TABLE 3.

Activated and repressed genes in P. aeruginosa following 12 h of interaction with PNHAE cells

PA no.	Fold changea	P valueb	Protein description and/or interspecies homology
PA3910	26.2	0.010	Hypothetical, alkaline phosphatase tat signal sequence domain, 41% similar to phosphodiesterase-alkaline phosphatase D (B. subtilis)
PA2635	25.5	0.012	Hypothetical, phosphatase
PA3909	24.9	0.004	Hypothetical, extracellular nuclease
PA0347	24.6	0.012	GlpQ, glycerophosphoryl diester phosphodiesterase, periplasmic
PA3280	21.9	0.002	OprO, outer membrane porin precursor
PA0688	21.4	0.003	Hypothetical, 100% identical to PhoA
PA3229	20.5	0.003	Hypothetical
PA0691	19.0	0.023	Hypothetical, transposase
PA4351	18.9	0.006	Probable acyltransferase
PA0693	18.4	0.033	ExbB2, transport protein
PA4350	17.1	0.024	Conserved hypothetical, potential hemolysin
PA3319	16.4	0.023	PlcN, nonhemolytic phospholipase C precursor
PA2494	15.0	0.002	MexF, RNDc multidrug efflux transporter
PA3296	14.3	0.008	PhoA, alkaline phosphatase
PA3383	13.5	0.014	Binding protein component of ABC phosphonate transporter
PA2491	13.3	0.007	Probable oxidoreductase
PA2493	12.9	0.003	MexE, RND multidrug efflux membrane fusion protein
PA0697	11.8	<0.001	Hypothetical, colicin, adhesion, M protein
PA1195	11.3	0.004	Hypothetical
PA5180	10.7	0.023	Conserved hypothetical
PA2495	10.7	0.004	OprN, outer membrane protein
PA3219	10.6	0.005	Hypothetical
PA4811	9.8	0.001	FdnH, nitrate-inducible formate dehydrogenase
PA4881	9.6	0.004	Hypothetical
PA3382	9.6	0.034	PhnE, phosphonate transport protein
PA0696	9.0	0.030	Hypothetical, outer membrane receptor, Fe
PA2882	8.9	0.018	Probable two-component sensor
PA3368	8.6	0.015	Probable acetyltransferase
PA0674	8.2	0.029	53% similar to ferripyoverdine receptor, PigC
PA4623	7.8	0.015	Hypothetical
PA2881	7.7	0.020	Probable two-component response regulator
PA2331	7.4	0.018	49% similar to macrophage infectivity potentiator
PA4221	−85.6	0.003	FptA, Fe(III)-pyochelin receptor precursor
PA4225	−44.6	0.021	PchF, pyochelin synthetase
PA4231	−39.7	0.006	PchA, salicylate biosynthesis isochorismate synthase
PA4220	−32.0	0.002	Hypothetical
PA4218	−31.3	0.009	Probable transporter
PA4226	−29.2	0.004	PchE, dihydroaeruginoic acid synthetase
PA4230	−29.0	0.003	PchB, salicylate biosynthesis protein
PA4228	−29.0	0.017	PchD, pyochelin biosynthesis protein
PA4156	−28.4	0.002	Probable TonB-dependent receptor
PA4229	−18.6	0.017	PchC, pyochelin biosynthetic protein
PA4224	−18.0	0.003	Hypothetical
PA4219	−16.8	0.005	Hypothetical
PA0929	−14.7	0.017	Two-component response regulator
PA4470	−12.9	0.028	FumC1, fumarate hydratase
PA2034	−12.5	0.026	Hypothetical
PA3600	−12.4	0.001	Conserved hypothetical
PA3899	−11.1	0.022	Probable sigma-70 factor, ECFd subfamily
PA4222	−11.0	0.005	Probable ATP-binding component of ABC transporter
PA4155	−10.3	0.003	Hypothetical
PA3900	−10.3	0.003	Probable transmembrane sensor
PA0471	−10.0	0.001	Probable transmembrane sensor
PA4468	−9.7	0.023	SodM, superoxide dismutase
PA2426	−9.1	0.029	PvdS, sigma factor
PA4227	−9.0	0.011	PchR, transcriptional regulator, pyochelin biosynthesis
PA4896	−8.9	0.026	Probable sigma-70 factor, ECF subfamily
PA3432	−8.5	0.013	Hypothetical
PA4469	−8.3	0.024	Hypothetical
PA0672	−8.1	<0.001	Hypothetical
PA4471	−7.8	0.023	Hypothetical
PA4223	−7.7	<0.001	Probable ATP-binding component of ABC transporter

^aThe magnitude of gene expression (fold change) was determined by comparing transcription in three replicates of PAO1 (control) with that in three replicates of PAO1 interacting with PNHAE cells after 12 h. Total RNA from the PNHAE cells alone (three replicates) was isolated, reverse transcribed into cDNA, and hybridized to the Pseudomonas GeneChip. The genes present from this experiment were subtracted from the analysis.

^bP values were assessed by Student's t test with Data Mining Tools (Affymetrix).

^cRND, resistance-nodulation-division.

^dECF, extracytoplasmic sigma factor.