Experiment set23IT032 for Pseudomonas putida KT2440

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Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs

200 most important genes:

  gene name fitness t score description  
PP_4253 -5.4 -3.1 cytochrome c oxidase subunit, cbb3-type compare
PP_0164 -5.4 -3.7 conserved protein of unknown function compare
PP_3519 -5.3 -1.2 putative Lipoprotein compare
PP_0512 -5.1 -3.1 hypothetical protein compare
PP_2510 -4.9 -1.5 conserved protein of unknown function compare
PP_4528 -4.8 -1.5 conserved protein of unknown function compare
PP_t12 -4.7 -1.0 tRNA-Thr compare
PP_4701 -4.7 -1.0 glucose-6-phosphate isomerase compare
PP_0566 -4.5 -1.0 translation-related factor compare
PP_2414 -4.3 -2.4 conserved exported protein of unknown function compare
PP_2253 -4.1 -2.3 Transcriptional regulator, GntR family compare
PP_4004 -4.1 -4.0 DNA translocase FtsK compare
PP_5289 -4.1 -4.4 Acetylglutamate kinase compare
PP_4871 -3.9 -4.3 putative lysine decarboxylase family protein compare
PP_2107 -3.9 -1.2 conserved protein of unknown function compare
PP_2309 -3.9 -1.2 conserved protein of unknown function compare
PP_4943 -3.8 -1.8 putative Glycosyl transferase compare
PP_2307 -3.8 -2.4 conserved protein of unknown function compare
PP_1344 -3.7 -1.5 conserved protein of unknown function compare
PP_1237 -3.6 -1.3 4-hydroxy-tetrahydrodipicolinate synthase compare
PP_4726 -3.4 -2.7 Chaperone protein DnaJ compare
PP_4941 -3.4 -8.0 conserved exported protein of unknown function compare
PP_4944 -3.4 -5.0 Carbamoyltransferase compare
PP_1366 -3.3 -1.0 Transcriptional regulator MvaT, P16 subunit compare
PP_0232 -3.2 -1.4 ATP-binding taurine transporter subunit compare
PP_5350 -3.1 -4.3 Transcriptional regulator, RpiR family compare
PP_5328 -3.1 -2.0 putative phosphate transport system permease protein compare
PP_5571 -3.1 -1.2 conserved protein of unknown function compare
PP_1048 -3.1 -2.6 putative protein secretion protein for export compare
PP_0152 -2.9 -1.8 conserved exported protein of unknown function compare
PP_4942 -2.9 -2.8 conserved protein of unknown function compare
PP_5337 -2.9 -6.1 LysR family transcriptional regulator compare
PP_4122 -2.8 -1.3 proton-pumping NADH:ubiquinone oxidoreductase, respiratory complex I, subunit E compare
PP_1734 -2.8 -1.9 Probable septum site-determining protein MinC compare
PP_0846 -2.7 -1.0 DnaK-like molecular chaperone specific for IscU compare
PP_3640 -2.6 -2.6 Transcriptional regulator, AraC family compare
PP_5309 -2.6 -1.8 oxidative and nitrosative stress transcriptional dual regulator compare
PP_0065 -2.6 -3.8 NAD-binding component of TrK potassium transporter compare
PP_4835 -2.5 -1.7 conserved exported protein of unknown function compare
PP_4546 -2.4 -3.7 ATP-dependent helicase HrpA compare
PP_3926 -2.4 -1.4 short-chain dehydrogenase compare
PP_2152 -2.3 -2.3 glycerophosphoryl diester phosphodiesterase compare
PP_0292 -2.3 -2.9 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
PP_2793 -2.3 -2.0 Acyl-CoA dehydrogenase family protein compare
PP_4268 -2.3 -1.2 nucleoid-associated broad specificity regulator compare
PP_1088 -2.3 -6.1 Argininosuccinate synthase compare
PP_4532 -2.3 -2.3 ATP-dependent DEAD-box RNA helicase require for 50S ribosomal subunit biogenesis compare
