From: Toxicogenomic response of Pseudomonas aeruginosa to ortho-phenylphenol
Affymetrix ORF # | Probe ID | a20 minutes | a60 minutes | Description | Symbol | Functional class | ||
---|---|---|---|---|---|---|---|---|
 |  | bFold change | P value | bFold change | P value |  |  |  |
Group I: Upregulation (20 min) – Upregulation (60 min) | ||||||||
PA1964_at | PA1964 | 2.029 | 0.0112 | 2.381 | 0.0112 | probable ATP-binding component of ABC transporter | Â | Transport of small molecules |
PA2760_at | PA2760 | 2.152 | 0.0416 | 2.94 | 0.0416 | probable outer membrane protein precursor | Â | Transport of small molecules |
PA4687_hitA_at | PA4687 | 2.219 | 0.00808 | 2.069 | 0.00808 | ferric iron-binding periplasmic protein HitA | hit A | Transport of small molecules |
PA2743_infC_at | PA2743 | 2.044 | 0.000327 | 2.634 | 0.000327 | translation initiation factor IF-3 | inf C | Translation, post-translational modification, degradation |
PA2619_infA_at | PA2619 | 2.14 | 0.000526 | 3.644 | 0.000526 | translation initiation factor | inf A | Translation, post-translational modification, degradation |
PA4266_fusA1_at | PA4266 | 2.18 | 0.012 | 3.88 | 0.012 | elongation factor G | fus A1 | Translation, post-translational modification, degradation |
PA3655_tsf_at | PA3655 | 2.197 | 0.017 | 5.495 | 0.017 | elongation factor Ts | tsf | Translation, post-translational modification, degradation |
PA4665_prfA_at | PA4665 | 2.426 | 0.00398 | 2.774 | 0.00398 | peptide chain release factor 1 | prf A | Translation, post-translational modification, degradation |
PA4273_rplA_at | PA4273 | 2.725 | 0.0349 | 6.018 | 0.0349 | 50S ribosomal protein L1 | rpl A | Translation, post-translational modification, degradation |
PA3656_rpsB_at | PA3656 | 2.543 | 0.00953 | 7.267 | 0.00953 | 30S ribosomal protein S2 | rps B | Translation, post-translational modification, degradation |
PA4744_infB_at | PA4744 | 2.783 | 0.0134 | 3.826 | 0.0134 | translation initiation factor IF-2 | inf B | Translation, post-translational modification, degradation |
PA4934_rpsR_at | PA4934 | 2.894 | 0.000276 | 6.619 | 0.000276 | 30S ribosomal protein S18 | rps R | Translation, post-translational modification, degradation |
PA4255_rpmC_at | PA4255 | 2.927 | 0.00331 | 6.655 | 0.00331 | 50S ribosomal protein L29 | rpm C | Translation, post-translational modification, degradation |
PA4528_pilD_at | PA4528 | 2.144 | 0.014 | 2.65 | 0.014 | type 4 prepilin peptidase PilD | pil D | Motility & Attachment |
PA0408_pilG_at | PA0408 | 2.294 | 0.0144 | 4.026 | 0.0144 | twitching motility protein PilG | pil G | Chemotaxis |
PA5041_pilP_at | PA5041 | 2.169 | 0.00817 | 2.232 | 0.00817 | type 4 fimbrial biogenesis protein PilP | pil P | Motility & Attachment |
PA0410_pilI_at | PA0024 | 2.188 | 0.0484 | 2.267 | 0.0484 | twitching motility protein PilI | pil I | Motility & Attachment |
PA5042_pilO_at | PA5042 | 2.26 | 0.000345 | 2.056 | 0.000345 | type 4 fimbrial biogenesis protein PilO | pil O | Motility & Attachment |
