Experiment set23IT068 for Pseudomonas putida KT2440

Compare to:

Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs

200 most important genes:

  gene name fitness t score description  
PP_1623 -6.9 -10.6 RNA polymerase, sigma S (sigma 38) factor compare
PP_4994 -6.0 -4.1 conserved protein of unknown function compare
PP_3484 -5.7 -6.8 Response regulator receiver protein compare
PP_1898 -5.4 -3.7 MotA/TolQ/ExbB proton channel family protein compare
PP_0164 -5.0 -4.9 conserved protein of unknown function compare
PP_0760 -4.8 -4.1 conserved membrane protein of unknown function compare
PP_4058 -4.3 -10.3 1,4-alpha-glucan branching enzyme compare
PP_1778 -4.2 -8.6 Lipopolysaccharide ABC export system, permease protein compare
PP_0293 -4.2 -3.3 Imidazole glycerol phosphate synthase subunit HisF compare
PP_4902 -4.0 -3.9 Oligoribonuclease compare
PP_4342 -4.0 -3.9 flagellar synthesis regulator, putative ATPase compare
PP_4726 -3.9 -3.8 Chaperone protein DnaJ compare
PP_4943 -3.8 -2.6 putative Glycosyl transferase compare
PP_5014 -3.5 -4.3 Phosphoribosyl-AMP cyclohydrolase compare
PP_0184 -3.4 -4.6 Argininosuccinate lyase compare
PP_1088 -3.3 -9.5 Argininosuccinate synthase compare
PP_0951 -3.3 -8.0 Ribosome hibernation promoting factor compare
PP_4143 -3.2 -4.8 conserved protein of unknown function compare
PP_0292 -3.0 -3.9 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
PP_0547 -3.0 -5.4 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_1779 -3.0 -8.0 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_2217 -3.0 -3.7 enoyl-CoA hydratase compare
PP_1733 -2.9 -2.0 membrane ATPase of the MinC-MinD-MinE system compare
PP_0396 -2.8 -13.6 conserved protein of unknown function compare
PP_1198 -2.7 -3.5 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_0846 -2.7 -1.9 DnaK-like molecular chaperone specific for IscU compare
PP_0290 -2.7 -6.4 Imidazole glycerol phosphate synthase subunit HisH compare
PP_1734 -2.7 -2.6 Probable septum site-determining protein MinC compare
PP_1986 -2.7 -4.4 3-isopropylmalate dehydratase small subunit compare
PP_5502 -2.6 -4.3 ribosome modulation factor compare
PP_1994 -2.6 -1.8 tRNA pseudouridine (38-40)synthase compare
PP_5145 -2.5 -16.5 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_4008 -2.5 -7.9 ATP-dependent serine protease compare
PP_0395 -2.5 -11.5 putative type IV piliation protein compare
PP_4124 -2.5 -2.4 NADH-quinone oxidoreductase subunit G compare
PP_5185 -2.4 -5.5 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_0397 -2.4 -13.8 protein kinase compare
PP_0966 -2.4 -8.8 Histidinol dehydrogenase compare
PP_1428 -2.4 -2.3 Sigma factor AlgU negative regulatory protein compare
PP_2378 -2.3 -2.3 Fe/S biogenesis protein NfuA compare
PP_4993 -2.3 -5.7 Glutathione synthetase compare
PP_5015 -2.3 -4.9 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
PP_2327 -2.3 -4.7 transcriptional dual regulator / CysB-O-acetyl-L-serine compare
PP_3946 -2.3 -1.9 HTH-type transcriptional repressor NicR compare
PP_4880 -2.2 -8.9 exoribonuclease R compare
PP_5217 -2.2 -12.9 Polyphosphate kinase compare
PP_5328 -2.2 -2.6 putative phosphate transport system permease protein compare
PP_0965 -2.2 -9.6 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
PP_2862 -2.2 -6.1 Undecaprenyl-diphosphatase compare