PP_4993 -2.3 -4.7 Glutathione synthetase compare
PP_4262 -2.2 -2.0 Cytochrome oxidase maturation protein, cbb3-type compare
PP_0949 -2.2 -4.9 putative ATP-binding protein UPF0042 compare
PP_1215 -2.2 -1.3 Crossover junction endodeoxyribonuclease RuvC compare
PP_4098 -2.2 -1.5 UvrABC system protein C compare
PP_1568 -2.2 -0.9 conserved protein of unknown function compare
PP_0290 -2.2 -4.8 Imidazole glycerol phosphate synthase subunit HisH compare
PP_5028 -2.2 -3.5 proline iminopeptidase compare
PP_1322 -2.1 -1.6 putative Lipoprotein compare
PP_1468 -2.0 -1.0 Tyrosine recombinase XerD compare
PP_5054 -2.0 -1.5 glutaredoxin 3 compare
PP_1733 -2.0 -2.5 membrane ATPase of the MinC-MinD-MinE system compare
PP_2378 -2.0 -2.2 Fe/S biogenesis protein NfuA compare
PP_1764 -2.0 -2.4 Phosphoglycolate phosphatase 2 compare
PP_4829 -2.0 -2.0 putative precorrin-3B synthase compare
PP_4129 -2.0 -2.7 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_2718 -2.0 -1.2 arsenic resistance transcriptional regulator compare
PP_0888 -1.9 -1.5 Photosynthetic apparatus regulatory protein RegA compare
PP_3043 -1.9 -1.6 conserved protein of unknown function compare
PP_1066 -1.9 -1.7 C4-dicarboxylate transport transcriptional regulatory protein compare
PP_1546 -1.9 -2.1 conserved protein of unknown function compare
PP_5483 -1.9 -1.3 conserved protein of unknown function compare
PP_5748 -1.9 -0.8 cytochrome c heme lyase subunit compare
PP_1906 -1.9 -3.1 ribosomal large subunit pseudouridine synthase C compare
PP_1493 -1.9 -2.6 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_1783 -1.9 -1.3 dTDP-glucose pyrophosphorylase compare
PP_3055 -1.8 -2.7 Pyocin R2_PP, tail formation protein compare
PP_4379 -1.8 -3.2 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_5327 -1.8 -3.6 putative phosphate ABC transporter, permease subunit compare
PP_2217 -1.8 -1.7 enoyl-CoA hydratase compare
PP_1609 -1.8 -1.7 conserved protein of unknown function compare
PP_5310 -1.8 -4.2 junction-specific ATP-dependent DNA helicase compare
PP_0082 -1.8 -3.0 tryptophan synthase alpha chain compare
PP_0035 -1.8 -2.7 putative bactoprenol-linked glycose transferase compare
PP_4722 -1.8 -3.0 Transcription elongation factor GreA compare
PP_4227 -1.8 -1.1 conserved protein of unknown function compare
PP_5198 -1.8 -2.0 conserved protein of unknown function compare
PP_0218 -1.8 -5.4 Sensory box protein compare
PP_4121 -1.7 -3.8 NADH-quinone oxidoreductase subunit C/D compare
PP_4662 -1.7 -2.3 conserved protein of unknown function compare
PP_0962 -1.7 -3.1 toluene-tolerance protein compare
PP_3378 -1.7 -1.3 putative 2-ketogluconokinase compare
PP_5428 -1.7 -2.6 conserved exported protein of unknown function compare
PP_2422 -1.7 -3.6 conserved protein of unknown function compare
PP_4769 -1.6 -1.6 conserved protein of unknown function compare
PP_5338 -1.6 -2.5 aspartate ammonia-lyase compare
PP_4880 -1.6 -6.8 exoribonuclease R compare
PP_0984 -1.6 -1.9 conserved membrane protein of unknown function compare
PP_0195 -1.6 -1.3 conserved protein of unknown function compare
PP_0293 -1.6 -1.3 Imidazole glycerol phosphate synthase subunit HisF compare
PP_1598 -1.6 -3.7 regulatory intramembrane protein RIP zinc protease compare
PP_2439 -1.6 -2.9 peroxiredoxin, alkylhydroperoxide reductase - small subunit compare
PP_0627 -1.6 -1.6 conserved protein of unknown function compare