PA4527_pilC_at | PA4527 | 2.27 | 0.00205 | 2.678 | 0.00205 | still frameshift type 4 fimbrial biogenesis protein PilC | pil C | Motility & Attachment |
PA5043_pilN_at | PA5043 | 2.34 | 0.000628 | 2.914 | 0.000628 | type 4 fimbrial biogenesis protein PilN | pil N | Motility & Attachment |
PA5044_pilM_at | PA5044 | 2.893 | 0.00702 | 3.12 | 0.00702 | type 4 fimbrial biogenesis protein PilM | pil M | Motility & Attachment |
PA4688_hitB_at | PA4688 | 2.282 | 0.0261 | 2.513 | 0.0261 | iron (III)-transport system permease HitB | hit B | Membrane proteins |
PA4747_secG_at | PA4747 | 2.294 | 0.00628 | 3.795 | 0.00628 | secretion protein SecG | sec G | Membrane proteins |
PA4243_secY_at | PA4243 | 2.914 | 9.26E-05 | 6.799 | 9.26E-05 | secretion protein SecY | sec Y | Membrane proteins |
PA4276_secE_at | PA4276 | 2.274 | 2.07E-05 | 4.198 | 2.07E-05 | secretion protein SecE | sec E | Protein secretion/export apparatus |
PA2968_fabD_at | PA2968 | 2.137 | 0.0131 | 3.506 | 0.0131 | malonyl-CoA-[acyl-carrier-protein] transacylase | fab D | Fatty acid and phospholipid metabolism |
PA1609_fabB_at | PA1609 | 2.373 | 0.0147 | 2.855 | 0.0147 | beta-ketoacyl-ACP synthase I | fab B | Fatty acid and phospholipid metabolism |
PA2967_fabG_at | PA2967 | 2.387 | 0.00109 | 3.416 | 0.00109 | 3-oxoacyl-[acyl-carrier-protein] reductase | fab G | Fatty acid and phospholipid metabolism |
PA1610_fabA_at | PA1610 | 2.864 | 0.00295 | 4.071 | 0.00295 | beta-hydroxydecanoyl-ACP dehydrase | fab A | Fatty acid and phospholipid metabolism |
PA3645_fabZ_at | PA3645 | 2.854 | 2.25E-05 | 4.671 | 2.25E-05 | (3R)-hydroxymyristoyl-[acyl carrier protein] dehydratase | fab Z | Cell wall/LPS/capsule |
PA5556_atpA_at | PA5556 | 2.202 | 0.00136 | 3.907 | 0.00136 | ATP synthase alpha chain | atp A | Energy metabolism |
PA5491_at | PA5491 | 2.354 | 0.0049 | 2.854 | 0.0049 | probable cytochrome | Â | Energy metabolism |
PA5561_atpI_at | PA5561 | 2.558 | 0.0015 | 2.542 | 0.0015 | ATP synthase protein I | atp I | Energy metabolism |
PA3818_at | PA4263 | 2.746 | 0.00537 | 5.447 | 0.00537 | extragenic suppressor protein SuhB | Suh B | Adaptation, protection |
PA4743_rbfA_at | PA4743 | 2.824 | 0.0177 | 4.063 | 0.0177 | ribosome-binding factor A | rbf A | Adaptation, protection |
PA5117_typA_at | PA5117 | 3.136 | 0.000343 | 5.723 | 0.000343 | regulatory protein TypA | Typ A | Adaptation, protection |
Group II: Upregulation (20 min) – No change (60 min) | ||||||||
PA0524_norB_at | PA0524 | 3.869 | 0.0456 | Â | Â | nitric-oxide reductase subunit B | nor B | Energy metabolism |
PA3479_rhlA_at | PA3479 | 2.376 | 0.0364 | Â | Â | rhamnosyltransferase chain A | rhl A | Secreted Factors (toxins, enzymes, alginate) |
PA0177_at | PA0177 | 2.683 | 0.00294 | Â | Â | probable purine-binding chemotaxis protein | Â | Adaptation, protection |
Group III: Downregulation (20 min) – No change (60 min) | ||||||||
PA2193_hcnA_at | PA2193 | -2.268 | 0.0324 | Â | Â | hydrogen cyanide synthase HcnA | hcn A | Central intermediary metabolism |
PA2194_hcnB_at | PA2194 | -2.762 | 0.018 | Â | Â | hydrogen cyanide synthase HcnB | hcn B | Central intermediary metabolism |
