Experiment set24IT079 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=none; SoilTreatmentTime=144_hrs

200 most important genes:

  gene name fitness t score description  
PP_1623 -7.6 -14.4 RNA polymerase, sigma S (sigma 38) factor compare
PP_3484 -6.1 -5.9 Response regulator receiver protein compare
PP_1468 -5.5 -3.8 Tyrosine recombinase XerD compare
PP_0164 -5.4 -3.8 conserved protein of unknown function compare
PP_5309 -4.6 -3.2 oxidative and nitrosative stress transcriptional dual regulator compare
PP_1216 -4.4 -4.5 Holliday junction ATP-dependent DNA helicase RuvA compare
PP_1734 -4.1 -2.8 Probable septum site-determining protein MinC compare
PP_0293 -3.9 -2.4 Imidazole glycerol phosphate synthase subunit HisF compare
PP_1898 -3.6 -3.9 MotA/TolQ/ExbB proton channel family protein compare
PP_0951 -3.4 -9.4 Ribosome hibernation promoting factor compare
PP_5015 -3.4 -4.5 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
PP_5502 -3.2 -5.3 ribosome modulation factor compare
PP_4902 -3.1 -3.6 Oligoribonuclease compare
PP_5289 -3.0 -3.6 Acetylglutamate kinase compare
PP_0967 -3.0 -10.5 histidinol-phosphate aminotransferase (EC 2.6.1.9) (from data) compare
PP_1198 -3.0 -3.7 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_4342 -2.9 -2.8 flagellar synthesis regulator, putative ATPase compare
PP_0184 -2.9 -4.8 Argininosuccinate lyase compare
PP_0290 -2.9 -7.6 Imidazole glycerol phosphate synthase subunit HisH compare
PP_0292 -2.9 -2.6 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
PP_1088 -2.8 -10.1 Argininosuccinate synthase compare
PP_5185 -2.7 -6.8 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_0395 -2.7 -11.4 putative type IV piliation protein compare
PP_0966 -2.6 -8.2 Histidinol dehydrogenase compare
PP_0846 -2.6 -1.6 DnaK-like molecular chaperone specific for IscU compare
PP_4696 -2.6 -4.3 Nitrogen regulation protein NR(I) compare
PP_1986 -2.6 -4.6 3-isopropylmalate dehydratase small subunit compare
PP_0965 -2.6 -8.0 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
PP_4058 -2.6 -11.7 1,4-alpha-glucan branching enzyme compare
PP_0397 -2.5 -12.1 protein kinase compare
PP_0396 -2.5 -10.1 conserved protein of unknown function compare
PP_4994 -2.5 -3.6 conserved protein of unknown function compare
PP_3511 -2.5 -6.3 Branched-chain-amino-acid aminotransferase compare
PP_1733 -2.4 -4.0 membrane ATPase of the MinC-MinD-MinE system compare
PP_1215 -2.4 -1.8 Crossover junction endodeoxyribonuclease RuvC compare
PP_4890 -2.4 -7.5 ATP phosphoribosyltransferase regulatory subunit compare
PP_2862 -2.4 -6.1 Undecaprenyl-diphosphatase compare
PP_4370 -2.4 -6.4 Flagellar hook-basal body complex protein FliE compare
PP_0914 -2.3 -9.6 GGDEF domain protein compare
PP_1493 -2.2 -2.4 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_4679 -2.2 -6.0 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_5128 -2.1 -6.6 Dihydroxy-acid dehydratase compare
PP_4943 -2.1 -2.7 putative Glycosyl transferase compare
PP_0888 -2.1 -2.7 Photosynthetic apparatus regulatory protein RegA compare
PP_4937 -2.1 -4.3 toluene tolerance protein compare
PP_0313 -2.1 -3.1 putative electron transfer flavoprotein beta subunit compare
PP_4143 -2.0 -4.5 conserved protein of unknown function compare