PP_5619 -1.6 -1.5 protein of unknown function compare
PP_0214 -1.6 -3.7 4-aminobutyrate aminotransferase compare
PP_3198 -1.5 -1.0 Ferredoxin, 2Fe-2S compare
PP_1054 -1.5 -1.5 Type II secretion pathway protein XcpZ compare
PP_1455 -1.5 -1.1 conserved protein of unknown function compare
PP_3484 -1.5 -3.3 Response regulator receiver protein compare
PP_3580 -1.5 -1.7 conserved protein of unknown function compare
PP_4263 -1.5 -2.2 putative membrane-bounded cytochrome biogenesis cycZ-like domain, copper tolerance protein compare
PP_2976 -1.5 -1.3 putative transposase compare
PP_4964 -1.5 -3.1 D-erythrose 4-phosphate dehydrogenase compare
PP_5052 -1.5 -0.9 tRNA(Leu) mC34,mU34 2'-O-ribose methyltransferase, AdoMet-dependent compare
PP_1909 -1.5 -2.9 putative septum formation protein compare
PP_4131 -1.5 -4.1 NADH-quinone oxidoreductase subunit N compare
PP_3614 -1.5 -1.6 conserved membrane protein of unknown function compare
PP_0760 -1.5 -2.8 conserved membrane protein of unknown function compare
PP_1404 -1.5 -1.6 conserved protein of unknown function compare
PP_2160 -1.5 -2.4 NADPH-dependent 7-cyano-7-deazaguanine reductase compare
PP_5185 -1.5 -2.8 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_4792 -1.5 -1.2 conserved exported protein of unknown function compare
PP_4952 -1.5 -1.2 ATP-dependent RNA helicase, specific for 23S rRNA compare
PP_0250 -1.4 -2.3 heat shock protein Hsp15 involved in ribosome recycling compare
PP_0063 -1.4 -2.3 putative Lipid A biosynthesis lauroyl acyltransferase compare
PP_1623 -1.4 -7.9 RNA polymerase, sigma S (sigma 38) factor compare
PP_1198 -1.4 -1.2 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_0184 -1.4 -2.9 Argininosuccinate lyase compare
PP_0127 -1.4 -2.0 Thiol:disulfide interchange protein compare
PP_1022 -1.4 -3.0 glucose 6-phosphate-1-dehydrogenase compare
PP_1374 -1.4 -2.5 conserved protein of unknown function compare
PP_4126 -1.4 -0.7 NADH-quinone oxidoreductase subunit I compare
PP_2229 -1.4 -1.6 putative K(+)/H(+) antiporter subunit C compare
PP_1128 -1.4 -2.3 OmpA family protein compare
PP_2435 -1.4 -2.6 cysteine desulfurase compare
PP_4902 -1.4 -2.2 Oligoribonuclease compare
PP_2622 -1.4 -2.0 conserved protein of unknown function compare
PP_3424 -1.4 -2.2 Type II secretion pathway protein XcpS compare
PP_2328 -1.4 -2.8 Phosphoadenosine phosphosulfate reductase compare
PP_2773 -1.4 -1.0 conserved protein of unknown function compare
PP_1307 -1.4 -2.3 AsnC family transcriptional regulator compare
PP_2175 -1.4 -2.4 putative 3-oxoacyl-(Acyl-carrier-protein) reductase compare
PP_2018 -1.4 -1.6 adhesin-associated BNR repeat protein (from data) compare
PP_0725 -1.4 -2.7 conserved hypothetical TPR repeat protein compare
PP_4406 -1.3 -1.9 conserved protein of unknown function compare
PP_2611 -1.3 -2.5 membrane protein of unknown function compare
PP_5604 -1.3 -1.2 putative subtilisin-like serine protease compare
PP_3555 -1.3 -2.7 putative Transmembrane sensor compare
PP_1550 -1.3 -2.3 Transcriptional regulator, Cro/CI family compare
PP_5717 -1.3 -0.9 conserved protein of unknown function compare
PP_0872 -1.3 -3.6 Peptide chain release factor 3 compare
PP_5001 -1.3 -1.5 protease HslVU, ATPase component compare
PP_4989 -1.3 -1.7 Protein PilJ compare
PP_1635 -1.3 -2.6 DNA-binding response regulator compare