PA2195_hcnC_at | PA2195 | -2.183 | 0.0437 | Â | Â | hydrogen cyanide synthase HcnC | hcn C | Central intermediary metabolism |
PA4385_groEL_at | PA4385 | -2.16 | 0.00513 | Â | Â | GroEL protein | gro EL | Chaperones & heat shock proteins |
PA4542_clpB_at | PA4542 | -2.77 | 0.00253 | Â | Â | ClpB protein | clp B | Translation, post-translational modification, degradation |
Group IV: No change(20 min) – Upregulation(60 min) | ||||||||
PA4272_rplJ_at | PA4272 | Â | Â | 5.918 | 0.00886 | 50S ribosomal protein L10 | rpl J | Translation, post-translational modification, degradation |
PA4271_rplL_at | PA4271 | Â | Â | 5.898 | 0.00319 | 50S ribosomal protein L17/L12 | rpl L | Translation, post-translational modification, degradation |
PA2740_pheS_at | PA2740 | Â | Â | 3.323 | 0.000548 | phenylalanyl-tRNA synthetase, alpha-subunit | phe S | Translation, post-translational modification, degradation |
PA4240_rpsK_at | PA4240 | Â | Â | 3.283 | 0.0292 | 30S ribosomal protein S11 | rps K | Translation, post-translational modification, degradation |
PA4267_rpsG_at | PA4267 | Â | Â | 3.104 | 0.0138 | 30S ribosomal protein S7 | rps G | Translation, post-translational modification, degradation |
PA2739_pheT_at | PA2739 | Â | Â | 2.142 | 0.0375 | phenylalanyl-tRNA synthetase, beta subunit | phe T | Translation, post-translational modification, degradation |
PA3987_leuS_at | PA3987 | Â | Â | 2.632 | 0.0216 | leucyl-tRNA synthetase | leu S | Amino acid biosynthesis and metabolism |
PA0009_glyQ_at | PA0009 | Â | Â | 2.568 | 0.000361 | glycyl-tRNA synthetase alpha chain | gly Q | Amino acid biosynthesis and metabolism |
PA3525_argG_at | PA3525 | Â | Â | 2.45 | 0.0411 | argininosuccinate synthase | arg G | Amino acid biosynthesis and metabolism |
PA3167_serC_at | PA3167 | Â | Â | 2.345 | 0.0396 | 3-phosphoserine aminotransferase | ser C | Amino acid biosynthesis and metabolism |
PA0904_lysC_at | PA0904 | Â | Â | 2.337 | 0.00528 | aspartate kinase alpha and beta chain | lys C | Amino acid biosynthesis and metabolism |
PA5263_argH_at | PA5263 | Â | Â | 2.29 | 0.00853 | argininosuccinate lyase | arg H | Amino acid biosynthesis and metabolism |
PA4007_proA_at | PA4007 | Â | Â | 2.282 | 0.0231 | gamma-glutamyl phosphate reductase | pro A | Amino acid biosynthesis and metabolism |
PA5277_lysA_at | PA5277 | Â | Â | 2.247 | 0.0334 | diaminopimelate decarboxylase | lys A | Amino acid biosynthesis and metabolism |
PA5143_hisB_at | PA5143 | Â | Â | 2.246 | 0.00461 | imidazoleglycerol-phosphate dehydratase | his B | Amino acid biosynthesis and metabolism |
PA5039_aroK_at | PA5039 | Â | Â | 2.234 | 0.013 | shikimate kinase | aro K | Amino acid biosynthesis and metabolism |
PA0018_fmt_at | PA0018 | Â | Â | 2.222 | 0.0137 | methionyl-tRNA formyltransferase | fmt | Amino acid biosynthesis and metabolism |
PA5067_hisE_at | PA5067 | Â | Â | 2.212 | 0.00214 | phosphoribosyl-ATP pyrophosphohydrolase | his E | Amino acid biosynthesis and metabolism |
