Table 3.
P.aeruginosa genes affected in the ΔpppA-ppkA mutant compared to the PAO1 wild-type strain
| Gene (Name) | Fold changea | P-value | Protein (Function)c | Other regulators |
|---|---|---|---|---|
| oxidative stress | ||||
| primary metabolism | ||||
| PA0106 (coxA)b | 2.58 | 0.177 | cytochrome c oxidase, subunit I (Energy metabolism) | RpoS, QS |
| PA0107b | 3.68 | 0.091 | CHP (Energy metabolism) | RpoS, QS |
| PA0108 (coIII) | 2.22 | 0.038 | cytochrome c oxidase, transmembrabe helix, subunit III (Energy metabolism) | RpoS, QS |
| PA1317 (cyoA) | -3.08 | 0.013 | cytochrome o ubiquinol oxidase subunit II (Energy metabolism) | QS |
| PA1318 (cyoB) | -2.79 | 0.009 | cytochrome o ubiquinol oxidase subunit I (Energy metabolism) | QS |
| PA1319 (cyoC) | -2.39 | 0.043 | cytochrome o ubiquinol oxidase subunit III (Energy metabolism) | QS |
| PA1320 (cyoD) | -2.27 | 0.041 | cytochrome o ubiquinol oxidase subunit IV (Energy metabolism) | QS |
| PA1321 (cyoE) | -3.86 | 0.037 | cytochrome o ubiquinol oxidase protein CyoE (Energy metabolism) | QS |
| sulphur metabolism | ||||
| PA0283 (sbp)b | 4.89 | 0.061 | sulfate-binding protein precursor, ABC transporter (Transport of small molecules) | |
| PA0284 | 10.61 | 0.038 | HP | PQS |
| PA1493 (cysP) | 4.73 | 0.004 | sulfate-binding protein of ABC transporter (Transport of small molecules) | |
| PA1754 (cysB) | 1.73 | 0.022 | transcriptional regulator CysB (Amino acid biosynthesis and metabolism) | |
| PA1838 (cysI)b | 2.80 | 0.051 | sulfite reductase (Central intermediary metabolism) | |
| PA3441 | 2.76 | 0.027 | Pr. molybdopterin-binding protein (Transport of small molecules) | |
| PA3450 | 8.46 | 0.047 | Pr. antioxidant protein (Adaptation, protection) Probable Alkyl hydroperoxide reductase | |
| PA3935 (tauD) | 1.81 | 0.037 | taurine dioxygenase (Carbon compound catabolism) | RpoS |
| PA3936 (tauC)b | 2.92 | 0.080 | Pr. permease of ABC taurine transporter (Membrane proteins; Transport of small molecules) | RpoS |
| PA3938 (tauA) | 5.07 | 0.025 | Pr. periplasmic taurine-binding protein precursor (Transport of small molecules) | RpoS |
| PA4442 (cysN)b | 3.13 | 0.117 | ATP sulfurylase GTP-binding subunit/APS kinase (Amino acid biosynthesis and metabolism; Central intermediary metabolism) | QS |
| PA4443 (cysD)b | 4.86 | 0.051 | ATP sulfurylase small subunit (Amino acid biosynthesis and metabolism; Central intermediary metabolism) | QS |
| others | ||||
| PA0594 (surA) | 2.03 | 0.036 | peptidyl-prolyl cis-trans isomerase SurA (Adaptation, protection) | |
| PA1127b | -2.94 | 0.061 | Pr. oxidoreductase (Adaptation, protection; Putative enzymes) | |
| RpoS regulated genes | ||||
| PA1708 (popB)b | -2.08 | 0.070 | translocator protein PopB (Protein secretion/export apparatus) | QS, TTSS |
| PA1709 (popD) | -1.82 | 0.004 | translocator protein PopD (Protein secretion/export apparatus) | QS, TTSS |
| PA4551 (pilV) | -2.09 | 0.008 | type 4 fimbrial biogenesis protein PilV (Motility & Attachment) | |
| PA1048 | 2.80 | 0.037 | Pr. outer membrane protein (Membrane proteins; Transport of small molecules) | |
| PA1119 | 1.95 | 0.021 | Pr. outer membrane lipoprotein (Membrane proteins) | |
| PA1175 (napD) | 1.88 | 0.021 | NapD protein of periplasmic nitrate reductase (Energy metabolism) | QS |
