TABLE 4.
Genes involved in virulence and genes differentially expressed in biofilms identified as being QS regulated by using microarraysa
| ORF or operon | Gene name | Protein description or function | Change (fold)b |
|---|---|---|---|
| Motility and attachment | |||
| PA0411 | pilJ | Twitching motility protein PilJ | −1.5 (ES) |
| PA0413 | Still frameshift probable component of chemotactic signal transduction system | −1.7 (B) | |
| PA2570c | palL | PA-I galactophilic lectin | 60 (ES) |
| PA4527 | pilC | Still framshift type 4 fimbrial biogenesis protein PilC | −1.9 (ES) |
| PA4651 | Probable pilus assembly protein | 8.8 (ES) | |
| PA5040-PA5043 | pilNOQ | Type 4 fimbrial biogenesis proteins | −1.4 (ES) |
| Cell wall synthesis, LPS and capsule | |||
| PA3337 | rfaD | ADP-l-glycero-d-mannoheptose 6-epimerase | −1.7 (ES) |
| PA4996 | rfaE | LPS biosynthesis protein RfaE | −1.8 (ML) |
| PA5161 | rmlB | dTDP-d-glucose 4,6-dehydratase | 1.5 (ES) |
| PA5163 | rmlA | Glucose-1-phosphate thymidylyltransferase | 1.6 (ES) |
| PA5450 | wzt | ABC subunit of A-band LPS efflux transporter | −1.6 (ES) |
| PA5451 | wzm | Membrane subunit of A-band LPS efflux transporter | 2.2 (ML) |
| Chemotaxis | |||
| PA0174-PA0179 | Probable chemotaxis cluster | 1.9 (ES) | |
| PA1458 | Probable two-component sensor | −1.3 (ES) | |
| PA1608 | Probable chemotaxis transducer | −2.2 (ES) | |
| PA2573 | Probable chemotaxis transducer | 2.7 (ES) | |
| PA2867 | Probable chemotaxis transducer | −1.6 (ES) | |
| PA4307 | pctC | Probable chemotaxis transducer | −2.4 (ML) |
| PA4309 | pctA | Probable chemotaxis transducer | −1.6 (ES) |
| PA4520 | Probable chemotaxis transducer | 2.1 (ML), −1.5 (ES) | |
| Protein secretion export apparatus, and secreted factors | |||
| PA1901-PA1906 | Probable phenazine biosynthesis cluster | 16 (ES) | |
| PA4209, PA4211, PA4217 | Probable phenazine biosynthesis cluster | 14 (B), 74 (B), 19 (ES) | |
| PA1250 | aprI | Alkaline proteinase inhibitor AprI | 12 (B) |
| PA1249c | aprA | Alkaline metalloproteinase precursor | 6.9 (B) |
| PA1246-PA1248 | aprDEF | Alkaline protease secretion proteins AprDEF | 6.3 (ML) |
| PA1245 | aprX | Membrane protein | 4.1 (B) |
| PA1871c | lasA | LasA protease precursor | 29 (ES) |
| PA2193-PA2195c | hcnABC | HCN biosynthesis genes | 210 (B) |
| PA2300c | chiC | Chitinase | 5.1 (ES) |
| PA3724c | lasB | Elastase LasB | 39 (B) |
| PA3478-PA3479c | rhlAB | Rhamnosyltransferase chain A, chain B | 100 (ES) |
| PA4142-PA4144 | Probable toxin secretion cluster | 9.6 (B) | |
| PA4302 | Probable type II secretion system protein | 9.6 (ES) | |
| PA4304 | Probable type II secretion system protein | 6.7 (ES) | |
| PA1877 | Probable secretion protein | 4.3 (ES) | |
| PA3096-PA3103c | xcpRSTUVWXY | General secretion pathway | 3.5 (ML) |
| PA3104-PA3105c | xcpPQ | General secretion pathway | 2.0 (ES) |
| PA1694 | pscQ | Translocation protein in type III secretion | −1.7 (ML) |
| PA1722 | pscI | Type III secretion protein PscI | −1.8 (ML) |
| PA1712 | exsB | Exoenzyme S synthesis protein B | −2.4 (ES) |
| PA4559 | lspA | Prolipoprotein signal peptidase | −1.4 (ES) |
| PA5070 | tatC | Transport protein TatC | −1.5 (ES) |
| RND efflux transporters or drug efflux transporter | |||
| PA0158 | Probable RND efflux transporter | 2.5 (ML) | |
| PA0425-PA0426 | mexAB | RND multidrug efflux system | 1.9 (B) |
| PA4205-PA4208 | mexGHI-opmD | Probable RND efflux transporter system | 8.0 (ES) |
| PA5160 | Drug efflux transporter | 2.2 (ES) | |
| Transcriptional regulators and sigma factors | |||
| PA0764 | mucB | Negative regulator for alginate biosynthesis MucB | −1.6 (ES) |
| PA0762 | algU | Sigma factor AlgU | −1.5 (ES) |
| PA1003 | mvfR | Regulator of multiple virulence factors | 3.0 (B) |
| PA1707 | pcrH | Regulatory protein PcrH | −2.2 (B) |
| PA1898c | qscR | Quorum-sensing control repressor | 3.0 (ML) |
| PA2259 | ptxS | Transcriptional regulator PtxS | −3.6 (ML) |
| PA3477c | rhlR | Regulatory protein RhlR | 5.9 (ES) |
| Genes expressed in biofilms | |||
| PA0105-PA0108 | Cytochrome c oxidases | 5.7 (ES) | |
| PA0713 | Hypothetical protein | −2.4 (ES) | |
| PA0714 | Hypothetical protein | −3.4 (ES) | |
| PA0722 | Hypothetical protein of bacteriophage Pf1 | −1.2 (ES) | |
| PA0971 | tolA | TolA protein | −1.4 (ES) |
| PA3038 | Probable porin | −2.3 (ES) | |
| PA3234 | Probable sodium:solute symporter | −2.8 (ES) | |
| PA3235 | Conserved hypothetical protein | −2.8 (ES) | |
| PA3418 | ldh | Leucine dehydrogenase | 2.0 (ES) |
| PA3622c | rpoS | Stationary-phase sigma protein RpoS | 2.7 (B) |
| PA4296 | Probable two-component response regulator | 3.4 (ES) | |
| PA4765 | omlA | Outer membrane lipoprotein OmlA precursor | −1.6 (ES) |
a
Genes are identified by ORF designation, gene name, and protein description (http://www.pseudomonas.com). LPS, lipopolysaccharide; RND, resistance-nodulation-cell division.
b
The magnitude and direction of gene expression change, as well as the growth phase (ML,mid-logarithmic phase; ES, early stationary phase; B, both mid-logarithmic and early stationary phases), are indicated for PAO-JP2 grown with exogenous autoinducers (1 μM 3O-C12-HSL and 2 μM C4-HSL) compared to PAO-JP2 cultures grown aerobically in modified FAB.