2	0.23315
35	XLOC_020260	TBIG020260	PLA2G2D	Group IID secretory phospholipase A2	2.25	0.01785	1.44	0.0665	0.51	0.6369
36	XLOC_023454	TBIG023454	GZMM	Granzyme M	2.41	0.0116	2.33	0.0055	−0.876	0.44375
37	XLOC_005212	TBIG005212	CCL5	C-C motif chemokine 5	2.42	0.01385	2.05	0.00985	−0.559	0.6301
38	XLOC_022420	TBIG022420	HVM17_MOUSE	Ig heavy chain V region MOPC 47A	2.51	0.02705	1.16	0.22905	0.871	0.51305
39	XLOC_015317	TBIG015317	UBD	Ubiquitin D	2.7	0.00275	1.93	0.00665	1.14	0.2022
40	XLOC_011426	TBIG011426	TCC2_MOUSE	T-cell receptor gamma chain C region C7.5	2.72	0.0168	3.31	0.00035	0.352	0.78555
41	XLOC_006104	TBIG006104	LV2B_MOUSE	Ig lambda-2 chain V region MOPC 315	2.8	0.002	0.785	0.2881	0.937	0.33275
42	XLOC_018648	TBIG018648	KLRB1F	Killer cell lectin-like receptor subfamily B member 1F	2.82	0.02	2.45	0.02085	0.0885	0.9476
43	XLOC_012586	TBIG012586	CLEC3A	C-type lectin domain family 3 member A	3.07	0.04855	3.67	0.014	1.08	0.46495
44	XLOC_022400	TBIG022400	HVM43_MOUSE	Ig heavy chain V region MOPC 141	3.15	0.04835	3.26	0.06595	0.34	0.8163