Table 2.

Proteins whose abundance in P. aeruginosa PAO1 increased significantly in conditions of low intracellular levels of c-di-GMP

PA no.	Gene	Description of product	Peptides (95%)	Coverage (95%)	Ratio (115:114)	Pa (115:114)
PA2452		Enterochelin esterase	43	53.42	99.08	5.22E–03
PA1092	fliC	Flagellin type B	146	54.3	99.08	3.19E–02
PA3531	bfrB	Bacterioferritin	33	34.18	22.28	2.82E–04
PA4777	pmrB	PmrB: two-component regulator system signal sensor kinase PmrB	2	5.451	11.91	3.28E–02
PA1596	htpG	Heat shock protein 90	30	22.4	10.57	1.58E–02
PA2821	gstA	Glutathione S-transferase	5	20.91	10.28	3.68E–02
PA4386	groES	Cochaperonin GroES	2	45.36	9.20	3.15E–02
PA3126	ibpA	Heat shock protein Hsp20	15	24.16	8.95	1.20E–02
PA4228	pchD	Pyochelin biosynthesis protein PchD	14	13.71	8.24	3.35E–03
PA1039	ychJ	Hypothetical protein O1Q_07577	2	15.29	7.94	3.79E–02
PA3552	arnB	UDP-4-amino-4-deoxy-l-arabinose–oxoglutarate aminotransferase	4	13.09	7.38	2.85E–02
PA4942	hflK	Protease subunit HflK	6	17	7.31	2.24E–03
PA1534	recR	Recombination protein RecR	2	21.21	7.31	3.72E–02
PA4670	prs	Ribose-phosphate pyrophosphokinase	43	56.55	7.11	8.95E–05
PA4710	phuR	Heme/hemoglobin uptake outer membrane receptor PhuR	20	25.52	6.55	1.57E–04
PA4227	pchR	Transcriptional regulator PchR	3	15.54	6.31	2.34E–02
PA4224	pchG	Pyochelin biosynthetic protein PchG	16	30.37	6.25	9.10E–03
PA3158	wbpB	UDP-2-acetamido-2-deoxy-d-glucuronic acid 3-dehydrogenase, WbpB	10	22.78	6.08	3.03E–02
PA0427	oprM	Major intrinsic multiple antibiotic resistance efflux outer membrane protein OprM	13	32.16	5.40	1.56E–03
PA0018	fmt	Bifunctional UDP-glucuronic acid decarboxylase/UDP-4-amino-4-deoxy-l-arabinose formyltransferase	3	8.006	5.15	2.80E–02
PA1803	lon	Putative ATP-dependent protease	23	25.28	4.79	1.21E–04
PA3135		Putative transcriptional regulator	2	11.11	4.61	3.86E–02
PA4231	pchA	Salicylate biosynthesis isochorismate synthase	4	12.39	4.57	4.12E–02
PA3114	truA	tRNA pseudouridine synthase A	3	17.54	3.98	3.39E–02
PA3831	pepA	Multifunctional aminopeptidase A	42	38.59	3.80	2.66E–02
PA3159	wbpA	UDP-glucose/GDP-mannose dehydrogenase	17	31.42	3.66	5.69E–03
PA5054	hslU	ATP-dependent protease ATP-binding subunit HslU	6	13.87	3.44	4.85E–02
PA4225	pchF	pchF gene product	24	16.8	3.25	5.80E–06
PA0426	mexB	RND multidrug efflux transporter MexB	6	5.067	3.25	3.05E–03
PA1288	ompP1	Putative outer membrane protein	8	24.76	3.19	2.64E–02
PA4749	glmM	Phosphoglucosamine mutase	5	8.09	3.16	3.36E–02
PA5213	gcvP1	Glycine dehydrogenase	3	3.967	2.91	8.00E–03
PA3478	rhlB	Rhamnosyltransferase chain B	2	7.512	2.86	3.40E–03
PA2086	ephx	Epoxide hydrolase	3	19.33	2.75	3.59E–02
PA4336		Hypothetical protein O1Q_03368	9	23.32	2.73	3.78E–03
PA4595	yjjK	Putative ABC transporter ATP-binding protein	15	24.37	2.68	9.43E–04
PA4476		Hypothetical protein O1Q_04078	6	5.956	2.51	9.67E–03
PA2290	gcd	Glucose dehydrogenase	9	9.34	2.42	3.72E–02
PA5237	yigC	3-Octaprenyl-4-hydroxybenzoate carboxy-lyase	3	6.967	2.42	4.15E–02
PA2302	ambE	Protein AmbE	20	10.34	2.27	1.66E–02
PA4307	pctC	pctC gene product	20	31.65	2.11	2.50E–03
PA3707	wspB	Hypothetical protein O1Q_02948	2	14.79	2.07	3.07E–02
PA4588	gdhA	Glutamate dehydrogenase	30	41.57	2.05	3.19E–02
PA4226	pchE	pchE gene product	78	30.6	2.03	1.85E–05

^aSignificance was defined as having a 115:114 abundance score of >2.0 and a P value for 115:114 of <0.05. “115:114” refers to the ratio of the protein's abundance in the low c-di-GMP PAO1/p_lac-yhjH strain (strain 115) versus the high c-di-GMP PAO1ΔwspFstrain (strain 114).