Experiment set24IT083 for Pseudomonas putida KT2440

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Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; 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 -6.5 -7.3 RNA polymerase, sigma S (sigma 38) factor compare
PP_0164 -6.0 -4.1 conserved protein of unknown function compare
PP_1778 -5.1 -9.8 Lipopolysaccharide ABC export system, permease protein compare
PP_5309 -5.0 -4.8 oxidative and nitrosative stress transcriptional dual regulator compare
PP_4994 -4.5 -6.1 conserved protein of unknown function compare
PP_4058 -4.2 -14.0 1,4-alpha-glucan branching enzyme compare
PP_0406 -3.9 -2.7 Nucleotidyltransferase family protein compare
PP_4726 -3.8 -4.3 Chaperone protein DnaJ compare
PP_1733 -3.6 -4.3 membrane ATPase of the MinC-MinD-MinE system compare
PP_4004 -3.4 -5.6 DNA translocase FtsK compare
PP_5185 -3.1 -6.8 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_4008 -3.1 -8.4 ATP-dependent serine protease compare
PP_1734 -3.0 -5.9 Probable septum site-determining protein MinC compare
PP_0184 -3.0 -6.1 Argininosuccinate lyase compare
PP_5337 -3.0 -6.9 LysR family transcriptional regulator compare
PP_4122 -3.0 -2.0 proton-pumping NADH:ubiquinone oxidoreductase, respiratory complex I, subunit E compare
PP_2145 -2.9 -4.8 beta-N-acetylglucosaminidase compare
PP_5289 -2.9 -4.1 Acetylglutamate kinase compare
PP_4066 -2.9 -4.4 methylglutaconyl-CoA hydratase compare
PP_4696 -2.9 -5.5 Nitrogen regulation protein NR(I) compare
PP_0888 -2.8 -2.5 Photosynthetic apparatus regulatory protein RegA compare
PP_4941 -2.8 -8.9 conserved exported protein of unknown function compare
PP_4368 -2.8 -8.2 flagellar motor switch protein compare
PP_4902 -2.7 -3.6 Oligoribonuclease compare
PP_5216 -2.7 -1.9 exopolyphosphatase compare
PP_1097 -2.7 -2.1 Methionine--tRNA ligase compare
PP_1088 -2.7 -8.8 Argininosuccinate synthase compare
PP_5338 -2.6 -4.3 aspartate ammonia-lyase compare
PP_2378 -2.5 -2.9 Fe/S biogenesis protein NfuA compare
PP_4917 -2.4 -5.3 3',5'-cyclic-nucleotide phosphodiesterase compare
PP_4131 -2.4 -4.3 NADH-quinone oxidoreductase subunit N compare
PP_1779 -2.4 -4.7 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_0435 -2.4 -8.7 Peptidase, M23/M37 family compare
PP_3484 -2.4 -3.9 Response regulator receiver protein compare
PP_5393 -2.3 -1.8 putative metal-binding chaperone compare
PP_1216 -2.3 -3.8 Holliday junction ATP-dependent DNA helicase RuvA compare
PP_4263 -2.3 -4.8 putative membrane-bounded cytochrome biogenesis cycZ-like domain, copper tolerance protein compare
PP_5310 -2.3 -6.8 junction-specific ATP-dependent DNA helicase compare
PP_4124 -2.2 -3.4 NADH-quinone oxidoreductase subunit G compare
PP_0949 -2.2 -5.7 putative ATP-binding protein UPF0042 compare
PP_4358 -2.2 -5.4 flagellar synthesis, switching and energizing component compare
PP_4396 -2.2 -4.0 conserved protein of unknown function compare
PP_4143 -2.2 -3.9 conserved protein of unknown function compare
PP_4874 -2.2 -1.3 50S ribosomal protein L9 compare
PP_0048 -2.1 -1.6 conserved protein of unknown function compare
PP_1493 -2.0 -2.2 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_4943 -2.0 -2.0 putative Glycosyl transferase compare
PP_2903 -2.0 -2.2 peptidyl-prolyl cis-trans isomerase B (rotamase B) compare
