Table 1.
P. aeruginosa genes required for the mucoid phenotype on PIAAMV
| Class and subclass | Locus taga | Gene | Productc | PIAAMV/PIA fold changeb |
|---|---|---|---|---|
| Alginate | PA0762 | algU | Sigma factor AlgU | |
| PA1801 | clpP | ATP-dependent Clp protease proteolytic subunit | ||
| PA1802 | clpX | ATP-dependent Clp protease ATP-binding subunit ClpX | ||
| PA3257 | prc | Periplasmic tail-specific protease | ||
| PA3540 | algD | GDP-mannose 6-dehydrogenase AlgD | 2.14 | |
| PA3542 | alg44 | Alginate biosynthesis protein Alg44 | 2.56 | |
| PA3545 | algG | Alginate-C5-mannuronan epimerase | 2.17 | |
| PA3546* | algX | Alginate biosynthesis protein AlgX | 2.5 | |
| PA3547 | algL | Poly(beta-d-mannuronate) lyase precursor AlgL | 2.5 | |
| PA3548* | algI | Alginate O-acetyltransferase AlgI | 1.84 | |
| PA3550 | algF | Alginate O-acetyltransferase | 2.58 | |
| PA3551* | algA | Mannose-1-phosphate guanylyltransferase/mannose-6-phosphate isomerase | 2.69 | |
| PA3649* | mucP | Putative membrane-associated zinc metalloprotease | ||
| PA4446 | algW | AlgW protein | 1.17 | |
| PA5255 | algQ | Alginate regulatory protein AlgQ | 1.13 | |
| PA5261 | algR | Alginate biosynthesis regulatory protein AlgR | 1.28 | |
| PA5483 | algB | Two-component response regulator AlgB | ||
| Alleviating | ||||
| Cell envelope (lipid A, LPS, and membrane stability) | PA0011 | htrB | Putative 2-OH-lauroyltransferase | |
| PA0337* | ptsP | Phosphoenolpyruvate-protein phosphotransferase | 1.48 | |
| PA0595 | ostA | Organic solvent tolerance protein OstA precursor | 1.24 | |
| PA1180 | phoQ | Two-component sensor PhoQ | ||
| PA2023 | galU | UTP-glucose-1-phosphate uridylyltransferase | ||
| PA2240 | pslJ | Conserved hypothetical protein | 1.54 | |
| PA2525 | ompB | Putative outer membrane protein | ||
| PA2526 | muxC | Putative efflux transporter | 1.42 | |
| PA2527 | muxB | Putative RND efflux transporter | 1.15 | |
| PA2965 | fabF1 | Beta-ketoacyl-acyl carrier protein synthase II | ||
| PA3194 | edd | 6-Phosphogluconate dehydratase | ||
| PA3242 | htrB | Putative lipid A biosynthesis lauroyl/myristoyl acyltransferase | ||
| PA3828 | lptF | Putative LPS permease | 1.45 | |
| PA4293 | pprA | Putative two-component sensor | ||
| PA4370 | icmP | Insulin-cleaving metalloproteinase outer membrane | ||
| PA4404 | Putative peptidase | |||
| PA4406 | lpxC | UDP-3-O-acyl-N-acetylglucosamine deacetylase | ||
| PA4612 | Ankyrin-like protein | |||
| PA5001 | Conserved hypothetical protein; glycosyltransferase | 1.52 | ||
| PA5004 | wabH | Putative glycosyltransferase | ||
| Peptidoglycan | PA0666 | anmK | Putative chaperone | |
| PA0667 | Putative metallopeptidase | |||
| PA1726 | bglX | Periplasmic beta-glucosidase | ||
| PA2621 | clpS | Putative cytoplasmic protease | ||
| PA4001 | sltB1 | Soluble lytic transglycosylase B | 1.31 | |
| PA5124 | ntrB | Two-component sensor NtrB | −1.27 | |
| Phosphate | PA5199* | envZ | Two-component sensor EnvZ | 1.37 |
| PA5235* | glpT | Glycerol-3-phosphate transporter | ||
| PA5361 | phoR | Two-component sensor PhoR | ||
| PA5365 | phoU | Phosphate uptake regulatory protein PhoU | ||
| PA5366 | pstB | Phosphate ABC transporter, ATP-binding protein | ||
| PA5368 | pstC | Phosphate ABC transporter, permease protein | ||
| PA5369 | pstS | Periplasmic phosphate-binding protein | ||
| Chaperones and protein folding | PA0090 | Putative ClpA/B-type chaperone | 3.68 | |
| PA0594 | surA | Peptidyl-prolyl cis-trans isomerase SurA | 1.47 | |
| PA3737 | dsbC | Thiol:disulfide interchange protein DsbC | ||
| PA3821 | secD | Protein export membrane protein SecD | ||
| PA5128 | secB | Secretion protein SecB | 1.19 | |
| PA5568 | yidC | Putative inner membrane protein, 60 kDa | ||
| Phenazine biosynthesis | PA0051 | phzH | Potential phenazine-modifying enzyme | −1.93 |
