Experiment set23IT057 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=72_hrs

200 most important genes:

  gene name fitness t score description  
PP_0164 -5.0 -3.5 conserved protein of unknown function compare
PP_5289 -4.9 -3.3 Acetylglutamate kinase compare
PP_1898 -4.8 -4.6 MotA/TolQ/ExbB proton channel family protein compare
PP_1623 -3.7 -12.8 RNA polymerase, sigma S (sigma 38) factor compare
PP_0292 -3.6 -4.2 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
PP_0290 -3.0 -7.5 Imidazole glycerol phosphate synthase subunit HisH compare
PP_4058 -3.0 -10.4 1,4-alpha-glucan branching enzyme compare
PP_5185 -2.9 -6.1 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_5328 -2.8 -1.9 putative phosphate transport system permease protein compare
PP_1088 -2.7 -9.8 Argininosuccinate synthase compare
PP_4994 -2.7 -6.3 conserved protein of unknown function compare
PP_1493 -2.7 -4.2 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_0184 -2.7 -5.1 Argininosuccinate lyase compare
PP_1986 -2.4 -4.2 3-isopropylmalate dehydratase small subunit compare
PP_0289 -2.4 -8.9 Imidazoleglycerol-phosphate dehydratase compare
PP_4098 -2.3 -3.2 UvrABC system protein C compare
PP_5014 -2.3 -3.6 Phosphoribosyl-AMP cyclohydrolase compare
PP_4263 -2.3 -4.6 putative membrane-bounded cytochrome biogenesis cycZ-like domain, copper tolerance protein compare
PP_0966 -2.3 -9.3 Histidinol dehydrogenase compare
PP_0293 -2.2 -2.4 Imidazole glycerol phosphate synthase subunit HisF compare
PP_1428 -2.2 -2.1 Sigma factor AlgU negative regulatory protein compare
PP_2214 -2.1 -4.1 3-hydroxyacyl-CoA dehydrogenase type-2 compare
PP_1988 -2.1 -7.2 3-isopropylmalate dehydrogenase compare
PP_0967 -2.0 -9.8 histidinol-phosphate aminotransferase (EC 2.6.1.9) (from data) compare
PP_4066 -2.0 -3.8 methylglutaconyl-CoA hydratase compare
PP_4880 -2.0 -8.9 exoribonuclease R compare
PP_4342 -2.0 -4.2 flagellar synthesis regulator, putative ATPase compare
PP_3484 -2.0 -5.1 Response regulator receiver protein compare
PP_4902 -2.0 -3.4 Oligoribonuclease compare
PP_4008 -1.9 -7.8 ATP-dependent serine protease compare
PP_1783 -1.9 -1.3 dTDP-glucose pyrophosphorylase compare
PP_1734 -1.9 -2.9 Probable septum site-determining protein MinC compare
PP_0760 -1.9 -2.5 conserved membrane protein of unknown function compare
PP_1733 -1.9 -3.1 membrane ATPase of the MinC-MinD-MinE system compare
PP_1142 -1.8 -1.9 conserved protein of unknown function compare
PP_4943 -1.8 -2.4 putative Glycosyl transferase compare
PP_0965 -1.8 -9.8 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
PP_5217 -1.8 -12.2 Polyphosphate kinase compare
PP_4726 -1.8 -3.3 Chaperone protein DnaJ compare
PP_2145 -1.7 -2.9 beta-N-acetylglucosaminidase compare
PP_1217 -1.7 -5.0 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_3511 -1.7 -8.0 Branched-chain-amino-acid aminotransferase compare
PP_5456 -1.7 -1.9 conserved protein of unknown function compare
PP_1985 -1.7 -5.3 3-isopropylmalate dehydratase large subunit compare
PP_4131 -1.7 -3.5 NADH-quinone oxidoreductase subunit N compare
PP_1994 -1.6 -1.9 tRNA pseudouridine (38-40)synthase compare
PP_4364 -1.6 -4.1 putative Anti-sigma F factor antagonist compare
PP_4004 -1.6 -3.6 DNA translocase FtsK compare
