Table 5.
List of the group V genes with downregulated expression at 24 h.
| Genes | 24 h (fold change) | p value | Description | Functional class |
|---|---|---|---|---|
| pchR | −3.116 | 2.23E − 15 | Transcriptional regulator PchR | TRs |
| PA0471 | −2.863 | 1.61E − 05 | Fe2+-dicitrate sensor, membrane component | TCRSs; MPs; TRs |
| fiuI | −2.171 | 1.62E − 03 | Fe2+-dicitrate sensor, membrane component | TRs |
| PA1300 | −2.201 | 5.72E − 09 | Sigma-70 factor, ECF subfamily | TRs |
| PA1301 | 2.386 | 0.014 | Probable transmembrane sensor | MPs; TRs |
| PA3899 | −3.481 | 0 | Probable sigma-70 factor, ECF subfamily | TRs |
| PA3900 | −2.505 | 0.019 | Fe2+-dicitrate sensor, membrane component | MPs; TRs |
| PA4895 | −5.965 | 1.26E − 09 | Fe2+-dicitrate sensor, membrane component | MPs; TRs |
| PA4896 | −3.644 | 8.33E − 11 | Sigma-70 factor, ECF subfamily | TRs |
| PA0149 | −3.859 | 1.15E − 08 | Probable sigma-70 factor, ECF subfamily | TRs |
| femI | −3.628 | 0 | ECF sigma factor, FemI | TRs |
| PA2896 | −2.495 | 0 | Probable sigma-70 factor, ECF subfamily | TRs |
| tonB1 | −2.067 | 0 | Periplasmic protein TonB, links inner and outer membranes | TSMs |
| PA4156 | −11.36 | 0 | Probable TonB-dependent receptor | TSMs |
| fumC1 | −4.599 | 0 | Fumarate hydratase | EM |
| sodM | −3.955 | 0 | Superoxide dismutase | AP |
| hemO | −3.581 | 0 | Heme oxygenase | BCPGCs |
| PA0853 | −3.242 | 2.66E − 13 | Oxidoreductase | PEs |
| PA3768 | −2.622 | 0 | Probable metallo-oxidoreductase | PEs |
| phzA1 | −4.295 | 1.53E − 07 | Probable phenazine biosynthesis protein | SFs |
| phzB1 | −4.708 | −4.708 | Probable phenazine biosynthesis protein | SFs |
| phzC1 | −2.577 | −2.577 | Phenazine biosynthesis protein PhzC | SFs |
| phzA2 | −2.625 | −2.625 | Probable phenazine biosynthesis protein | SFs |
| phzB2 | −3.848 | −3.848 | Probable phenazine biosynthesis protein | SFs |
| phzM | −2.125 | 1.14E − 10 | Probable phenazine-specific methyltransferase | PEs |
| phzS | −2.241 | 0 | Flavin-containing monooxygenase | PEs |
| secA | −2.166 | 0 | Secretion protein SecA | PSEA |
| secB | −2.579 | 0 | Secretion protein SecB | PSEA |
| secD | −3.234 | 0 | Secretion protein SecD | PSEA; MPs |
| mexG | −2.119 | 7.29E − 03 | Membrane protein | MPs |
| mexH | −9.088 | 0 | Probable resistance-nodulation-cell division (RND) efflux membrane fusion protein precursor | TSMs |
| mexI | −5.758 | 0 | Probable resistance-nodulation-cell division (RND) efflux transporter | TSMs; MPs |
| opmD | −3.241 | 0 | Outer membrane protein precursor | TSMs; MPs |
| lpxB | −2.148 | 7.24E − 03 | Lipid A-disaccharide synthase | CWLC |
| lpxA | −2.274 | 0 | UDP-N-acetylglucosamine acyltransferase | CWLC |
| waaP | −3.174 | 2.75E − 14 | Lipopolysaccharide kinase WaaP | CWLC |
| waaG | −2.437 | 0 | UDP-glucose:(heptosyl) LPS alpha 1,3-glucosyltransferase WaaG | CWLC |
| waaF | −2.283 | 1.48E − 08 | Heptosyltransferase II | CWLC |
| PA4998 | −2.482 | 6.80E − 12 | Aminoglycoside 3′-phosphotransferase (APH) and choline kinase family | CWLC |
| PA5007 | −3.124 | 4.80E − 08 | Mn2+−dependent serine/threonine protein kinase | PEs |
| PA5008 | −3.187 | 7.22E − 15 | RIO-like serine/threonine protein kinase fused to N-terminal HTH domain | PEs |
| rmlA | −2.554 | 0 | Glucose-1-phosphate thymidylyltransferase | CWLC |
| pilD | −2.377 | 0 | Type 4 prepilin peptidase PilD | SFs; PSEA; MA |
| pilF | −2.053 | 0 | Type 4 fimbrial biogenesis protein PilF | PSEA; MA |
| pilM | −3.074 | 0 | Type 4 fimbrial biogenesis protein PilM | MA |
| pilN | −3.871 | 0 | Type 4 fimbrial biogenesis protein PilN | MA |
| pilO | −4.476 | 0 | Type 4 fimbrial biogenesis protein PilO | MA |
| pilP | −3.956 | 0 | Type 4 fimbrial biogenesis protein PilP | MA |
| pilQ | −3.219 | 0 | Type 4 fimbrial biogenesis outer membrane protein PilQ precursor | MA |
| pilU | −2.226 | 0 | Twitching motility protein PilU | MA |
