TABLE 5.

Genes differentially expressed in the oscR mutant versus the wild type grown to exponential phase in 0 M and 0.2 M NaCl-containing LBa

Open reading frame and functional categoryGeneFunctionRatio of gene expression in oscR mutant to that in wild type
0 M NaCl0.2 M NaCl
Amino acid biosynthesis
    VC2508argFOrnithine carbamoyltransferase2.99
    VC2746glnAGlutamate-ammonia ligase2.46
Biofilm matrix production
    VC0916vpsUVibrio polysaccharide gene U3.73
    VC0917vpsAVibrio polysaccharide gene A2.85
    VC0918vpsBVibrio polysaccharide gene B3.86
    VC0919vpsCVibrio polysaccharide gene C2.72
    VC0922vpsFVibrio polysaccharide gene F2.56
    VC0924vpsHVibrio polysaccharide gene H2.63
    VC0925vpsIVibrio polysaccharide gene I2.82
    VC0926vpsJVibrio polysaccharide gene J3.19
    VC0928rbmARugosity and biofilm structure modulator A6.30
    VC0930rbmCRugosity and biofilm structure modulator C2.96
    VC0932rbmERugosity and biofilm structure modulator E4.22
    VC0933rbmFRugosity and biofilm structure modulator F5.08
    VC0935vpsMVibrio polysaccharide gene M7.28
    VC0936vpsNVibrio polysaccharide gene N4.15
    VC1888bap1Biofilm-associated protein 15.58
Biosynthesis of cofactors, prosthetic groups, and carriers
    VC0194ggtGamma-glutamyltranspeptidase2.83
Cell envelope
    VC0700sltSoluble lytic murein transglycosylase0.23
    VC1962Lipoprotein0.13
    VC2633Fimbrial assembly protein PilN, putative3.12
    VCA0870pbpGd-Alanyl-d-alanine endopeptidase0.40
Cellular processes
    VC1967Methyl-accepting chemotaxis protein2.07
    VC2142flaBFlagellin FlaB0.26
    VC2143flaDFlagellin FlaD0.31
    VCA0219hlyAHemolysin2.12
    VCA0646Conserved hypothetical protein/hemolysin, putative2.84
    VCA0988Methyl-accepting chemotaxis protein5.14
Central intermediary metabolism
    VC0606glnB1Nitrogen regulatory protein P-II9.72
    VC1589aldCAlpha-acetolactate decarboxylase4.57
    VC1783nagA2N-Acetylglucosamine-6-phosphate deacetylase2.22
    VCA0605Aminotransferase class III2.75
DNA metabolism
    VC2721MutT/nudix family protein2.30
Energy metabolism
    VC0786dadAd-Amino acid dehydrogenase small subunit2.25
    VCA0241Hexulose-6-phosphate isomerase SgbU, putative2.09
Hypothetical proteins
    VC0651Conserved hypothetical protein5.68
    VC0669Hypothetical protein3.63
    VC0699Hypothetical protein0.08
    VC0873Conserved hypothetical protein2.20
    VC1020Hypothetical protein6.54
    VC1035Hypothetical protein3.24
    VC1221Hypothetical protein2.61
    VC1253Hypothetical protein2.34
    VC1352Hypothetical protein2.41
    VC1389Hypothetical protein2.54
    VC1620Hypothetical protein0.47
    VC1646Hypothetical protein3.27
    VC1657Hypothetical protein2.81
    VC1749Hypothetical protein2.01
    VC1771Hypothetical protein2.60
    VC1781Conserved hypothetical protein2.01
    VC1935Hypothetical protein2.57
    VC1946Hypothetical protein2.10
    VC2367Hypothetical protein0.43
    VCA0030Hypothetical protein0.13
    VCA0139Hypothetical protein3.01
    VCA0640Conserved hypothetical protein2.40
    VCA0645Hypothetical protein2.56
    VCA0698Hypothetical protein0.44
    VCA0732Conserved hypothetical protein8.17
    VCA0845Hypothetical protein2.50
    VCA0849Hypothetical protein3.052.07
Regulatory functions
    VC0706Sigma-54 modulation protein, putative2.05
    VC1222himAIntegration host factor alpha subunit2.57
    VC1638DNA-binding response regulator2.70
    VCA0697Sensory box/GGDEF family protein0.35
    VCA0917Transcriptional regulator in TetR family2.00
    VCA0952vpsTTranscriptional regulator in LuxR family3.76
Transport and binding proteins
    VC0173Peptide ABC transporter permease protein4.64
    VC2356Sodium/alanine symporter0.43
Unknown function
    VC1720torDTorD2.79
  • a Differentially expressed genes were determined using SAM software, with criteria of a ≥2-fold change in gene expression and an FDR of ≤3%.