PP_4369 -2.0 -8.8 Flagellar M-ring protein compare
PP_4941 -2.0 -6.9 conserved exported protein of unknown function compare
PP_4004 -2.0 -4.9 DNA translocase FtsK compare
PP_0547 -2.0 -4.6 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_0289 -1.9 -5.5 Imidazoleglycerol-phosphate dehydratase compare
PP_0406 -1.9 -2.6 Nucleotidyltransferase family protein compare
PP_4680 -1.9 -8.8 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_3833 -1.9 -3.5 Response regulator compare
PP_5145 -1.9 -13.8 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_5230 -1.9 -3.2 Tyrosine recombinase XerC compare
PP_4880 -1.9 -7.9 exoribonuclease R compare
PP_2378 -1.9 -2.2 Fe/S biogenesis protein NfuA compare
PP_2414 -1.9 -2.4 conserved exported protein of unknown function compare
PP_0872 -1.8 -6.1 Peptide chain release factor 3 compare
PP_5327 -1.8 -2.5 putative phosphate ABC transporter, permease subunit compare
PP_4332 -1.8 -6.6 Chemotaxis protein CheW compare
PP_4678 -1.8 -9.7 Ketol-acid reductoisomerase compare
PP_4892 -1.8 -4.9 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_1079 -1.8 -5.5 Ornithine carbamoyltransferase compare
PP_3821 -1.8 -7.7 UTP-glucose-1-phosphate uridylyltransferase compare
PP_4131 -1.8 -3.5 NADH-quinone oxidoreductase subunit N compare
PP_2144 -1.7 -4.7 Transcriptional regulator, TetR family compare
PP_1097 -1.7 -1.9 Methionine--tRNA ligase compare
PP_4909 -1.7 -5.3 phosphoserine phosphatase compare
PP_1906 -1.7 -3.6 ribosomal large subunit pseudouridine synthase C compare
PP_4122 -1.7 -1.6 proton-pumping NADH:ubiquinone oxidoreductase, respiratory complex I, subunit E compare
PP_4368 -1.7 -4.2 flagellar motor switch protein compare
PP_4358 -1.7 -4.6 flagellar synthesis, switching and energizing component compare
PP_2348 -1.7 -4.2 Sensor histidine kinase compare
PP_1036 -1.7 -6.2 membrane-bound lytic murein transglycosylase F compare
PP_4396 -1.7 -4.1 conserved protein of unknown function compare
PP_1217 -1.7 -4.5 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_4364 -1.7 -4.2 putative Anti-sigma F factor antagonist compare
PP_5014 -1.6 -1.9 Phosphoribosyl-AMP cyclohydrolase compare
PP_4340 -1.6 -3.7 response regulator for chemotactic signal transduction compare
PP_4120 -1.6 -2.2 NADH-quinone oxidoreductase subunit B compare
PP_t10 -1.6 -1.9 tRNA-Pro compare
PP_2903 -1.6 -2.7 peptidyl-prolyl cis-trans isomerase B (rotamase B) compare
PP_1233 -1.6 -4.0 sulfurtransferase compare
PP_2370 -1.5 -3.0 conserved protein of unknown function compare
PP_1318 -1.5 -4.9 Cytochrome b compare
PP_1598 -1.5 -5.0 regulatory intramembrane protein RIP zinc protease compare
PP_1779 -1.5 -4.6 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_2847 -1.5 -1.9 Urease accessory protein UreJ compare
PP_5310 -1.5 -5.0 junction-specific ATP-dependent DNA helicase compare
PP_t12 -1.5 -1.1 tRNA-Thr compare
PP_4726 -1.5 -2.1 Chaperone protein DnaJ compare
PP_0760 -1.5 -4.3 conserved membrane protein of unknown function compare
PP_0789 -1.5 -4.1 N-acetyl-anhydromuramyl-L-alanine-amidase compare
PP_3946 -1.5 -1.5 HTH-type transcriptional repressor NicR compare
PP_4895 -1.5 -1.0 tRNA dimethylallyltransferase compare
PP_4356 -1.5 -3.5 Flagellar protein FliO compare
