Experiment set23IT081 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=144_hrs

200 most important genes:

  gene name fitness t score description  
PP_1623 -7.0 -9.6 RNA polymerase, sigma S (sigma 38) factor compare
PP_0164 -5.0 -3.4 conserved protein of unknown function compare
PP_0951 -4.3 -9.6 Ribosome hibernation promoting factor compare
PP_5014 -4.3 -4.2 Phosphoribosyl-AMP cyclohydrolase compare
PP_3484 -4.1 -6.2 Response regulator receiver protein compare
PP_4342 -3.7 -4.3 flagellar synthesis regulator, putative ATPase compare
PP_4902 -3.5 -4.1 Oligoribonuclease compare
PP_4058 -3.2 -12.3 1,4-alpha-glucan branching enzyme compare
PP_1898 -3.1 -4.0 MotA/TolQ/ExbB proton channel family protein compare
PP_0967 -3.1 -9.1 histidinol-phosphate aminotransferase (EC 2.6.1.9) (from data) compare
PP_1198 -3.1 -4.2 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_0396 -2.9 -12.9 conserved protein of unknown function compare
PP_4994 -2.8 -6.2 conserved protein of unknown function compare
PP_2402 -2.7 -1.9 putative Sensor histidine kinase compare
PP_4726 -2.7 -3.6 Chaperone protein DnaJ compare
PP_1088 -2.7 -10.2 Argininosuccinate synthase compare
PP_0290 -2.7 -6.4 Imidazole glycerol phosphate synthase subunit HisH compare
PP_5289 -2.7 -4.4 Acetylglutamate kinase compare
PP_1237 -2.6 -2.3 4-hydroxy-tetrahydrodipicolinate synthase compare
PP_1778 -2.6 -5.9 Lipopolysaccharide ABC export system, permease protein compare
PP_0293 -2.5 -1.8 Imidazole glycerol phosphate synthase subunit HisF compare
PP_1142 -2.5 -1.9 conserved protein of unknown function compare
PP_1764 -2.5 -3.7 Phosphoglycolate phosphatase 2 compare
PP_5502 -2.4 -4.1 ribosome modulation factor compare
PP_1988 -2.4 -8.2 3-isopropylmalate dehydrogenase compare
PP_2302 -2.3 -4.9 DNA-binding, ATP-dependent protease compare
PP_0395 -2.3 -11.2 putative type IV piliation protein compare
PP_0289 -2.3 -6.4 Imidazoleglycerol-phosphate dehydratase compare
PP_4874 -2.2 -1.5 50S ribosomal protein L9 compare
PP_5309 -2.2 -1.5 oxidative and nitrosative stress transcriptional dual regulator compare
PP_5114 -2.2 -2.7 putative adenine methyltransferase compare
PP_0184 -2.2 -5.1 Argininosuccinate lyase compare
PP_1269 -2.1 -1.8 Universal stress protein family compare
PP_1994 -2.0 -2.0 tRNA pseudouridine (38-40)synthase compare
PP_0397 -2.0 -10.3 protein kinase compare
PP_4880 -2.0 -8.8 exoribonuclease R compare
PP_0966 -2.0 -6.7 Histidinol dehydrogenase compare
PP_0832 -2.0 -4.1 S-adenosylmethionine:tRNA ribosyltransferase-isomerase compare
PP_1224 -2.0 -6.1 periplasmic subunit of the TolQRA transport system compare
PP_1779 -2.0 -5.7 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_3833 -1.9 -3.5 Response regulator compare
PP_1734 -1.9 -3.2 Probable septum site-determining protein MinC compare
PP_1733 -1.9 -2.9 membrane ATPase of the MinC-MinD-MinE system compare
PP_5145 -1.9 -15.0 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_5128 -1.9 -6.8 Dihydroxy-acid dehydratase compare
PP_4546 -1.9 -3.6 ATP-dependent helicase HrpA compare
PP_4910 -1.9 -3.8 conserved protein of unknown function compare
PP_5514 -1.9 -1.7 conserved protein of unknown function compare
PP_4131 -1.9 -3.3 NADH-quinone oxidoreductase subunit N compare
