TABLE 5.

Pseudogenes in the genome of B. cenocepacia J2315

Chromosome and gene productCDSsMutation type
Chromosome 1
    Gly/Ala/Ser-rich lipoproteinBCAL0138Nonsense (amber)
    Type I modification component of restriction-modification systemBCAL0414Disruption, IS element
    Putative transferaseBCAL0648Frameshift
    Putatve PTS system, EIIA 2 componentBCAL0810Nonsense (amber)
    UvrABC system protein C 2BCAL1014Disruption, IS element
    Putative transposaseBCAL1028Nonsense (amber) and frameshift
    IclR family regulatory proteinBCAL1082Nonsense (ochre)
    Conserved hypothetical proteinBCAL1124aDisruption, IS element
    Conserved hypothetical proteinBCAL1132Disruption, IS element
    Conserved hypothetical proteinBCAL1169Disruption, IS element
    Conserved hypothetical proteinBCAL1302Disruption, IS element
    Putative SNF2-related helicaseBCAL1308Disruptions, IS elements
    Putative oxidoreductaseBCAL1558Disruption, prophage
    TetR family regulatory proteinBCAL1672Frameshift
    TonB-dependent receptorBCAL1783Nonsense (amber)
    Putative DNA-binding proteinBCAL2066Frameshift
    Hypothetical proteinBCAL2219Disruption, IS element
    Conserved hypothetical proteinBCAL2279Disruption, IS element
    Putative ATP-dependent DNA helicaseBCAL2480Disruption, IS element
    Putative transposaseBCAL2496Disruption, IS element
    Putative methionine aminopeptidaseBCAL2533Disruption, IS element
    Conserved hypothetical proteinBCAL2574Nonsense (amber)
    Putative transposase-related proteinBCAL2581Frameshift
    Conserved hypothetical proteinBCAL2591Disruption, IS element
    ABC transporter ATP-binding proteinBCAL2601Frameshift and deletion
    UvrABC system protein C1BCAL2854Disruption, IS element
    GlycosyltransferaseBCAL3125Disruption, IS element
    Putative capsule polysaccharide biosynthesis/export proteinBCAL3223Disruption, IS element
    Putative transposaseBCAL3248Disruption, IS element
    Putative transposaseBCAL3249Disruption, IS element
    Tetracycline resistance protein, class CBCAL3259Frameshift
    Glutamate/aspartate ABC transporter ATP-binding protein GltLBCAL3354Frameshift
    General secretory pathway protein LBCAL3517Frameshift
Chromosome 2
    Putative pyridoxal-dependent decarboxylaseBCAM0245Disruption, IS element
    Conserved hypothetical proteinBCAM0274aFrameshift
    Putative conjugal transfer proteinBCAM0335Frameshift
    Putative acetyltransferase-GNAT familyBCAM0354aFrameshifts
    AraC family regulatory proteinBCAM0454Frameshift
    Conserved hypothetical proteinBCAM0520Disruption, IS element
    TonB-dependent receptorBCAM0706Frameshift
    Conserved hypothetical proteinBCAM0788Frameshift
    Undecaprenyl-phosphate glucosyl-1-phosphate transferaseBCAM0856Frameshift
    Major Facilitator Superfamily proteinBCAM1102Nonsense (amber)
    Putative multidrug resistance transporterBCAM1251Disruption, IS element
    Conserved hypothetical proteinBCAM1328Frameshifts
    Amino acid permeaseBCAM1498Frameshift
    Putative short-chain dehydrogenaseBCAM1794Nonsense (amber)
    Putative GTP cyclohydrolase IIBCAM1874Disruption, prophage
    Hypothetical phage proteinBCAM1914Disruption, IS element
    Phage integraseBCAM1923Disruption, IS element
    Putative plasmid stability proteinBCAM2006aFrameshift
    Putative plasmid stability proteinBCAM2006bFrameshift
    Conserved hypothetical proteinBCAM2043Frameshift
    Conserved hypotheticalBCAM2101Disruption, IS element
    Putative pyochelin synthetase PchFBCAM2228Frameshift
    Putative porin-related proteinBCAM2621Nonsense (opal)
    Two-component regulatory system, response regulator proteinBCAM2837Frameshift
Chromosome 3
    Conserved hypothetical proteinBCAS0180Frameshift
    ABC transporter ATP-binding proteinBCAS0221Frameshift
    ABC transporter ATP-binding proteinBCAS0421Disruption, IS element
    cis-1,2-Dihydroxycyclohexa-3,5-diene-1-carboxylate dehydrogenaseBCAS0493Frameshift
    Putative short chain dehydrogenaseBCAS0644Frameshifts
    Putative short chain dehydrogenaseBCAS0645Frameshifts
    LysR family regulatory proteinBCAS0646Frameshift
    Putative transposaseBCAS0651Disruption, IS element
    Putative transposaseBCAS0681Disruption, IS element
Plasmid
    Putative hemagglutinin-related autotransporter proteinpBCA011Frameshift