PP_4120 -2.2 -1.5 NADH-quinone oxidoreductase subunit B compare
PP_4546 -2.2 -4.1 ATP-dependent helicase HrpA compare
PP_4122 -2.2 -2.1 proton-pumping NADH:ubiquinone oxidoreductase, respiratory complex I, subunit E compare
PP_4356 -2.1 -4.5 Flagellar protein FliO compare
PP_4891 -2.1 -5.2 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_0276 -2.1 -1.9 Transcriptional regulator, Cro/CI family compare
PP_3511 -2.1 -8.2 Branched-chain-amino-acid aminotransferase compare
PP_0967 -2.1 -9.6 histidinol-phosphate aminotransferase (EC 2.6.1.9) (from data) compare
PP_4874 -2.1 -1.8 50S ribosomal protein L9 compare
PP_0289 -2.0 -6.7 Imidazoleglycerol-phosphate dehydratase compare
PP_2337 -2.0 -2.4 aconitate isomerase compare
PP_0406 -1.9 -2.9 Nucleotidyltransferase family protein compare
PP_5313 -1.9 -3.8 DNA-binding protein HU-alpha compare
PP_2144 -1.9 -4.1 Transcriptional regulator, TetR family compare
PP_0003 -1.9 -3.2 16S RNA methyltransferase compare
PP_1208 -1.8 -1.9 conserved protein of unknown function, SlyX family compare
PP_0949 -1.8 -5.1 putative ATP-binding protein UPF0042 compare
PP_1215 -1.8 -1.7 Crossover junction endodeoxyribonuclease RuvC compare
PP_4213 -1.8 -3.4 putative dipeptidase compare
PP_5289 -1.8 -3.5 Acetylglutamate kinase compare
PP_4004 -1.8 -3.5 DNA translocase FtsK compare
PP_1985 -1.8 -3.7 3-isopropylmalate dehydratase large subunit compare
PP_1319 -1.7 -5.1 Ubiquinol--cytochrome c reductase, cytochrome c1 compare
PP_3312 -1.7 -2.4 putative Heat shock protein compare
PP_0735 -1.7 -2.1 molybdopterin-synthase adenylyltransferase compare
PP_4471 -1.7 -4.4 Magnesium transporter compare
PP_5248 -1.7 -2.1 putative hydrolase compare
PP_4126 -1.7 -1.1 NADH-quinone oxidoreductase subunit I compare
PP_4131 -1.7 -3.5 NADH-quinone oxidoreductase subunit N compare
PP_1783 -1.6 -1.6 dTDP-glucose pyrophosphorylase compare
PP_1025 -1.6 -9.3 2-isopropylmalate synthase compare
PP_4129 -1.6 -2.5 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_1217 -1.6 -4.5 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_2370 -1.6 -2.3 conserved protein of unknown function compare
PP_5486 -1.6 -2.7 conserved protein of unknown function compare
PP_2145 -1.6 -2.6 beta-N-acetylglucosaminidase compare
PP_4121 -1.6 -3.7 NADH-quinone oxidoreductase subunit C/D compare
PP_4696 -1.6 -3.7 Nitrogen regulation protein NR(I) compare
PP_5128 -1.6 -6.2 Dihydroxy-acid dehydratase compare
PP_4678 -1.6 -9.1 Ketol-acid reductoisomerase compare
PP_1493 -1.6 -2.9 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_3821 -1.6 -7.5 UTP-glucose-1-phosphate uridylyltransferase compare
PP_1988 -1.6 -6.0 3-isopropylmalate dehydrogenase compare
PP_5329 -1.6 -1.8 putative phosphate ABC transporter, periplasmic phosphate-binding protein compare
PP_3649 -1.6 -4.1 Transcriptional regulator, GntR family compare
PP_5327 -1.5 -2.5 putative phosphate ABC transporter, permease subunit compare
PP_0832 -1.5 -3.5 S-adenosylmethionine:tRNA ribosyltransferase-isomerase compare
PP_0959 -1.5 -2.7 phospholipid ABC transporter compare
PP_2903 -1.5 -2.3 peptidyl-prolyl cis-trans isomerase B (rotamase B) compare
PP_5045 -1.5 -3.9 tRNA sulfurtransferase compare
PP_5310 -1.5 -4.9 junction-specific ATP-dependent DNA helicase compare