PP_3511 -1.8 -8.3 Branched-chain-amino-acid aminotransferase compare
PP_1986 -1.8 -3.7 3-isopropylmalate dehydratase small subunit compare
PP_5185 -1.8 -5.1 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_4942 -1.8 -2.6 conserved protein of unknown function compare
PP_0914 -1.7 -7.0 GGDEF domain protein compare
PP_5045 -1.7 -4.3 tRNA sulfurtransferase compare
PP_2862 -1.7 -6.0 Undecaprenyl-diphosphatase compare
PP_4890 -1.7 -6.0 ATP phosphoribosyltransferase regulatory subunit compare
PP_4121 -1.7 -3.5 NADH-quinone oxidoreductase subunit C/D compare
PP_4517 -1.7 -2.6 conserved protein of unknown function compare
PP_4678 -1.7 -9.5 Ketol-acid reductoisomerase compare
PP_1985 -1.7 -5.8 3-isopropylmalate dehydratase large subunit compare
PP_4471 -1.7 -3.7 Magnesium transporter compare
PP_4143 -1.6 -5.2 conserved protein of unknown function compare
PP_4680 -1.6 -9.7 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_5338 -1.6 -3.7 aspartate ammonia-lyase compare
PP_2378 -1.6 -2.4 Fe/S biogenesis protein NfuA compare
PP_2327 -1.6 -3.8 transcriptional dual regulator / CysB-O-acetyl-L-serine compare
PP_4943 -1.6 -1.9 putative Glycosyl transferase compare
PP_0965 -1.6 -6.3 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
PP_4892 -1.5 -4.9 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_4379 -1.5 -3.3 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_1318 -1.5 -6.1 Cytochrome b compare
PP_0435 -1.5 -5.4 Peptidase, M23/M37 family compare
PP_5015 -1.5 -4.3 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
PP_5146 -1.5 -6.5 RNA pyrophosphohydrolase compare
PP_1217 -1.5 -4.2 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_0292 -1.5 -2.3 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
PP_5327 -1.4 -1.9 putative phosphate ABC transporter, permease subunit compare
PP_5217 -1.4 -10.0 Polyphosphate kinase compare
PP_4124 -1.4 -2.9 NADH-quinone oxidoreductase subunit G compare
PP_1025 -1.4 -8.1 2-isopropylmalate synthase compare
PP_4993 -1.4 -3.4 Glutathione synthetase compare
PP_4679 -1.4 -3.6 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_4642 -1.3 -1.5 Cyclic diguanosine monophosphate-binding protein compare
PP_5350 -1.3 -3.0 Transcriptional regulator, RpiR family compare
PP_4785 -1.3 -4.3 conserved exported protein of unknown function compare
PP_1783 -1.3 -1.5 dTDP-glucose pyrophosphorylase compare
PP_4532 -1.3 -2.7 ATP-dependent DEAD-box RNA helicase require for 50S ribosomal subunit biogenesis compare
PP_2899 -1.3 -1.8 conserved exported protein of unknown function compare
PP_0001 -1.3 -1.9 probable chromosome-partitioning protein compare
PP_5486 -1.3 -1.7 conserved protein of unknown function compare
PP_1366 -1.3 -1.4 Transcriptional regulator MvaT, P16 subunit compare
PP_4065 -1.3 -5.7 methylcrotonyl-CoA carboxylase biotin-containing subunit beta compare
PP_5346 -1.3 -4.3 pyruvate carboxylase subunit B compare
PP_4133 -1.3 -2.4 Transcriptional regulator-related protein compare
PP_0789 -1.2 -4.0 N-acetyl-anhydromuramyl-L-alanine-amidase compare
PP_1079 -1.2 -4.7 Ornithine carbamoyltransferase compare
PP_0123 -1.2 -5.1 DNA polymerase I, 5 compare
PP_4696 -1.2 -3.4 Nitrogen regulation protein NR(I) compare
PP_1493 -1.2 -1.9 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_2217 -1.2 -2.1 enoyl-CoA hydratase compare