PP_4532 -1.5 -2.2 ATP-dependent DEAD-box RNA helicase require for 50S ribosomal subunit biogenesis compare
PP_1988 -1.4 -5.1 3-isopropylmalate dehydrogenase compare
PP_4381 -1.4 -8.7 Flagellar hook-associated protein FlgK compare
PP_4129 -1.4 -1.9 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_1778 -1.4 -4.1 Lipopolysaccharide ABC export system, permease protein compare
PP_4365 -1.4 -4.3 Flagellar protein FliJ compare
PP_5095 -1.4 -1.0 pyrroline-5-carboxylate reductase compare
PP_2160 -1.4 -4.6 NADPH-dependent 7-cyano-7-deazaguanine reductase compare
PP_4375 -1.4 -5.4 flagellar chaperone, inhibits premature FliC assembly compare
PP_2253 -1.4 -2.6 Transcriptional regulator, GntR family compare
PP_0949 -1.4 -4.2 putative ATP-binding protein UPF0042 compare
PP_5324 -1.4 -2.5 Response regulator compare
PP_1224 -1.4 -4.3 periplasmic subunit of the TolQRA transport system compare
PP_2322 -1.4 -6.0 Major outer membrane lipoprotein compare
PP_4376 -1.4 -8.2 flagellar filament capping protein compare
PP_4343 -1.4 -4.1 Flagellar biosynthesis protein FlhF compare
PP_0435 -1.4 -6.3 Peptidase, M23/M37 family compare
PP_4380 -1.4 -9.3 Flagellar hook-associated protein FlgL compare
PP_4066 -1.3 -2.8 methylglutaconyl-CoA hydratase compare
PP_2030 -1.3 -3.5 conserved protein of unknown function compare
PP_2820 -1.3 -1.9 HTH-type transcriptional regulator nfxB compare
PP_2402 -1.3 -1.8 putative Sensor histidine kinase compare
PP_4394 -1.3 -5.2 flagella basal body P-ring formation protein compare
PP_5610 -1.3 -2.2 protein of unknown function compare
PP_4383 -1.3 -2.4 Flagellar P-ring protein compare
PP_0003 -1.3 -3.0 16S RNA methyltransferase compare
PP_4942 -1.3 -1.7 conserved protein of unknown function compare
PP_2327 -1.3 -3.1 transcriptional dual regulator / CysB-O-acetyl-L-serine compare
PP_0082 -1.3 -3.9 tryptophan synthase alpha chain compare
PP_1589 -1.3 -5.3 uridylyltransferase compare
PP_4344 -1.3 -6.5 flagellar export pore protein compare
PP_2433 -1.3 -2.7 conserved protein of unknown function compare
PP_2302 -1.3 -4.4 DNA-binding, ATP-dependent protease compare
PP_4378 -1.3 -8.2 flagellin, filament structural protein compare
PP_4803 -1.3 -6.1 D-alanyl-D-alanine carboxypeptidase compare
PP_1025 -1.2 -6.4 2-isopropylmalate synthase compare
PP_5594 -1.2 -2.5 conserved protein of unknown function compare
PP_4067 -1.2 -5.4 methylcrotonyl-CoA carboxylase biotin-containing subunit alpha compare
PP_4382 -1.2 -6.3 Peptidoglycan hydrolase FlgJ compare
PP_0984 -1.2 -3.6 conserved membrane protein of unknown function compare
PP_4354 -1.2 -3.4 flagellar export apparatus subunit compare
PP_5146 -1.2 -4.6 RNA pyrophosphohydrolase compare
PP_0630 -1.2 -1.4 DNA gyrase inhibitor YacG compare
PP_4384 -1.2 -6.6 Flagellar L-ring protein compare
PP_1293 -1.2 -1.9 molybdopterin synthase small subunit compare
PP_5100 -1.2 -3.3 dITP/XTP pyrophosphatase compare
PP_4337 -1.2 -5.1 chemotaxis response regulator protein-glutamate methylesterase of group 1 operon compare
PP_1985 -1.2 -3.9 3-isopropylmalate dehydratase large subunit compare
PP_4098 -1.2 -2.2 UvrABC system protein C compare
PP_4366 -1.2 -6.0 flagellum-specific ATP synthase compare
PP_4392 -1.2 -5.3 chemotaxis protein methyltransferase compare