PP_2903 -1.3 -1.7 peptidyl-prolyl cis-trans isomerase B (rotamase B) compare
PP_1099 -1.3 -1.4 Cold shock protein CapB compare
PP_4785 -1.3 -2.5 conserved exported protein of unknown function compare
PP_4261 -1.3 -2.3 cation-transporting P-type ATPase compare
PP_3898 -1.3 -1.3 conserved protein of unknown function compare
PP_4199 -1.3 -0.7 putative Lipoprotein compare
PP_0804 -1.3 -4.3 Protein secretion ABC efflux system, permease and ATP-binding protein compare
PP_0123 -1.3 -4.1 DNA polymerase I, 5 compare
PP_4124 -1.3 -2.9 NADH-quinone oxidoreductase subunit G compare
PP_1319 -1.3 -2.2 Ubiquinol--cytochrome c reductase, cytochrome c1 compare
PP_0435 -1.3 -3.7 Peptidase, M23/M37 family compare
PP_0784 -1.3 -1.7 conserved protein of unknown function compare
PP_3013 -1.3 -2.2 conserved protein of unknown function compare
PP_3081 -1.3 -1.5 conserved protein of unknown function compare
PP_1075 -1.3 -3.3 glycerol kinase compare
PP_0502 -1.2 -2.6 conserved protein of unknown function compare
PP_0735 -1.2 -1.0 molybdopterin-synthase adenylyltransferase compare
PP_5217 -1.2 -5.8 Polyphosphate kinase compare
PP_1808 -1.2 -1.8 glucose-6-phosphate isomerase compare
PP_5093 -1.2 -1.1 twitching motility protein compare
PP_1779 -1.2 -1.9 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_3603 -1.2 -2.5 Transcriptional regulator, GntR family compare
PP_5014 -1.2 -1.5 Phosphoribosyl-AMP cyclohydrolase compare
PP_1442 -1.2 -1.3 conserved protein of unknown function compare
PP_5445 -1.2 -1.4 conserved protein of unknown function compare
PP_2053 -1.2 -2.5 conserved protein of unknown function compare
PP_5090 -1.2 -1.1 putative cell division protein compare
PP_4581 -1.2 -1.1 putative amidotransferase compare
PP_5331 -1.2 -1.5 Long-chain acyl-CoA thioester hydrolase compare
PP_0289 -1.2 -2.5 Imidazoleglycerol-phosphate dehydratase compare
PP_1217 -1.2 -2.2 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_5095 -1.2 -0.5 pyrroline-5-carboxylate reductase compare
PP_5329 -1.1 -2.0 putative phosphate ABC transporter, periplasmic phosphate-binding protein compare
PP_1994 -1.1 -1.4 tRNA pseudouridine (38-40)synthase compare
PP_3505 -1.1 -0.7 conserved protein of unknown function compare
PP_2302 -1.1 -2.3 DNA-binding, ATP-dependent protease compare
PP_3105 -1.1 -0.7 conserved membrane protein of unknown function compare
PP_0361 -1.1 -2.1 putative Competence protein ComF compare
PP_4507 -1.1 -3.8 potassium transporter compare
PP_2585 -1.1 -2.7 Alpha-ketoglutaric semialdehyde dehydrogenase compare
PP_4018 -1.1 -1.3 Acetyltransferase, GNAT family compare
PP_4892 -1.1 -3.1 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_4338 -1.1 -3.6 Chemotaxis histidine kinase CheA compare
PP_0550 -1.1 -1.1 conserved protein of unknown function compare
PP_0833 -1.1 -0.7 queuine tRNA-ribosyltransferase compare
PP_0135 -1.1 -2.9 conserved exported protein of unknown function compare
PP_2504 -1.1 -1.2 putative tautomerase K2 compare
PP_1027 -1.1 -3.2 Exodeoxyribonuclease 7 large subunit compare
PP_4251 -1.1 -1.3 cytochrome c oxidase subunit, cbb3-type compare


Specific Phenotypes

For 1 genes in this experiment

For soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs in Pseudomonas putida KT2440

For soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=0_hrs across organisms