| pilV | −2.382 | 0 | Type 4 fimbrial biogenesis protein PilV | MA |
| pilW | −2.516 | 0 | Type 4 fimbrial biogenesis protein PilW | MA |
| pilX | −2.366 | 0 | Type 4 fimbrial biogenesis protein PilX | MA |
| pilY1 | −2.025 | 0 | Type 4 fimbrial biogenesis protein PilY1 | MA |
| pilG | −2.713 | 0 | Twitching motility protein PilG | TCRSs; MA; CT |
| pilH | −3.112 | 0 | Twitching motility protein PilH | TCRSs; MA; CT |
| pilI | −2.731 | 2.20E − 09 | Twitching motility protein PilI | MA; CT |
| pilJ | −5.282 | 0 | Twitching motility protein PilJ | MA; CT |
| Vfr | −2.047 | 0 | Transcriptional regulator vfr | TRs |
| chpA | −2.124 | 0 | Component of chemotactic signal transduction system | TCRSs; MA; CT |
| chpB | −2.315 | 1.15E − 05 | Probable methylesterase | CT |
| fliC | −2.145 | 0 | Flagellin type B | MA |
| rpsK | −2.592 | 0 | 30S ribosomal protein S11 | TPTMD |
| rplA | −2.375 | 0 | 50S ribosomal protein L1 | TPTMD |
| glnS | −2.102 | 0 | Glutaminyl-tRNA synthetase | TPTMD; AABM |
| glyS | −2.162 | 2.11E − 13 | Glycyl-tRNA synthetase beta chain | TPTMD; AABM |
| leuS | −2.131 | 0 | Leucyl-tRNA synthetase | TPTMD; AABM |
| lysS | −2.38 | 0 | Lysyl-tRNA synthetase | TPTMD; AABM |
| proS | −2.764 | 0 | Prolyl-tRNA synthetase | TPTMD; AABM |
| valS | −2.13 | 0 | Valyl-tRNA synthetase | TPTMD; AABM |
| aspS | −2.129 | 0 | Aspartyl-tRNA synthetase | T-RNA-PD; TPTMD |
| hisF1 | −3.599 | 1.02E − 11 | Imidazole glycerol-phosphate synthase, cyclase subunit | AABM |
| hisG | −2.863 | 2.04E − 10 | ATP-phosphoribosyltransferase | AABM |
| argB | −2.436 | 0 | Acetylglutamate kinase | AABM |
| argG | −2.428 | 0 | Argininosuccinate synthase | AABM |
| argH | −2.127 | 0 | Argininosuccinate lyase | AABM |
| cysM | −3.436 | 0 | Cysteine synthase B | AABM |
| trpA | −4.405 | 0 | Tryptophan synthase alpha chain | AABM |
| trpB | −6.527 | 0 | Tryptophan synthase beta chain | AABM |
| hslU | −4.255 | 0 | Heat shock protein HslU | CHSPs |
| hslV | −3.742 | 0 | Heat shock protein HslV | CHSPs |
| htpG | −2.835 | 0 | Heat shock protein HtpG | CHSPs |
| htpX | −2.557 | 0 | Heat shock protein HtpX | AP |
| dnaA | −2.631 | 0 | Chromosomal replication initiation protein | DNA-RRMR |
| dnaJ | −2.528 | 0 | DnaJ protein | DNA-RRMR; CHSPs; AP |
| dnaK | −3.087 | 0 | DnaK protein | DNA-RRMR; CHSPs; AP |
| holC | −2.701 | 5.25E − 09 | DNA polymerase III, chi subunit | DNA-RRMR |
| mutL | −2.563 | 0 | DNA mismatch repair protein MutL | DNA-RRMR |
| Phr | −3.012 | 2.14E − 12 | Deoxyribodipyrimidine photolyase | DNA-RRMR |
| sbcD | −2.056 | 2.40E − 13 | Exonuclease SbcD | DNA-RRMR |
| recG | −2.105 | 7.52E − 16 | ATP-dependent DNA helicase RecG | DNA-RRMR; TRs |
| uvrC | −2.622 | 0 | Excinuclease ABC subunit C | DNA-RRMR |
| uvrD | −3.412 | 0 | DNA helicase II | DNA-RRMR |
| ccmE | −2.297 | 7.41E − 10 | Cytochrome C-type biogenesis protein CcmE | EM |
| ccmG | −2.001 | 3.24E − 06 | Cytochrome C biogenesis protein CcmG | TPTMD; CHSPs; EM |
| PA1600 | −2.819 | 2.31E − 06 | Probable cytochrome c | EM |
| PA4571 | −2.708 | 0 | Probable cytochrome c | EM |
| PA4133 | −5.344 | 0 | Cytochrome c oxidase subunit (cbb3-type) | EM |
| ccoO1 | −2.475 | 0 | Cytochrome c oxidase, cbb3-type, CcoO subunit | EM |
| ccoQ1 | −2.235 | 1.16E − 04 | Cytochrome c oxidase, cbb3-type, CcoQ subunit | EM |
| nuoD | −2.216 | 0 | NADH dehydrogenase I chain C,D | EM |
| nuoE | −2.162 | 9.15E − 13 | NADH dehydrogenase I chain E | EM |
| narK1 | −2.541 | 2.23E − 15 | Nitrite extrusion protein 1 | MPs; TSMs |
| narK2 | −5.637 | 0 | Nitrite extrusion protein 2 | MPs; TSMs |
| narG | −4.157 | 0 | Respiratory nitrate reductase alpha chain | EM |
| narJ | −2.386 | 0.014 | Respiratory nitrate reductase delta chain | EM |
| narL | −2.09 | 0 | Two-component response regulator NarL | EM; TCRSs |
| Dnr | −2.065 | 8.03E − 14 | Transcriptional regulator Dnr | TRs |