TABLE 2.

Gene expression profiles in CF sputum and SCFMa

ORF functionORFGeneFunction or classFold change in gene expression
CF sputum versus glucosebSCFM versus glucosec
Amino acid transportPA0782putAProline dehydrogenase PutA4.318
    and degradationPA0865hpd4-hydroxyphenylpyruvate dioxygenase6645
PA0866aroP2Aromatic amino acid transport protein139
PA0870phhCAromatic amino acid aminotransferase96
PA0871phhBPterin-4-α-carbinolamine dehydratase54.3
PA0872phhAPhenylalanine-4-hydroxylased3223
PA0897aruGArginine/ornithine succinyltransferase AII subunit33.7
PA0898aruDSuccinylglutamate-5-semialdehyde dehydrogenase2.73.4
PA2001atoBAcetyl-coenzyme A acetyltransferase169
PA2007maiAMaleylacetoacetate isomerase88
PA2008fahAFumarylacetoacetase99
PA2009hmgAHomogentisate 1,2-dioxygenase1110
PA2247bkdA12-oxoisovalerate dehydrogenase, α-subunit207
PA2248bkdA22-oxoisovalerate dehydrogenase, β-subunit196
PA2249bkdBBranched-chain α-keto acid dehydrogenase135
PA2250lpdVLipoamide dehydrogenase-Val196
PA3766Probable aromatic amino acid transporter2.83.6
PA4470fumC1Fumarate hydratase63.2
PA5302dadXCatabolic alanine racemase910
PA5304dadAd-amino acid dehydrogenase, small subunit2015
Glucose transport andPA2322Gluconate permease−5.5−20
    metabolismPA2323Probable glyceraldehyde-3-phosphate dehydrogenase−3.8−35
PA31812-keto-3-deoxy-6-phosphogluconate aldolase−3−6
PA3186oprBCarbohydrate outer membrane porin−2.7−6
PA3195gapAGlyceraldehyde-3-phosphate dehydrogenase−3.2−6
Flagellar synthesis andPA1092fliCFlagellin type B−21NC
    chemotaxisPA2867Probable chemotaxis transducer−8NC
PA4307pctCChemotactic transducer PctC−8NC
PA4310pctBChemotactic transducer PctB−23NC
Pseudomonas quinolonePA0996pqsAProbable coenzyme A ligase186
    signalingPA0997pqsBβ-keto-acyl-acyl-carrier protein synthase178
PA0998pqsCβ-keto-acyl-acyl-carrier protein synthase197
PA0999pqsD3-oxoacyl-[acyl-carrier-protein] synthase III176
PA1000pqsEQuinolone signal response protein195
PA1001phnAAnthranilate synthase component I227
PA1002phnBAnthranilate synthase component II143.9
  • a Open reading frame (ORF), gene name, and function data were obtained from the P. aeruginosa genome website (www.pseudomonas.com).

  • b Regulation (n-fold change) of genes differentially expressed during P. aeruginosa growth in CF sputum medium compared to that in glucose; a positive number indicates an up-regulation of the gene during growth in sputum. Data are from Palmer et al. (39).

  • c Regulation (n-fold change) of genes differentially expressed during P. aeruginosa growth in SCFM as compared to growth in glucose; a positive number indicates an up-regulation of the gene during growth in SCFM. NC indicates no change in mRNA levels as determined by GeneChip operating software version 1.4.

  • d Phenylalanine-4-hydroxylase is involved in the synthesis of tyrosine and the degradation of phenylalanine.