PP_4680 -1.6 -10.4 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_0888 -1.6 -2.9 Photosynthetic apparatus regulatory protein RegA compare
PP_1198 -1.6 -2.2 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_4121 -1.6 -3.7 NADH-quinone oxidoreductase subunit C/D compare
PP_4471 -1.5 -3.3 Magnesium transporter compare
PP_5015 -1.5 -4.2 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
PP_2862 -1.5 -6.3 Undecaprenyl-diphosphatase compare
PP_0218 -1.5 -7.2 Sensory box protein compare
PP_0951 -1.5 -6.2 Ribosome hibernation promoting factor compare
PP_0291 -1.5 -2.6 conserved protein of unknown function compare
PP_4124 -1.5 -2.8 NADH-quinone oxidoreductase subunit G compare
PP_5475 -1.5 -1.5 conserved protein of unknown function compare
PP_2144 -1.5 -3.7 Transcriptional regulator, TetR family compare
PP_5327 -1.5 -2.0 putative phosphate ABC transporter, permease subunit compare
PP_4679 -1.5 -4.2 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_4546 -1.5 -3.4 ATP-dependent helicase HrpA compare
PP_5514 -1.4 -1.2 conserved protein of unknown function compare
PP_1764 -1.4 -2.6 Phosphoglycolate phosphatase 2 compare
PP_2402 -1.4 -1.9 putative Sensor histidine kinase compare
PP_2378 -1.4 -2.5 Fe/S biogenesis protein NfuA compare
PP_4129 -1.4 -2.7 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_4678 -1.4 -8.7 Ketol-acid reductoisomerase compare
PP_5028 -1.4 -2.8 proline iminopeptidase compare
PP_4379 -1.4 -3.2 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_1237 -1.3 -1.6 4-hydroxy-tetrahydrodipicolinate synthase compare
PP_4892 -1.3 -4.6 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_4067 -1.3 -5.4 methylcrotonyl-CoA carboxylase biotin-containing subunit alpha compare
PP_4909 -1.3 -5.4 phosphoserine phosphatase compare
PP_0484 -1.3 -4.8 transporter of an unknown substrate compare
PP_0735 -1.3 -1.6 molybdopterin-synthase adenylyltransferase compare
PP_4993 -1.3 -3.9 Glutathione synthetase compare
PP_1319 -1.3 -4.7 Ubiquinol--cytochrome c reductase, cytochrome c1 compare
PP_4964 -1.3 -2.5 D-erythrose 4-phosphate dehydrogenase compare
PP_4944 -1.3 -2.7 Carbamoyltransferase compare
PP_4890 -1.3 -3.8 ATP phosphoribosyltransferase regulatory subunit compare
PP_1079 -1.3 -5.0 Ornithine carbamoyltransferase compare
PP_2370 -1.3 -2.9 conserved protein of unknown function compare
PP_1778 -1.2 -4.4 Lipopolysaccharide ABC export system, permease protein compare
PP_4354 -1.2 -4.1 flagellar export apparatus subunit compare
PP_0127 -1.2 -3.5 Thiol:disulfide interchange protein compare
PP_1025 -1.2 -7.6 2-isopropylmalate synthase compare
PP_5110 -1.2 -2.2 cytokinetic ring ABC transporter-like subunit - ATP-binding subunit compare
PP_4396 -1.2 -3.3 conserved protein of unknown function compare
PP_4532 -1.2 -2.2 ATP-dependent DEAD-box RNA helicase require for 50S ribosomal subunit biogenesis compare
PP_5093 -1.2 -1.7 twitching motility protein compare
PP_4785 -1.2 -4.2 conserved exported protein of unknown function compare
PP_0396 -1.2 -8.1 conserved protein of unknown function compare
PP_5128 -1.2 -5.1 Dihydroxy-acid dehydratase compare
PP_0435 -1.2 -5.5 Peptidase, M23/M37 family compare
PP_1215 -1.2 -1.2 Crossover junction endodeoxyribonuclease RuvC compare
PP_0628 -1.2 -3.3 conserved protein of unknown function compare
PP_5045 -1.1 -2.7 tRNA sulfurtransferase compare