PP_4561 -1.2 -1.2 stress response protein compare
PP_1691 -1.2 -3.1 conserved protein of unknown function compare
PP_5274 -1.2 -2.4 conserved protein of unknown function compare
PP_2348 -1.2 -5.5 Sensor histidine kinase compare
PP_4361 -1.2 -5.4 Flagellar hook-length control protein FliK compare
PP_4130 -1.2 -3.4 NADH:ubiquinone oxidoreductase, membrane subunit M compare
PP_0872 -1.1 -4.4 Peptide chain release factor 3 compare
PP_5216 -1.1 -1.5 exopolyphosphatase compare
PP_4067 -1.1 -4.9 methylcrotonyl-CoA carboxylase biotin-containing subunit alpha compare
PP_0083 -1.1 -4.4 tryptophan synthase beta chain compare
PP_5475 -1.1 -1.7 conserved protein of unknown function compare
PP_5294 -1.1 -4.6 Ribonuclease PH compare
PP_5328 -1.1 -1.7 putative phosphate transport system permease protein compare
PP_4944 -1.1 -2.3 Carbamoyltransferase compare
PP_1860 -1.1 -3.6 Organic hydroperoxide resistance transcriptional regulator compare
PP_4356 -1.1 -3.1 Flagellar protein FliO compare
PP_5347 -1.1 -5.7 pyruvate carboxylase subunit A compare
PP_0888 -1.0 -1.8 Photosynthetic apparatus regulatory protein RegA compare
PP_1468 -1.0 -1.1 Tyrosine recombinase XerD compare
PP_1355 -1.0 -5.8 Muropeptide permease AmpG compare
PP_4940 -1.0 -6.4 Putative glycosyltransferase compare
PP_4261 -1.0 -4.0 cation-transporting P-type ATPase compare
PP_0984 -1.0 -2.0 conserved membrane protein of unknown function compare
PP_1319 -1.0 -2.3 Ubiquinol--cytochrome c reductase, cytochrome c1 compare
PP_1055 -1.0 -1.2 Type II secretion pathway protein GspN compare
PP_0823 -1.0 -5.5 Selenide, water dikinase compare
PP_4398 -1.0 -5.8 Major facilitator family transporter compare
PP_4937 -1.0 -3.5 toluene tolerance protein compare
PP_0846 -1.0 -0.8 DnaK-like molecular chaperone specific for IscU compare
PP_5000 -1.0 -1.3 peptidase component of the ATP-dependent HslVU protease compare
PP_4803 -1.0 -4.7 D-alanyl-D-alanine carboxypeptidase compare
PP_4009 -1.0 -3.0 ATP-dependent Clp protease adapter protein ClpS compare
PP_1763 -1.0 -1.8 putative oxidoreductase compare
PP_1099 -1.0 -1.4 Cold shock protein CapB compare
PP_4008 -1.0 -3.5 ATP-dependent serine protease compare
PP_3946 -1.0 -1.3 HTH-type transcriptional repressor NicR compare
PP_1906 -1.0 -2.6 ribosomal large subunit pseudouridine synthase C compare
PP_4375 -1.0 -4.5 flagellar chaperone, inhibits premature FliC assembly compare
PP_4575 -0.9 -3.5 Urea amidolyase-related protein compare
PP_3695 -0.9 -4.1 conserved protein of unknown function compare
PP_5313 -0.9 -1.6 DNA-binding protein HU-alpha compare
PP_0760 -0.9 -2.6 conserved membrane protein of unknown function compare
PP_1845 -0.9 -3.4 Enoyl-CoA hydratase/isomerase family protein compare
PP_4591 -0.9 -3.5 Ribonuclease D compare
PP_4004 -0.9 -2.1 DNA translocase FtsK compare
PP_4368 -0.9 -3.1 flagellar motor switch protein compare
PP_5230 -0.9 -2.3 Tyrosine recombinase XerC compare
PP_3447 -0.9 -1.4 conserved membrane protein of unknown function compare
PP_4337 -0.9 -4.8 chemotaxis response regulator protein-glutamate methylesterase of group 1 operon compare
PP_0504 -0.9 -2.6 Outer membrane protein OprG compare
PP_2903 -0.9 -1.6 peptidyl-prolyl cis-trans isomerase B (rotamase B) compare