PP_4936 -1.2 -5.0 O-antigen polymerase compare
PP_4341 -1.2 -6.0 RNA polymerase sigma 28 (sigma F) factor for class III flagellar operons compare
PP_0022 -1.2 -1.1 hypothetical protein compare
PP_0368 -1.2 -7.0 putative Acyl-CoA dehydrogenase compare
PP_1994 -1.2 -1.5 tRNA pseudouridine (38-40)synthase compare
PP_4964 -1.2 -2.3 D-erythrose 4-phosphate dehydrogenase compare
PP_4353 -1.1 -3.6 Flagellar biosynthetic protein fliR compare
PP_4940 -1.1 -6.3 Putative glycosyltransferase compare
PP_4008 -1.1 -4.2 ATP-dependent serine protease compare
PP_4338 -1.1 -5.6 Chemotaxis histidine kinase CheA compare
PP_4471 -1.1 -3.2 Magnesium transporter compare
PP_4126 -1.1 -0.8 NADH-quinone oxidoreductase subunit I compare
PP_5347 -1.1 -5.3 pyruvate carboxylase subunit A compare
PP_2031 -1.1 -2.7 conserved protein of unknown function compare
PP_0122 -1.1 -2.8 conserved exported protein of unknown function compare
PP_4701 -1.1 -0.9 glucose-6-phosphate isomerase compare
PP_4352 -1.1 -6.1 flagellin export apparatus, substrate specificity protein compare
PP_5155 -1.1 -3.0 D-3-phosphoglycerate dehydrogenase / alpha-ketoglutarate reductase compare
PP_4505 -1.1 -5.0 Sensor histidine kinase compare
PP_5337 -1.1 -3.7 LysR family transcriptional regulator compare
PP_0673 -1.1 -1.1 conserved protein of unknown function compare
PP_2145 -1.1 -2.6 beta-N-acetylglucosaminidase compare
PP_4199 -1.1 -1.0 putative Lipoprotein compare
PP_2371 -1.1 -3.1 Sulphite reductase hemoprotein, beta subunit compare
PP_0218 -1.1 -4.3 Sensory box protein compare
PP_4944 -1.0 -2.9 Carbamoyltransferase compare
PP_4720 -1.0 -1.9 putative RNA binding protein compare
PP_2328 -1.0 -2.7 Phosphoadenosine phosphosulfate reductase compare
PP_3198 -1.0 -1.6 Ferredoxin, 2Fe-2S compare
PP_4824 -1.0 -4.0 Sensor histidine kinase/response regulator compare
PP_5028 -1.0 -1.8 proline iminopeptidase compare
PP_0123 -1.0 -5.2 DNA polymerase I, 5 compare
PP_3876 -1.0 -2.1 conserved protein of unknown function compare
PP_4804 -1.0 -1.2 RlpA-like lipoprotein compare
PP_4124 -1.0 -2.2 NADH-quinone oxidoreductase subunit G compare
PP_4362 -1.0 -2.2 conserved protein of unknown function compare
PP_5453 -1.0 -1.1 conserved protein of unknown function compare
PP_1714 -1.0 -3.9 FKBP-type peptidyl-prolyl cis-trans isomerase compare
PP_2136 -1.0 -3.0 enoyl-CoA hydratase/3-hydroxyacyl-CoA dehydrogenase compare
PP_4389 -1.0 -4.9 Flagellar basal-body rod modification protein FlgD compare
PP_5045 -1.0 -2.2 tRNA sulfurtransferase compare
PP_0063 -1.0 -2.7 putative Lipid A biosynthesis lauroyl acyltransferase compare
PP_3999 -1.0 -3.9 Uroporphyrinogen-III C-methyltransferase/Precorrin-2 dehydrogenase/Sirohydrochlorin ferrochelatase compare
PP_5346 -1.0 -4.2 pyruvate carboxylase subunit B compare
PP_0735 -1.0 -1.5 molybdopterin-synthase adenylyltransferase compare
PP_4814 -1.0 -1.5 ATP-dependent protease La domain protein compare
PP_1729 -1.0 -1.8 conserved protein of unknown function compare
PP_3829 -1.0 -2.6 Molybdenum transport system permease protein ModB compare
PP_2196 -0.9 -1.6 agmatinase compare
PP_2122 -0.9 -3.0 molybdenum cofactor biosynthesis protein B 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=none; SoilTreatmentTime=144_hrs across organisms