PP_2327 -1.1 -3.4 transcriptional dual regulator / CysB-O-acetyl-L-serine compare
PP_1779 -1.1 -4.7 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_1317 -1.1 -3.8 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_4253 -1.1 -1.8 cytochrome c oxidase subunit, cbb3-type compare
PP_0397 -1.1 -8.2 protein kinase compare
PP_1344 -1.1 -1.6 conserved protein of unknown function compare
PP_1224 -1.1 -4.1 periplasmic subunit of the TolQRA transport system compare
PP_4941 -1.1 -4.5 conserved exported protein of unknown function compare
PP_2820 -1.1 -1.8 HTH-type transcriptional regulator nfxB compare
PP_4120 -1.1 -1.8 NADH-quinone oxidoreductase subunit B compare
PP_4338 -1.1 -6.5 Chemotaxis histidine kinase CheA compare
PP_4870 -1.1 -2.8 Azurin compare
PP_4130 -1.1 -2.8 NADH:ubiquinone oxidoreductase, membrane subunit M compare
PP_1468 -1.1 -2.2 Tyrosine recombinase XerD compare
PP_0547 -1.1 -3.7 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_2414 -1.0 -0.8 conserved exported protein of unknown function compare
PP_3695 -1.0 -4.2 conserved protein of unknown function compare
PP_0119 -1.0 -2.7 putative zinc uptake regulation protein ZUR compare
PP_0082 -1.0 -4.1 tryptophan synthase alpha chain compare
PP_0001 -1.0 -1.6 probable chromosome-partitioning protein compare
PP_4126 -1.0 -0.9 NADH-quinone oxidoreductase subunit I compare
PP_5338 -1.0 -2.1 aspartate ammonia-lyase compare
PP_0593 -1.0 -1.1 putative ribosome-binding factor compare
PP_2302 -1.0 -3.1 DNA-binding, ATP-dependent protease compare
PP_5309 -1.0 -2.1 oxidative and nitrosative stress transcriptional dual regulator compare
PP_4368 -1.0 -3.5 flagellar motor switch protein compare
PP_1860 -1.0 -3.7 Organic hydroperoxide resistance transcriptional regulator compare
PP_4814 -1.0 -3.0 ATP-dependent protease La domain protein compare
PP_4696 -1.0 -2.8 Nitrogen regulation protein NR(I) compare
PP_0232 -1.0 -1.4 ATP-binding taurine transporter subunit compare
PP_5329 -1.0 -1.4 putative phosphate ABC transporter, periplasmic phosphate-binding protein compare
PP_4340 -1.0 -3.7 response regulator for chemotactic signal transduction compare
PP_3649 -0.9 -3.3 Transcriptional regulator, GntR family compare
PP_4358 -0.9 -3.4 flagellar synthesis, switching and energizing component compare
PP_0673 -0.9 -1.3 conserved protein of unknown function compare
PP_4065 -0.9 -4.3 methylcrotonyl-CoA carboxylase biotin-containing subunit beta compare
PP_0065 -0.9 -2.2 NAD-binding component of TrK potassium transporter compare
PP_2286 -0.9 -3.2 conserved protein of unknown function compare
PP_0833 -0.9 -0.6 queuine tRNA-ribosyltransferase compare
PP_1629 -0.9 -3.1 Protein RecA compare
PP_0395 -0.9 -6.6 putative type IV piliation protein compare
PP_4367 -0.9 -2.8 Flagellar assembly protein FliH compare
PP_1216 -0.9 -1.9 Holliday junction ATP-dependent DNA helicase RuvA compare
PP_4383 -0.9 -3.4 Flagellar P-ring protein compare
PP_2028 -0.9 -2.8 conserved protein of unknown function containing tetratricopeptide (TPR) domain repeat compare
PP_5533 -0.9 -1.7 conserved protein of unknown function compare
PP_5095 -0.9 -0.6 pyrroline-5-carboxylate reductase compare
PP_1355 -0.9 -5.2 Muropeptide permease AmpG compare
PP_1829 -0.8 -2.1 Hydrolase, alpha/beta fold family compare