PP_2337 -1.9 -2.3 aconitate isomerase compare
PP_4120 -1.9 -2.8 NADH-quinone oxidoreductase subunit B compare
PP_4369 -1.9 -7.6 Flagellar M-ring protein compare
PP_0846 -1.8 -1.4 DnaK-like molecular chaperone specific for IscU compare
PP_4129 -1.8 -2.8 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_4804 -1.8 -1.8 RlpA-like lipoprotein compare
PP_0789 -1.8 -4.4 N-acetyl-anhydromuramyl-L-alanine-amidase compare
PP_4964 -1.8 -3.2 D-erythrose 4-phosphate dehydrogenase compare
PP_1764 -1.8 -2.8 Phosphoglycolate phosphatase 2 compare
PP_1198 -1.8 -2.3 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_1217 -1.8 -5.3 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_4343 -1.8 -5.9 Flagellar biosynthesis protein FlhF compare
PP_0547 -1.8 -2.7 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_5145 -1.7 -12.2 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_0914 -1.7 -7.6 GGDEF domain protein compare
PP_5028 -1.7 -2.8 proline iminopeptidase compare
PP_1319 -1.7 -3.7 Ubiquinol--cytochrome c reductase, cytochrome c1 compare
PP_1898 -1.7 -1.8 MotA/TolQ/ExbB proton channel family protein compare
PP_0218 -1.7 -7.1 Sensory box protein compare
PP_1232 -1.7 -5.4 conserved exported protein of unknown function compare
PP_4944 -1.6 -4.3 Carbamoyltransferase compare
PP_5328 -1.6 -1.9 putative phosphate transport system permease protein compare
PP_2402 -1.6 -1.9 putative Sensor histidine kinase compare
PP_1142 -1.6 -1.3 conserved protein of unknown function compare
PP_3821 -1.6 -5.6 UTP-glucose-1-phosphate uridylyltransferase compare
PP_4364 -1.5 -2.9 putative Anti-sigma F factor antagonist compare
PP_1355 -1.5 -6.4 Muropeptide permease AmpG compare
PP_4384 -1.5 -7.1 Flagellar L-ring protein compare
PP_5090 -1.5 -1.9 putative cell division protein compare
PP_4337 -1.5 -5.3 chemotaxis response regulator protein-glutamate methylesterase of group 1 operon compare
PP_4700 -1.5 -1.4 pantothenate synthetase compare
PP_4342 -1.5 -3.2 flagellar synthesis regulator, putative ATPase compare
PP_4895 -1.5 -2.7 tRNA dimethylallyltransferase compare
PP_5230 -1.5 -3.6 Tyrosine recombinase XerC compare
PP_4942 -1.5 -2.2 conserved protein of unknown function compare
PP_0401 -1.5 -3.4 Ribosomal RNA small subunit methyltransferase A compare
PP_4366 -1.5 -7.9 flagellum-specific ATP synthase compare
PP_4785 -1.5 -4.2 conserved exported protein of unknown function compare
PP_4376 -1.4 -7.3 flagellar filament capping protein compare
PP_4824 -1.4 -5.4 Sensor histidine kinase/response regulator compare
PP_4344 -1.4 -8.0 flagellar export pore protein compare
PP_2302 -1.4 -4.0 DNA-binding, ATP-dependent protease compare
PP_0123 -1.4 -6.9 DNA polymerase I, 5 compare
PP_4332 -1.4 -3.6 Chemotaxis protein CheW compare
PP_4378 -1.4 -8.1 flagellin, filament structural protein compare
PP_4505 -1.4 -5.0 Sensor histidine kinase compare
PP_0872 -1.4 -4.5 Peptide chain release factor 3 compare
PP_4381 -1.4 -7.3 Flagellar hook-associated protein FlgK compare
PP_1629 -1.4 -4.2 Protein RecA compare
PP_2144 -1.3 -3.4 Transcriptional regulator, TetR family compare
PP_4482 -1.3 -2.6 Transcriptional regulator, AraC family compare
PP_5502 -1.3 -3.5 ribosome modulation factor compare
PP_1598 -1.3 -3.8 regulatory intramembrane protein RIP zinc protease compare