| PA2204 | 1.87 | 0.014 | Pr. binding protein component of ABC transporter (Transport of small molecules) | PQS |
| PA2223 | 2.76 | 0.021 | HP | |
| PA2235 | 2.11 | 0.017 | HP | |
| PA2303 | 1.80 | 0.035 | HP | QS |
| PA2365 | 1.96 | 0.017 | CHP | QS |
| PA2366 | 2.05 | 0.001 | CHP | QS |
| PA2452 | 1.76 | 0.033 | HP | |
| PA2570 (pa1L) | 2.47 | 0.049 | PA-I galactophilic lectin (Adaptation, protection; Motility & Attachment) | QS |
| PA2781 | 2.06 | 0.027 | HP | |
| PA2939 | 4.49 | 0.018 | Pr. aminopeptidase (Putative enzymes) | QS |
| PA3622 (rpoS) | 3.86 | 0.030 | sigma factor RpoS (Transcriptional regulators) | PQS |
| PA3848 | 1.93 | 0.020 | HP | |
| PA4175 (prpL) | 4.65 | 0.008 | protease IV (Secreted Factors (toxins, enzymes, alginate)) | QS |
| PA4296 (pprB) | 3.69 | 0.029 | PprB two-component response regulator (Transcriptional regulators; Two-component regulatory systems; Antibiotic resistance and susceptibility) | QS |
| PA4299 (tadD)b | 2.41 | 0.086 | tadD Flp pilus assembly protein (Function Motility & Attachment) | PprB, QS |
| PA4306 (flp) | 6.69 | 0.002 | Flp Type IVb pilin (Motility & Attachment) | PprB, QS |
| QS regulated genes | ||||
| PA0572 | 3.27 | 0.049 | HP | |
| PA1874 | 2.02 | 0.048 | HP | |
| PA2067 | 2.38 | 0.039 | Pr. hydrolase (Putative enzymes) | |
| PA3724 (lasB) | 2.23 | 0.037 | elastase LasB (Translation, post-translational modification, degradation; Secreted Factors (toxins, enzymes, alginate)) | RpoS, PQS |
| PA3922 | 11.31 | 0.038 | CHP | |
| PA3923b | 8.11 | 0.143 | HP | |
| PA4497 | 2.61 | 0.031 | Pr. binding protein component of ABC transporter (Transport of small molecules) | |
| PA5481 | 2.01 | 0.038 | HP | |
| PQS/MvfR regulon | ||||
| PA0200 | 5.10 | 0.048 | HP | |
| PA0201 | 5.10 | 0.048 | HP | |
| PA0996 (pqsA) | 4.56 | 0.011 | Pr. coenzyme A ligase (Biosynthesis of cofactors, prosthetic groups and carriers) | |
| PA0997 (pqsB) | 2.05 | 0.007 | Homologous to beta-keto-acyl-acyl-carrier protein synthase (Biosynthesis of cofactors, prosthetic groups and carriers) | |
| PA0998 (pqsC) | 2.07 | 0.038 | Homologous to beta-keto-acyl-acyl-carrier protein synthase (Biosynthesis of cofactors, prosthetic groups and carriers) | |
| PA0999 (pqsD) | 2.24 | 0.009 | 3-oxoacyl-[acyl-carrier-protein] synthase III (Biosynthesis of cofactors, prosthetic groups and carriers) | |
| PA1000 (pqsE) | 2.50 | 0.016 | Quinolone signal response protein (Biosynthesis of cofactors, prosthetic groups and carriers) | |
| PA1001 (phnA)b | 2.54 | 0.065 | anthranilate synthase component I (Adaptation, protection) | |
| PA1002 (phnB)b | 2.19 | 0.071 | anthranilate synthase component II (Adaptation, protection; Amino acid biosynthesis and metabolism | |
| PA3520 | 2.31 | 0.020 | HP | oxidative stress |
| PA4377 | 3.01 | 0.022 | HP | |
| other genes | ||||
| PA4139 | 12.71 | 0.018 | HP | |
a Fold changes represent the ratio of the expression levels in the comparison of P. aeruginosa ΔpppA-ppkA and wild type PAO1. Minus (-) sign indicates a decreased expression in ΔpppA-ppkA mutant strain;b p-value > 0.05, only genes from the same transcriptional unit are listed;c HP - hypothetical protein, CHP- conserved hypothetical protein, Pr. - probable