PA3482_metG_at | PA3482 | Â | Â | 2.043 | 0.0312 | methionyl-tRNA synthetase | met G | Amino acid biosynthesis and metabolism |
PA5119_glnA_at | PA5119 | Â | Â | 2.038 | 0.0442 | glutamine synthetase | gln A | Amino acid biosynthesis and metabolism |
PA4439_trpS_at | PA4439 | Â | Â | 2.002 | 0.0155 | tryptophanyl-tRNA synthetase | trp S | Amino acid biosynthesis and metabolism |
PA0903_alaS_at | PA0903 | Â | Â | 2.099 | 0.0102 | alanyl-tRNA synthetase | ala S | Transcription, RNA processing and degradation |
PA4602_glyA3_at | PA4602 | Â | Â | 3.347 | 2.83E-05 | serine hydroxymethyltransferase | gly A3 | Amino acid biosynthesis and metabolism |
PA0971_tolA_at | PA0971 | Â | Â | 2.249 | 0.000381 | TolA protein | tol A | Transport of small molecules |
PA5479_gltP_at | PA5479 | Â | Â | 2.413 | 0.00978 | proton-glutamate symporter | glt P | Membrane proteins |
PA3821_secD_at | PA3821 | Â | Â | 3.516 | 0.00324 | secretion protein SecD | sec D | Membrane proteins |
PA3820_secF_at | PA3820 | Â | Â | 2.206 | 0.0411 | secretion protein sec F Protein secretion | sec F | Protein secretion/export apparatus |
PA5070_tatC_at | PA5070 | Â | Â | 2.312 | 0.0209 | transport protein TatC | tat C | Membrane proteins |
PA0973_oprL_at | PA0973 | Â | Â | 2.281 | 0.00672 | Peptidoglycan associated lipoprotein OprL precursor | opr L | Membrane proteins |
PA0280_cysA_at | PA0280 | Â | Â | 2.018 | 0.0139 | sulfate transport protein CysA | cys A | Transport of small molecules |
PA5217_at | PA5217 | Â | Â | 2.141 | 0.00709 | probable binding protein component of ABC iron transporter | Â | Transport of small molecules |
PA0295_at | PA0295 | Â | Â | 2.643 | 0.0147 | probable periplasmic polyamine binding protein | Â | Transport of small molecules |
PA4461_at | PA4461 | Â | Â | 2.24 | 0.00116 | probable ATP-binding component of ABC transporter | Â | Transport of small molecules |
PA5503_at | PA5503 | Â | Â | 2.229 | 0.000446 | probable ATP-binding component of ABC transporter | Â | Transport of small molecules |
PA4450_murA_at | PA4450 | Â | Â | 2.855 | 0.00044 | UDP-N-acetylglucosamine 1-carboxyvinyltransferase | mur A | Cell wall/LPS/capsule |
PA3644_lpxA_at | PA3644 | Â | Â | 2.83 | 0.00038 | UDP-N-acetylglucosamine acyltransferase | lpx A | Cell wall/LPS/capsule |
PA5276_lppL_i_at | PA5276 | Â | Â | 2.786 | 0.0149 | Lipopeptide LppL precursor | lpp L | Cell wall/LPS/capsule |
PA3643_lpxB_at | PA3643 | Â | Â | 2.561 | 0.0247 | lipid A-disaccharide synthase | lpx B | Cell wall/LPS/capsule |
PA5012_waaF_at | PA5012 | Â | Â | 2.092 | 0.00978 | heptosyltransferase II | waa F | Cell wall/LPS/capsule |
PA3337_rfaD_at | PA3337 | Â | Â | 3.397 | 0.0498 | ADP-L-glycero-D-mannoheptose 6-epimerase | rfa D | Cell wall/LPS/capsule |
PA5129_grx_at | PA5129 | Â | Â | 3.855 | 0.0334 | glutaredoxin | grx | Energy metabolism |
PA5555_atpG_at | PA5555 | Â | Â | 3.527 | 0.0287 | ATP synthase gamma chain | atp G | Energy metabolism |
PA5554_atpD_at | PA5554 | Â | Â | 3.011 | 0.00384 | ATP synthase beta chain | atp D | Energy metabolism |