PP_4937 -1.3 -3.3 toluene tolerance protein compare
PP_4367 -1.3 -3.9 Flagellar assembly protein FliH compare
PP_0396 -1.3 -7.1 conserved protein of unknown function compare
PP_1428 -1.3 -1.6 Sigma factor AlgU negative regulatory protein compare
PP_5582 -1.3 -1.4 conserved protein of unknown function compare
PP_4811 -1.3 -2.9 Gamma-glutamyl phosphate reductase compare
PP_0393 -1.3 -0.9 putative 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase compare
PP_2030 -1.3 -2.7 conserved protein of unknown function compare
PP_4380 -1.3 -7.8 Flagellar hook-associated protein FlgL compare
PP_1036 -1.3 -5.3 membrane-bound lytic murein transglycosylase F compare
PP_5546 -1.3 -2.4 conserved protein of unknown function compare
PP_4382 -1.3 -5.9 Peptidoglycan hydrolase FlgJ compare
PP_4361 -1.2 -4.4 Flagellar hook-length control protein FliK compare
PP_4699 -1.2 -3.1 3-methyl-2-oxobutanoate hydroxymethyltransferase compare
PP_0395 -1.2 -7.0 putative type IV piliation protein compare
PP_4365 -1.2 -3.1 Flagellar protein FliJ compare
PP_2307 -1.2 -1.1 conserved protein of unknown function compare
PP_1906 -1.2 -2.8 ribosomal large subunit pseudouridine synthase C compare
PP_2322 -1.2 -4.9 Major outer membrane lipoprotein compare
PP_4470 -1.2 -1.4 putative transcriptional regulator (Arc domain-containing) compare
PP_4261 -1.2 -3.0 cation-transporting P-type ATPase compare
PP_4065 -1.2 -5.7 methylcrotonyl-CoA carboxylase biotin-containing subunit beta compare
PP_4121 -1.2 -2.9 NADH-quinone oxidoreductase subunit C/D compare
PP_3649 -1.2 -4.4 Transcriptional regulator, GntR family compare
PP_2031 -1.2 -2.4 conserved protein of unknown function compare
PP_4296 -1.2 -1.4 conserved exported protein of unknown function compare
PP_4375 -1.2 -4.3 flagellar chaperone, inhibits premature FliC assembly compare
PP_3603 -1.1 -4.8 Transcriptional regulator, GntR family compare
PP_0290 -1.1 -3.8 Imidazole glycerol phosphate synthase subunit HisH compare
PP_4383 -1.1 -4.8 Flagellar P-ring protein compare
PP_4394 -1.1 -3.7 flagella basal body P-ring formation protein compare
PP_2403 -1.1 -1.3 Chemotaxis protein CheY compare
PP_4385 -1.1 -3.2 flagellar basal-body rod protein FlgG compare
PP_1317 -1.1 -2.1 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_0397 -1.1 -6.7 protein kinase compare
PP_4961 -1.1 -1.9 putative Lipoprotein compare
PP_3874 -1.1 -2.9 conserved protein of unknown function compare
PP_5654 -1.1 -1.8 putative phosphotriesterase compare
PP_1224 -1.1 -3.2 periplasmic subunit of the TolQRA transport system compare
PP_2433 -1.1 -1.7 conserved protein of unknown function compare
PP_4880 -1.1 -5.6 exoribonuclease R compare
PP_2214 -1.1 -1.7 3-hydroxyacyl-CoA dehydrogenase type-2 compare
PP_0405 -1.1 -4.9 conserved protein of unknown function compare
PP_2217 -1.1 -2.0 enoyl-CoA hydratase compare
PP_4359 -1.1 -4.1 Flagellar protein FliL compare
PP_0127 -1.1 -3.1 Thiol:disulfide interchange protein compare
PP_1731 -1.1 -3.4 23S rRNA (746) and tRNA (32) pseudouridine synthase compare
PP_0653 -1.1 -1.2 conserved protein of unknown function compare
PP_4355 -1.1 -1.4 flagellar export apparatus subunit compare
PP_2029 -1.1 -1.8 von Willebrand factor type A domain protein compare
PP_5084 -1.1 -4.8 penicillin-insensitive transglycosylase/penicillin-sensitive transpeptidase compare