PP_0406 -0.8 -1.7 Nucleotidyltransferase family protein compare
PP_4988 -0.8 -4.0 signal transduction histidine kinase CheA/CheY-like receiver compare
PP_3833 -0.8 -2.5 Response regulator compare
PP_0273 -0.8 -2.5 conserved protein of unknown function compare
PP_2929 -0.8 -4.9 Carboxynorspermidine/carboxyspermidine decarboxylase compare
PP_5294 -0.8 -3.3 Ribonuclease PH compare
PP_5143 -0.8 -2.4 conserved membrane protein of unknown function compare
PP_2976 -0.8 -1.7 putative transposase compare
PP_0405 -0.8 -4.4 conserved protein of unknown function compare
PP_1598 -0.8 -3.2 regulatory intramembrane protein RIP zinc protease compare
PP_4369 -0.8 -4.2 Flagellar M-ring protein compare
PP_3808 -0.8 -1.3 Antibiotic synthesis protein MbtH compare
PP_1906 -0.8 -1.8 ribosomal large subunit pseudouridine synthase C compare
PP_1186 -0.8 -1.7 two component system DNA-binding transcriptional dual regulator compare
PP_4343 -0.8 -3.3 Flagellar biosynthesis protein FlhF compare
PP_4261 -0.8 -3.0 cation-transporting P-type ATPase compare
PP_5146 -0.8 -4.1 RNA pyrophosphohydrolase compare
PP_2348 -0.8 -3.4 Sensor histidine kinase compare
PP_4804 -0.8 -0.7 RlpA-like lipoprotein compare
PP_1026 -0.8 -2.5 Peptidase, M23/M37 family compare
PP_0757 -0.8 -2.7 conserved protein of unknown function compare
PP_0356 -0.8 -3.6 malate synthase G compare
PP_4561 -0.8 -0.9 stress response protein compare
PP_5055 -0.8 -2.4 Sulfurtransferase compare
PP_0312 -0.8 -3.0 electron transfer flavoprotein, alpha subunit compare
PP_5000 -0.7 -1.3 peptidase component of the ATP-dependent HslVU protease compare
PP_0913 -0.7 -4.6 conserved exported protein of unknown function compare
PP_4069 -0.7 -2.0 conserved protein of unknown function compare
PP_4362 -0.7 -2.1 conserved protein of unknown function compare
PP_0434 -0.7 -3.0 Anhydro-N-acetylmuramic acid kinase compare
PP_5350 -0.7 -1.7 Transcriptional regulator, RpiR family compare
PP_0980 -0.7 -3.0 Probable cytosol aminopeptidase compare
PP_4370 -0.7 -3.0 Flagellar hook-basal body complex protein FliE compare
PP_4697 -0.7 -1.5 poly(A) polymerase compare
PP_0872 -0.7 -3.2 Peptide chain release factor 3 compare
PP_0313 -0.7 -1.8 putative electron transfer flavoprotein beta subunit compare
PP_4591 -0.7 -2.5 Ribonuclease D compare
PP_5310 -0.7 -2.4 junction-specific ATP-dependent DNA helicase compare
PP_5313 -0.7 -1.9 DNA-binding protein HU-alpha compare
PP_0274 -0.7 -1.6 putative transcriptional regulator containing HTH domain compare
PP_5216 -0.7 -1.1 exopolyphosphatase compare
PP_2337 -0.7 -1.3 aconitate isomerase compare
PP_4816 -0.7 -3.9 conserved protein of unknown function compare
PP_2160 -0.7 -2.1 NADPH-dependent 7-cyano-7-deazaguanine reductase compare
PP_4375 -0.7 -3.4 flagellar chaperone, inhibits premature FliC assembly compare
PP_2088 -0.7 -1.7 RNA polymerase sigma factor SigX compare
PP_4356 -0.7 -1.7 Flagellar protein FliO compare
PP_4891 -0.7 -2.2 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_0504 -0.7 -2.4 Outer membrane protein OprG compare
PP_4392 -0.7 -3.6 chemotaxis protein methyltransferase compare
PP_2371 -0.7 -2.9 Sulphite reductase hemoprotein, beta subunit 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_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs across organisms