TABLE 4.

Genes involved in virulence and genes differentially expressed in biofilms identified as being QS regulated by using microarraysa

ORF or operonGene nameProtein description or functionChange (fold)b
Motility and attachment
    PA0411pilJTwitching motility protein PilJ−1.5 (ES)
    PA0413Still frameshift probable component of chemotactic signal transduction system−1.7 (B)
    PA2570cpalLPA-I galactophilic lectin60 (ES)
    PA4527pilCStill framshift type 4 fimbrial biogenesis protein PilC−1.9 (ES)
    PA4651Probable pilus assembly protein8.8 (ES)
    PA5040-PA5043pilNOQType 4 fimbrial biogenesis proteins−1.4 (ES)
Cell wall synthesis, LPS and capsule
    PA3337rfaDADP-l-glycero-d-mannoheptose 6-epimerase−1.7 (ES)
    PA4996rfaELPS biosynthesis protein RfaE−1.8 (ML)
    PA5161rmlBdTDP-d-glucose 4,6-dehydratase1.5 (ES)
    PA5163rmlAGlucose-1-phosphate thymidylyltransferase1.6 (ES)
    PA5450wztABC subunit of A-band LPS efflux transporter−1.6 (ES)
    PA5451wzmMembrane subunit of A-band LPS efflux transporter2.2 (ML)
Chemotaxis
    PA0174-PA0179Probable chemotaxis cluster1.9 (ES)
    PA1458Probable two-component sensor−1.3 (ES)
    PA1608Probable chemotaxis transducer−2.2 (ES)
    PA2573Probable chemotaxis transducer2.7 (ES)
    PA2867Probable chemotaxis transducer−1.6 (ES)
    PA4307pctCProbable chemotaxis transducer−2.4 (ML)
    PA4309pctAProbable chemotaxis transducer−1.6 (ES)
    PA4520Probable chemotaxis transducer2.1 (ML), −1.5 (ES)
Protein secretion export apparatus, and secreted factors
    PA1901-PA1906Probable phenazine biosynthesis cluster16 (ES)
    PA4209, PA4211, PA4217Probable phenazine biosynthesis cluster14 (B), 74 (B), 19 (ES)
    PA1250aprIAlkaline proteinase inhibitor AprI12 (B)
    PA1249caprAAlkaline metalloproteinase precursor6.9 (B)
    PA1246-PA1248aprDEFAlkaline protease secretion proteins AprDEF6.3 (ML)
    PA1245aprXMembrane protein4.1 (B)
    PA1871clasALasA protease precursor29 (ES)
    PA2193-PA2195chcnABCHCN biosynthesis genes210 (B)
    PA2300cchiCChitinase5.1 (ES)
    PA3724clasBElastase LasB39 (B)
    PA3478-PA3479crhlABRhamnosyltransferase chain A, chain B100 (ES)
    PA4142-PA4144Probable toxin secretion cluster9.6 (B)
    PA4302Probable type II secretion system protein9.6 (ES)
    PA4304Probable type II secretion system protein6.7 (ES)
    PA1877Probable secretion protein4.3 (ES)
    PA3096-PA3103cxcpRSTUVWXYGeneral secretion pathway3.5 (ML)
    PA3104-PA3105cxcpPQGeneral secretion pathway2.0 (ES)
    PA1694pscQTranslocation protein in type III secretion−1.7 (ML)
    PA1722pscIType III secretion protein PscI−1.8 (ML)
    PA1712exsBExoenzyme S synthesis protein B−2.4 (ES)
    PA4559lspAProlipoprotein signal peptidase−1.4 (ES)
    PA5070tatCTransport protein TatC−1.5 (ES)
RND efflux transporters or drug efflux transporter
    PA0158Probable RND efflux transporter2.5 (ML)
    PA0425-PA0426mexABRND multidrug efflux system1.9 (B)
    PA4205-PA4208mexGHI-opmDProbable RND efflux transporter system8.0 (ES)
    PA5160Drug efflux transporter2.2 (ES)
Transcriptional regulators and sigma factors
    PA0764mucBNegative regulator for alginate biosynthesis MucB−1.6 (ES)
    PA0762algUSigma factor AlgU−1.5 (ES)
    PA1003mvfRRegulator of multiple virulence factors3.0 (B)
    PA1707pcrHRegulatory protein PcrH−2.2 (B)
    PA1898cqscRQuorum-sensing control repressor3.0 (ML)
    PA2259ptxSTranscriptional regulator PtxS−3.6 (ML)
    PA3477crhlRRegulatory protein RhlR5.9 (ES)
Genes expressed in biofilms
    PA0105-PA0108Cytochrome c oxidases5.7 (ES)
    PA0713Hypothetical protein−2.4 (ES)
    PA0714Hypothetical protein−3.4 (ES)
    PA0722Hypothetical protein of bacteriophage Pf1−1.2 (ES)
    PA0971tolATolA protein−1.4 (ES)
    PA3038Probable porin−2.3 (ES)
    PA3234Probable sodium:solute symporter−2.8 (ES)
    PA3235Conserved hypothetical protein−2.8 (ES)
    PA3418ldhLeucine dehydrogenase2.0 (ES)
    PA3622crpoSStationary-phase sigma protein RpoS2.7 (B)
    PA4296Probable two-component response regulator3.4 (ES)
    PA4765omlAOuter 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.

  • c Gene previously identified as being QS regulated (4, 8, 18, 27-29, 38, 39, 44).