PP_5706 -1.1 -1.8 Sec translocation complex - SecG subunit compare
PP_2306 -1.1 -1.5 conserved exported protein of unknown function compare
PP_1468 -1.1 -1.1 Tyrosine recombinase XerD compare
PP_4391 -1.1 -4.6 flagellar basal-body rod protein FlgB compare
PP_5537 -1.0 -2.9 conserved membrane protein of unknown function compare
PP_4333 -1.0 -4.1 CheW domain protein compare
PP_2336 -1.0 -1.7 aconitate hydratase 1 compare
PP_4389 -1.0 -3.9 Flagellar basal-body rod modification protein FlgD compare
PP_4386 -1.0 -3.7 flagellar basal-body rod protein FlgF compare
PP_3833 -1.0 -3.8 Response regulator compare
PP_5597 -1.0 -1.4 conserved protein of unknown function compare
PP_2025 -1.0 -3.2 Exonuclease SbcD compare
PP_4356 -1.0 -2.3 Flagellar protein FliO compare
PP_3829 -1.0 -2.5 Molybdenum transport system permease protein ModB compare
PP_1714 -1.0 -3.2 FKBP-type peptidyl-prolyl cis-trans isomerase compare
PP_1528 -1.0 -1.5 conserved protein of unknown function compare
PP_5110 -1.0 -1.9 cytokinetic ring ABC transporter-like subunit - ATP-binding subunit compare
PP_3509 -1.0 -2.5 Glyoxalase family protein compare
PP_4338 -1.0 -4.8 Chemotaxis histidine kinase CheA compare
PP_3924 -1.0 -2.3 conserved protein of unknown function compare
PP_4388 -1.0 -5.6 Flagellar hook protein FlgE compare
PP_0504 -1.0 -2.4 Outer membrane protein OprG compare
PP_2160 -1.0 -2.5 NADPH-dependent 7-cyano-7-deazaguanine reductase compare
PP_2414 -1.0 -0.7 conserved exported protein of unknown function compare
PP_2032 -1.0 -3.7 putative ATPase compare
PP_1999 -1.0 -1.0 membrane protein required for colicin V production compare
PP_1001 -1.0 -1.8 arginine deiminase compare
PP_0951 -1.0 -3.5 Ribosome hibernation promoting factor compare
PP_0377 -1.0 -1.2 coenzyme PQQ synthesis protein D compare
PP_4892 -1.0 -3.4 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_3048 -1.0 -2.0 conserved protein of unknown function compare
PP_4370 -0.9 -1.9 Flagellar hook-basal body complex protein FliE compare
PP_5SB -0.9 -1.7 5S ribosomal RNA compare
PP_0984 -0.9 -2.4 conserved membrane protein of unknown function compare
PP_4354 -0.9 -2.6 flagellar export apparatus subunit compare
PP_4204 -0.9 -2.7 antitoxin of the type II toxin-antitoxin MqsRA system and DNA-binding transcriptional repressor compare
PP_1909 -0.9 -3.4 putative septum formation protein compare
PP_4340 -0.9 -3.2 response regulator for chemotactic signal transduction compare
PP_4262 -0.9 -1.2 Cytochrome oxidase maturation protein, cbb3-type compare
PP_1079 -0.9 -2.5 Ornithine carbamoyltransferase compare
PP_0065 -0.9 -1.5 NAD-binding component of TrK potassium transporter compare
PP_4251 -0.9 -2.2 cytochrome c oxidase subunit, cbb3-type compare
PP_5279 -0.9 -1.8 conserved protein of unknown function compare
PP_2999 -0.9 -1.1 Glyoxalase family protein compare
PP_1729 -0.9 -1.5 conserved protein of unknown function compare
PP_4390 -0.9 -4.1 flagellar basal-body rod protein FlgC compare
PP_2794 -0.9 -2.0 Oxidoreductase, short chain dehydrogenase/reductase family compare
PP_5114 -0.9 -1.7 putative adenine methyltransferase compare


Specific Phenotypes

None in this experiment

For Pseudomonas putida KT2440 in soil experiments

For soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=none; SoilTreatmentTime=144_hrs across organisms