PP_4964 -1.5 -2.6 D-erythrose 4-phosphate dehydrogenase compare
PP_1224 -1.5 -4.4 periplasmic subunit of the TolQRA transport system compare
PP_2794 -1.5 -2.8 Oxidoreductase, short chain dehydrogenase/reductase family compare
PP_t11 -1.5 -3.2 tRNA-Lys compare
PP_4679 -1.5 -5.9 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_4909 -1.5 -4.6 phosphoserine phosphatase compare
PP_4804 -1.4 -1.0 RlpA-like lipoprotein compare
PP_5294 -1.4 -5.8 Ribonuclease PH compare
PP_4680 -1.4 -8.0 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_5453 -1.4 -2.0 conserved protein of unknown function compare
PP_0368 -1.4 -8.8 putative Acyl-CoA dehydrogenase compare
PP_2214 -1.4 -2.8 3-hydroxyacyl-CoA dehydrogenase type-2 compare
PP_5051 -1.4 -3.2 conserved protein of unknown function compare
PP_4720 -1.4 -1.5 putative RNA binding protein compare
PP_1142 -1.4 -1.5 conserved protein of unknown function compare
PP_4785 -1.4 -4.0 conserved exported protein of unknown function compare
PP_5146 -1.4 -5.8 RNA pyrophosphohydrolase compare
PP_0022 -1.4 -1.2 hypothetical protein compare
PP_4938 -1.4 -6.4 putative Glycosyl transferase compare
PP_2976 -1.3 -2.3 putative transposase compare
PP_4375 -1.3 -5.2 flagellar chaperone, inhibits premature FliC assembly compare
PP_4940 -1.3 -6.3 Putative glycosyltransferase compare
PP_4936 -1.3 -5.4 O-antigen polymerase compare
PP_3833 -1.3 -2.8 Response regulator compare
PP_4697 -1.3 -2.5 poly(A) polymerase compare
PP_5748 -1.3 -1.8 cytochrome c heme lyase subunit compare
PP_0872 -1.3 -5.1 Peptide chain release factor 3 compare
PP_4890 -1.3 -4.8 ATP phosphoribosyltransferase regulatory subunit compare
PP_5093 -1.3 -1.8 twitching motility protein compare
PP_3999 -1.3 -5.2 Uroporphyrinogen-III C-methyltransferase/Precorrin-2 dehydrogenase/Sirohydrochlorin ferrochelatase compare
PP_5514 -1.3 -1.1 conserved protein of unknown function compare
PP_0995 -1.3 -5.5 conserved membrane protein of unknown function compare
PP_2437 -1.3 -5.5 putative Acyl-CoA dehydrogenase compare
PP_5347 -1.3 -7.2 pyruvate carboxylase subunit A compare
PP_1860 -1.3 -4.7 Organic hydroperoxide resistance transcriptional regulator compare
PP_4009 -1.3 -3.0 ATP-dependent Clp protease adapter protein ClpS compare
PP_0291 -1.2 -3.5 conserved protein of unknown function compare
PP_5028 -1.2 -2.7 proline iminopeptidase compare
PP_4253 -1.2 -2.7 cytochrome c oxidase subunit, cbb3-type compare
PP_0250 -1.2 -2.5 heat shock protein Hsp15 involved in ribosome recycling compare
PP_2433 -1.2 -2.1 conserved protein of unknown function compare
PP_4505 -1.2 -4.1 Sensor histidine kinase compare
PP_4067 -1.2 -5.3 methylcrotonyl-CoA carboxylase biotin-containing subunit alpha compare
PP_2029 -1.2 -1.9 von Willebrand factor type A domain protein compare
PP_4273 -1.2 -1.7 Transcriptional regulator, MerR family compare
PP_2371 -1.2 -4.0 Sulphite reductase hemoprotein, beta subunit compare
PP_4364 -1.2 -2.6 putative Anti-sigma F factor antagonist compare
PP_5346 -1.2 -4.7 pyruvate carboxylase subunit B compare
PP_4803 -1.1 -4.7 D-alanyl-D-alanine carboxypeptidase compare
PP_2390 -1.1 -4.6 Transcriptional regulator, LysR family compare
PP_0185 -1.1 -6.5 Positive alginate biosynthesis regulatory protein compare
PP_5090 -1.1 -1.9 putative cell division protein compare