PA3621_fdxA_at | PA3621 | Â | Â | 3.01 | 0.0042 | ferredoxin I | fdx A | Energy metabolism |
PA5559_atpE_at | PA5559 | Â | Â | 2.734 | 0.0205 | atp synthase C chain | atp E | Energy metabolism |
PA5560_atpB_at | PA5560 | Â | Â | 2.433 | 0.0148 | ATP synthase A chain | atp B | Energy metabolism |
PA2995_nqrE_at | PA2995 | Â | Â | 2.216 | 0.00617 | Na+-translocating NADH:quinone oxidoreductase subunit Nqr5 | nqr E | Energy metabolism |
PA5553_atpC_at | PA5553 | Â | Â | 2.175 | 0.00502 | ATP synthase epsilon chain | atp C | Energy metabolism |
PA0362_fdx1_at | PA0362 | Â | Â | 2.125 | 0.000346 | ferredoxin [4Fe-4S] | fdx 1 | Energy metabolism |
PA3527_pyrC_at | PA3527 | Â | Â | 2.218 | 0.0211 | dihydroorotase | pyr C | Nucleotide biosynthesis and metabolism |
PA5331_pyrE_at | PA5331 | Â | Â | 2.156 | 0.0166 | orotate phosphoribosyltransferase | pyr E | Nucleotide biosynthesis and metabolism |
PA3654_pyrH_at | PA3654 | Â | Â | 2.434 | 0.0212 | uridylate kinase | pyr H | Nucleotide biosynthesis and metabolism |
PA3763_purL_at | PA3763 | Â | Â | 2.279 | 0.00792 | phosphoribosylformylglycinamidine synthase | pur L | Nucleotide biosynthesis and metabolism |
Group V: No change(20 min) – Downregulation(60 min) | ||||||||
PA1174_napA_at | PA1174 | Â | Â | -3.425 | 0.0251 | periplasmic nitrate reductase protein NapA | nap A | Energy metabolism |
PA1175_napD_at | PA1175 | Â | Â | -2.949 | 0.0134 | NapD protein of periplasmic nitrate reductase | nap D | Energy metabolism |
PA1176_napF_at | PA1176 | Â | Â | -2.949 | 0.024 | ferredoxin protein NapF | nap F | Energy metabolism |
PA1173_napB_at | PA1173 | Â | Â | -3.077 | 0.00344 | cytochrome c-type protein NapB precursor | nap B | Energy metabolism |
PA2248_bkdA2_at | PA2248 | Â | Â | -5.076 | 0.0072 | 2-oxoisovalerate dehydrogenase (beta subunit) | bkd A2 | Amino acid biosynthesis and metabolism |
PA2247_bkdA1_at | PA2247 | Â | Â | -9.434 | 0.00376 | 2-oxoisovalerate dehydrogenase (alpha subunit) | bkd A1 | Amino acid biosynthesis and metabolism |
PA2250_lpdV_at | PA2250 | Â | Â | -3.497 | 0.00576 | lipoamide dehydrogenase-Val | lpd V | Amino acid biosynthesis and metabolism |
Group VI: Downregulation (20 min) – Downregulation (60 min) | ||||||||
PA3049_rmf_at | PA3049 | -6.25 | 0.000723 | -25.907 | 0.000723 | ribosome modulation factor | rmf | Translation, post-translational modification, degradation |
PA3622_rpoS_at | PA3622 | -2.653 | 0.00961 | -2.967 | 0.00961 | sigma factor RpoS | rpo S | Transcriptional regulators |
PA4762_grpE_at | PA4762 | -2.915 | 0.00501 | -0.479 | 0.00501 | heat shock protein GrpE | grp E | DNA replication, recombination, modification and repair |
PA5054_hslU_at | PA5054 | -3.226 | 0.000316 | -0.428 | 0.000316 | heat shock protein HslU | hsl U | Chaperones & heat shock proteins |
PA5053_hslV_at | PA5053 | -2.597 | 0.00113 | -0.352 | 0.00113 | heat shock protein HslV | hsl V | Chaperones & heat shock proteins |
PA1596_htpG_at | PA1596 | -2.695 | 0.00706 | -0.434 | 0.00706 | heat shock protein HtpG | htp G | Chaperones & heat shock proteins |