| PA0652 | vfr | Cyclic AMP receptor-like protein | ||
| PA1003 | mvfR | Transcriptional regulator MvfR | ||
| PA1431 | rsaL | Regulatory protein RsaL | 1.5 | |
| PA1899 | phzA2 | Probable phenazine biosynthesis protein | ||
| PA1905 | phzG2 | Probable pyrodoxamine 5′-phosphate oxidase | ||
| PA2586* | gacA | Response regulator GacA | ||
| PA2770* | Putative phenazine biosynthesis protein, PhzF family | |||
| PA2798 | rssB | Putative two-component response regulator | ||
| PA4209 | phzM | Probable phenazine-specific methyltransferase | ||
| PA4210* | phzA1 | Probable phenazine biosynthesis protein | ||
| PA4211* | phzB1 | Probable phenazine biosynthesis protein | ||
| PA4214 | phzE1 | Phenazine biosynthesis protein PhzE | ||
| Metabolism | ||||
| Metabolism | PA0394 | Putative PLP-dependent enzyme | ||
| PA0558 | Conserved hypothetical protein | −1.68 | ||
| PA0593 | pdxA | Pyridoxal phosphate biosynthetic protein PdxA | 1.43 | |
| PA0597 | Putative nucleotidyltransferase | |||
| PA0793 | Conserved hypothetical protein | |||
| PA0794 | Probable aconitate hydratase | |||
| PA0796 | prpB | Carboxyphosphonoenolpyruvate phosphonomutase | ||
| PA1838 | cysI | Sulfite reductase | −1.25 | |
| PA2068 | Putative MFS transporter | |||
| PA2531 | Putative aminotransferase | −1.82 | ||
| PA2796 | tal | Transaldolase | ||
| PA2804 | Putative phosphohydrolase | |||
| PA3113 | trpF | Phosphoribosyl anthranilate isomerase | 1.57 | |
| PA3772 | Conserved hypothetical protein | |||
| PA4007 | proA | Probable gamma-glutamyl phosphate reductase | ||
| PA4402 | argJ | N-Acetylglutamate synthase | ||
| PA4465 | Putative ATP kinase | |||
| PA4640 | mqo | Malate:quinone oxidoreductase | ||
| PA4758 | carA | Carbamoyl-phosphate synthase small chain | −1.45 | |
| PA5236 | Putative aromatic hydrocarbon reductase | 1.28 | ||
| PA5331 | pyrE | Orotate phosphoribosyltransferase | ||
| Zinc | PA4723 | dksA | Suppressor protein DksA | 1.13 |
| PA5498 | znuA | Periplasmic zinc-binding protein | ||
| Iron | PA0969 | tolQ | TolQ protein | |
| PA2403 | Putative iron-regulated membrane protein | −1.31 | ||
| PA2406 | Conserved hypothetical protein | −1.36 | ||
| PA2407 | Putative adhesion protein | |||
| PA2410 | Putative ABC transporter, periplasmic substrate-binding protein | |||
| Others | ||||
| Motility | PA0411* | pilJ | Type IV pilus methyl-accepting chemotaxis transducer PilJ | |
| PA1086 | flgK | Flagellar hook-associated protein 1, FlgK | ||
| PA1450 | Conserved hypothetical protein | |||
| PA1454 | fleN | Flagellar synthesis regulator FleN | ||
| PA1822 | fimL | Pilin biosynthetic protein | ||
| PA3351* | flgM | Putative negative regulator of flagellin synthesis, FlgM | −1.24 | |
| PA4526 | pilB | Type 4 fimbrial biogenesis protein PilB | ||
| PA4552 | pilW | Type 4 fimbrial biogenesis protein PilW | −2.98 | |
| PA4556 | pilE | Type 4 fimbrial biogenesis protein PilE | −1.58 | |
| Others | PA0124 | Putative plasmid system protein | ||
| PA2423 | Hypothetical | 1.43 | ||
| PA2615 | ftsK | Cell division/stress response protein | 1.18 | |
| PA2780 | Putative transcriptional regulator | |||
| PA3011 | topA | DNA topoisomerase I | ||
| PA4951 | orn | Oligoribonuclease | −1.22 | |
| PA5239* | rho | Transcription termination factor Rho | 1.48 | |
| PA5515 | Conserved hypothetical protein | |||
| PA14_07490 | Hypothetical protein | ND | ||
| PA14_53580 | Hypothetical protein | ND | ||
| PA14_56340 | Intergenic between mntH1 and PA14_56360 | ND |
a
An asterisk indicates that more than one mutant with a transposon in the same gene was identified.
b
Shown is the fold change observed for the gene in the PIAAMV/PIA transcriptome analysis. ND, not determined.
c
RND, resistance nodulation cell division; PLP, pyridoxal 5-phosphate; MFS, major facilitator superfamily.