PP_0630 -1.1 -1.2 DNA gyrase inhibitor YacG compare
PP_5644 -1.1 -1.7 conserved membrane protein of unknown function compare
PP_3434 -1.1 -2.6 conserved protein of unknown function compare
PP_4204 -1.1 -3.0 antitoxin of the type II toxin-antitoxin MqsRA system and DNA-binding transcriptional repressor compare
PP_3695 -1.1 -4.1 conserved protein of unknown function compare
PP_2280 -1.1 -1.4 conserved protein of unknown function compare
PP_0948 -1.1 -1.5 Phosphocarrier protein HPr compare
PP_3926 -1.1 -1.8 short-chain dehydrogenase compare
PP_4358 -1.1 -4.2 flagellar synthesis, switching and energizing component compare
PP_1216 -1.1 -1.6 Holliday junction ATP-dependent DNA helicase RuvA compare
PP_4065 -1.1 -4.6 methylcrotonyl-CoA carboxylase biotin-containing subunit beta compare
PP_4700 -1.1 -0.7 pantothenate synthetase compare
PP_1632 -1.1 -1.6 conserved protein of unknown function compare
PP_4892 -1.1 -3.6 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_5058 -1.0 -3.1 Carboxy-terminal-processing protease compare
PP_4879 -1.0 -2.5 23S rRNA (guanosine-2'-O-)-methyltransferase RlmB compare
PP_0914 -1.0 -5.4 GGDEF domain protein compare
PP_3596 -1.0 -3.5 D-lysine oxidase compare
PP_3916 -1.0 -1.8 conserved protein of unknown function compare
PP_1691 -1.0 -3.0 conserved protein of unknown function compare
PP_4066 -1.0 -2.3 methylglutaconyl-CoA hydratase compare
PP_1041 -1.0 -2.2 twin arginine protein export complex subunit compare
PP_1079 -1.0 -2.7 Ornithine carbamoyltransferase compare
PP_1788 -1.0 -2.5 conserved protein of unknown function compare
PP_4988 -1.0 -3.9 signal transduction histidine kinase CheA/CheY-like receiver compare
PP_4398 -1.0 -6.5 Major facilitator family transporter compare
PP_5084 -1.0 -4.8 penicillin-insensitive transglycosylase/penicillin-sensitive transpeptidase compare
PP_4343 -1.0 -3.3 Flagellar biosynthesis protein FlhF compare
PP_3580 -1.0 -1.4 conserved protein of unknown function compare
PP_2169 -1.0 -4.2 tRNA-dihydrouridine synthase A compare
PP_0435 -1.0 -4.5 Peptidase, M23/M37 family compare
PP_0413 -1.0 -6.8 Polyamine ABC transporter, permease protein compare
PP_2568 -1.0 -1.3 Ring-cleaving dioxygenase compare
PP_5705 -0.9 -1.9 protein of unknown function compare
PP_2429 -0.9 -1.9 putative Membrane protein compare
PP_4952 -0.9 -1.7 ATP-dependent RNA helicase, specific for 23S rRNA compare
PP_4593 -0.9 -1.8 conserved protein of unknown function compare
PP_4620 -0.9 -5.2 Fumarylacetoacetase compare
PP_3105 -0.9 -1.2 conserved membrane protein of unknown function compare
PP_2402 -0.9 -1.2 putative Sensor histidine kinase compare
PP_2847 -0.9 -1.5 Urease accessory protein UreJ compare
PP_0839 -0.9 -2.2 tRNA Cm32/Um32 methyltransferase compare
PP_4180 -0.9 -2.4 conserved protein of unknown function compare
PP_2348 -0.9 -3.7 Sensor histidine kinase compare
PP_2929 -0.9 -4.2 Carboxynorspermidine/carboxyspermidine decarboxylase compare
PP_5507 -0.9 -1.6 protein of unknown function compare
PP_2168 -0.9 -3.3 Transaldolase compare
PP_3409 -0.9 -1.9 putative Cobalamin biosynthesis protein cobE compare


Specific Phenotypes

None in this experiment

For Pseudomonas putida KT2440 in soil experiments

For soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs across organisms