PP_4364 -0.9 -1.6 putative Anti-sigma F factor antagonist compare
PP_2322 -0.9 -4.2 Major outer membrane lipoprotein compare
PP_4354 -0.9 -2.3 flagellar export apparatus subunit compare
PP_3730 -0.9 -2.4 Transcriptional regulatory protein AruR compare
PP_4370 -0.9 -2.7 Flagellar hook-basal body complex protein FliE compare
PP_5483 -0.9 -1.4 conserved protein of unknown function compare
PP_5310 -0.9 -3.5 junction-specific ATP-dependent DNA helicase compare
PP_2846 -0.9 -2.7 urease accessory protein compare
PP_4268 -0.9 -1.2 nucleoid-associated broad specificity regulator compare
PP_0972 -0.9 -1.1 UPF0213 protein PP_0972 compare
PP_4941 -0.9 -3.6 conserved exported protein of unknown function compare
PP_0368 -0.9 -6.3 putative Acyl-CoA dehydrogenase compare
PP_1317 -0.9 -3.3 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_0547 -0.9 -2.4 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_5329 -0.9 -1.3 putative phosphate ABC transporter, periplasmic phosphate-binding protein compare
PP_0735 -0.9 -1.0 molybdopterin-synthase adenylyltransferase compare
PP_0949 -0.9 -2.7 putative ATP-binding protein UPF0042 compare
PP_4891 -0.9 -3.0 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_0434 -0.9 -3.3 Anhydro-N-acetylmuramic acid kinase compare
PP_4666 -0.8 -4.7 3-hydroxyisobutyrate dehydrogenase compare
PP_4815 -0.8 -3.9 putative Membrane protein compare
PP_4909 -0.8 -3.0 phosphoserine phosphatase compare
PP_2437 -0.8 -4.6 putative Acyl-CoA dehydrogenase compare
PP_5583 -0.8 -1.7 conserved protein of unknown function compare
PP_0185 -0.8 -4.8 Positive alginate biosynthesis regulatory protein compare
PP_4120 -0.8 -1.3 NADH-quinone oxidoreductase subunit B compare
PP_5609 -0.8 -2.1 conserved protein of unknown function compare
PP_4824 -0.8 -3.6 Sensor histidine kinase/response regulator compare
PP_4054 -0.8 -2.2 conserved protein of unknown function compare
PP_2286 -0.8 -3.1 conserved protein of unknown function compare
PP_2169 -0.8 -3.5 tRNA-dihydrouridine synthase A compare
PP_0959 -0.8 -1.6 phospholipid ABC transporter compare
PP_0405 -0.8 -4.0 conserved protein of unknown function compare
PP_3821 -0.8 -4.5 UTP-glucose-1-phosphate uridylyltransferase compare
PP_2214 -0.8 -1.6 3-hydroxyacyl-CoA dehydrogenase type-2 compare
PP_1864 -0.8 -2.6 conserved protein of unknown function compare
PP_1605 -0.8 -2.3 Ribonuclease HII compare
PP_0556 -0.8 -1.4 Acetoin catabolism protein compare
PP_0833 -0.8 -0.5 queuine tRNA-ribosyltransferase compare
PP_2144 -0.8 -1.4 Transcriptional regulator, TetR family compare
PP_5198 -0.8 -1.9 conserved protein of unknown function compare
PP_5095 -0.8 -0.5 pyrroline-5-carboxylate reductase compare
PP_4204 -0.8 -2.7 antitoxin of the type II toxin-antitoxin MqsRA system and DNA-binding transcriptional repressor compare
PP_2844 -0.8 -1.8 Urease subunit beta compare
PP_3883 -0.8 -2.0 putative Phage holin compare
PP_0002 -0.8 -3.6 probable chromosome partition protein compare
PP_4358 -0.8 -3.5 flagellar synthesis, switching and energizing component compare
PP_2390 -0.8 -4.0 Transcriptional regulator, LysR family compare


Specific Phenotypes

For 3 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=144_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=144_hrs across organisms