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Table 2 Pseudomonas aeruginosa genes differentially regulated between T0 strain and its T48-derivative clones

From: Seawater salt-trapped Pseudomonas aeruginosa survives for years and gets primed for salinity tolerance

Functional classa Genea ProbeIDb Fold changec Operon IDd pVal
Adaptation/protection
 Iron-sulfure cluster assembly transcription factor iscR PA3815* 2.00 ID777 0.00097
 Bacterioferritin bfrB PA3531* −2.02   0.0028
Regulation
 Probable transcriptional regulator   PA0547* 2.08 ID118 0.0033
Postranslational modification/degradation
 DNA-specific endonuclease I endA PA2749 2.06   0.0088
 tRNA (guanine-N(1)-)-methyltransferase trmD PA3743* 2.22 ID762 0.00042
 Ribosomal protein L11 methyltransferase pmrA PA4850* 2.01 ID996 0.0015
 Regulator of secondary metabolites/Carbon storage regulator rsmA PA0905* −2.23   0.0036
Secreted factors
 Exoenzyme S exoS PA3841 3.51   0.000064
 Exoenzyme T exoT PA0044 2.74   0.00038
Protein transport and protein secretion (Type III Secretion System)
 Hydrogen ion transportType III secretion system ATPase   PA1697 3.40   0.00011
 ExsD exsD PA1714 2.51   0.0033
 ExsC protein secretion export apparatus exsC PA1710 2.92   0.00077
 Translocation protein pscP PA1695 2.21 ID359 0.0048
 Secretion protein pcr1 PA1699 2.47 ID360 0.0013
 Secretion protein pcr2 PA1700 2.46 ID360 0.00034
 Secretion protein pcr3 PA1701* 2.13 ID360 0.00075
 Secretion protein pcrV PA1706* 3.27 ID360 0.0000051
 Regulatory protein pcrH PA1707* 2.38 ID360 0.00090
 Translocation protein popB PA1708* 2.89 ID360 0.00016
 Translocation OMP protein popD PA1709* 3.62 ID360 0.000035
 Regulatory protein (exoenzyme S synthesis protein B) exsB PA1712* 2.17 ID361 0.0031
 Type III export protein PscD pscD PA1717 2.05 ID362 0.018
 Export protein pscF PA1719 2.86 ID362 0.00032
 Type III export protein PscJ pscJ PA1723 2.34 ID362 0.0043
 Translocation protein pscO PA1696 2.18   0.0049
Transport of small molecules
 Sulfate transport protein CysW cysW PA0281 4.13   0.000016
 Probable binding protein component of ABC transporter   PA2204 3.84   0.0000086
 Na+/alanine/glycine symporter   PA2252 3.10   0.00029
 Probable MFS dicarboxylate transporter   PA5530* 2.67   0.00011
 Sulfate transport protein CysT cysT PA0282 2.55   0.0016
 Probable amino acid permease   PA3641 2.46   0.0012
 Probable amino acid permease   PA0789 2.37   0.0076
 Probable ATP-binding component of ABC transporter   PA3019* 2.24   0.0030
Metabolism/enzymes
 S-adenosylmethionine decarboxylase proenzyme speD PA0654* 2.66   0.00038
 Aspartate ammonia-lyase aspA PA5429 2.56   0.0029
 Sulfite reductase cysI PA1838 2.47   0.0029
 6-phosphogluconolactonase pgI PA3182 2.44   0.0018
 Soluble pyridine nucleotide transhydrogenase sth PA2991 2.35   0.0041
 Probable ferredoxin   PA1551* −2.29 ID327 0.0017
 Cytochrome C-oxidase, cbb3-type, CcoP subunit ccoP2 PA1555* −2.22   0.0041
 Probable cytochrome c oxidase subunit   PA1556* −2.02 ID329 0.0029
 Probable cytochrome oxidase subunit (cbb3-type) ccoN2 PA1557* −2.02 ID329 0.0087
 Sulfate adenylyltransferase cysN PA4442 2.12   0.0029
 NAD-dependent glutamate dehydrogenase gdhB PA3068 2.30   0.0025
 Glyceraldehyde 3-phosphate dehydrogenase gapA PA3195 2.08   0.0071
 Co-chaperone HscB hscB PA3811 2.62 ID777 0.00063
 Ferredoxin (2Fe-2S) fdx2 PA3809 2.40 ID777 0.0016
 L-cysteine desulfurase iscS PA3814* 2.07 ID777 0.0020
Geranyltranstransferase ispA PA4043* 2.14 ID821 0.00087
 N-acetylglucosaminyl transferase murG PA4412 2.07 ID903 0.0060
 cytochrome o ubiquinol oxidase, subunit I cyoB PA1318 2.04   0.0062
 2-keto-3-deoxy-6-phosphogluconate aldolase   PA3181 2.02   0.013
 Cytochrome o ubiquinol oxidase, subunit III cyoC PA1319 2.01   0.010
 Sulfate adenylyltransferase subunit 2 cysD PA4443* 2.66 ID908 0.00026
 Cell division protein FtsJ ftsJ PA4752* −2.00   
 Probable beta-ketoacyl synthase   PA5174 2.19   0.00047
 Na+-transporting NADH:ubiquinone oxidoreductase, subunit NqrB nqrB PA2998 2.11   0.0065
 Ribosomal RNA small subunit methyltransferase C rsmC PA4627* 2.39   0.0025
Chaperonnes & heat shock proteins
 Molecular chaperone DnaK dnaK PA4761* −2.16 ID978 0.0076
 ATP-dependent protease ATP-binding subunit hslU PA5054* −2.02   0.0080
Membran proteins and LPS
 Heptosyltransferase II waaF PA5012 2.04   0.0096
 RodA rod shape-determining protein rodA PA4002 2.04   0.011
 Outer membrane protein OprG precursor oprG PA4067* −2.02   0.0057
 Na+/H+ ion antiporter subunit shaD PA1057* 2.01 ID228 0.0092
Unknown fonction
 Hypothetical protein   PA0284 2.23   0.0019
 Hypothetical protein   PA0310* −2.02   0.0083
 Hypothetical protein   PA0570 2.12 ID123 0.0011
 Hypothetical protein   PA0915* 2.32 ID197 0.0013
 Hypothetical protein (predicted transmembrane protein)   PA1209* −3.35   0.00020
 Hypothetical protein (type II lipoprotein export signal predicted)   PA1228 2.35   0.0015
 Hypothetical protein (predicted transmembrane protein)   PA2501* −2.64   0.0011
 Hypothetical protein (NnrS-like membrane protein)   PA2662* 2.13 ID556 0.00048
 Hypothetical protein (predicted transmembrane protein)   PA2757* 2.01   0.0045
 Hypothetical protein   PA3572 −2.23   0.00065
 Hypothetical protein (type I lipoprotein export signal predicted)   PA4390* 2.16   0.0028
 Hypothetical protein (predicted transmembrane protein)   PA4517* −2.42   0.00044
 Hypothetical protein   PA4611* −2.22   0.0073
 Hypothetical protein   PA5446* −3.18   0.00014
  1. aFrom the P. aeruginosa genome project website ( www.pseudomonas.com )
  2. bProbe ORFs identifier for P. aeruginosa PAO1
  3. cFold regulation of P. aeruginosa genes differentially expressed between T0 and T14Y variants
  4. dComputationally predicted operons from the Database of the prokaryotic operons
  5. Asterisks indicate the genes inactivated in the 39 mutants tested for changes in growth in high NaCl concentrations
  6. Underlined genes are those whose inactivation increases growth in high NaCl concentrations