Experiment set23IT083 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=coldshock; SoilTreatmentTime=144_hrs

200 most important genes:

  gene name fitness t score description  
PP_1623 -7.3 -8.3 RNA polymerase, sigma S (sigma 38) factor compare
PP_0164 -5.6 -3.9 conserved protein of unknown function compare
PP_5114 -5.2 -2.8 putative adenine methyltransferase compare
PP_4902 -5.0 -3.5 Oligoribonuclease compare
PP_4994 -4.3 -6.0 conserved protein of unknown function compare
PP_2107 -4.2 -1.4 conserved protein of unknown function compare
PP_5338 -4.1 -4.0 aspartate ammonia-lyase compare
PP_1237 -4.1 -1.7 4-hydroxy-tetrahydrodipicolinate synthase compare
PP_1778 -4.0 -6.1 Lipopolysaccharide ABC export system, permease protein compare
PP_3946 -3.9 -1.3 HTH-type transcriptional repressor NicR compare
PP_4828 -3.8 -1.3 Precorrin-8X methylmutase compare
PP_1898 -3.5 -3.5 MotA/TolQ/ExbB proton channel family protein compare
PP_1493 -3.5 -3.9 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_0593 -3.5 -1.2 putative ribosome-binding factor compare
PP_5230 -3.2 -4.2 Tyrosine recombinase XerC compare
PP_1779 -3.2 -4.7 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_0846 -3.1 -1.3 DnaK-like molecular chaperone specific for IscU compare
PP_0949 -3.1 -6.2 putative ATP-binding protein UPF0042 compare
PP_1734 -3.0 -3.6 Probable septum site-determining protein MinC compare
PP_4726 -3.0 -3.2 Chaperone protein DnaJ compare
PP_5289 -3.0 -3.8 Acetylglutamate kinase compare
PP_1198 -2.9 -3.2 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_5337 -2.9 -6.2 LysR family transcriptional regulator compare
PP_5309 -2.9 -2.0 oxidative and nitrosative stress transcriptional dual regulator compare
PP_4263 -2.9 -4.3 putative membrane-bounded cytochrome biogenesis cycZ-like domain, copper tolerance protein compare
PP_5328 -2.9 -2.8 putative phosphate transport system permease protein compare
PP_4874 -2.9 -1.4 50S ribosomal protein L9 compare
PP_5528 -2.8 -1.6 conserved protein of unknown function compare
PP_0184 -2.8 -5.5 Argininosuccinate lyase compare
PP_1216 -2.8 -2.9 Holliday junction ATP-dependent DNA helicase RuvA compare
PP_4546 -2.8 -4.2 ATP-dependent helicase HrpA compare
PP_0406 -2.7 -3.0 Nucleotidyltransferase family protein compare
PP_1994 -2.7 -2.6 tRNA pseudouridine (38-40)synthase compare
PP_4379 -2.6 -3.8 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_3484 -2.6 -3.4 Response regulator receiver protein compare
PP_5014 -2.5 -3.1 Phosphoribosyl-AMP cyclohydrolase compare
PP_4517 -2.5 -2.2 conserved protein of unknown function compare
PP_0630 -2.5 -1.2 DNA gyrase inhibitor YacG compare
PP_4941 -2.5 -6.6 conserved exported protein of unknown function compare
PP_1783 -2.5 -1.7 dTDP-glucose pyrophosphorylase compare
PP_4120 -2.3 -3.1 NADH-quinone oxidoreductase subunit B compare
PP_5145 -2.2 -11.7 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_4964 -2.2 -3.3 D-erythrose 4-phosphate dehydrogenase compare
PP_4008 -2.1 -6.1 ATP-dependent serine protease compare
PP_0397 -2.1 -8.0 protein kinase compare
PP_4058 -2.1 -7.9 1,4-alpha-glucan branching enzyme compare
PP_4785 -2.1 -4.8 conserved exported protein of unknown function compare
PP_0914 -2.1 -5.4 GGDEF domain protein compare
PP_1088 -2.1 -6.3 Argininosuccinate synthase compare
PP_3649 -2.1 -3.5 Transcriptional regulator, GntR family compare
PP_1317 -2.1 -4.0 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_5185 -2.0 -3.5 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_4561 -2.0 -1.1 stress response protein compare
PP_4261 -2.0 -4.3 cation-transporting P-type ATPase compare
PP_4126 -2.0 -1.2 NADH-quinone oxidoreductase subunit I compare
PP_0396 -2.0 -8.4 conserved protein of unknown function compare
PP_4124 -2.0 -4.5 NADH-quinone oxidoreductase subunit G compare
PP_0395 -2.0 -6.5 putative type IV piliation protein compare
PP_0065 -2.0 -3.4 NAD-binding component of TrK potassium transporter compare
PP_0725 -1.9 -4.2 conserved hypothetical TPR repeat protein compare
PP_4098 -1.9 -2.2 UvrABC system protein C compare
PP_2337 -1.9 -1.8 aconitate isomerase compare
PP_4880 -1.9 -8.4 exoribonuclease R compare
PP_5313 -1.8 -1.4 DNA-binding protein HU-alpha compare
PP_0274 -1.8 -1.8 putative transcriptional regulator containing HTH domain compare
PP_4129 -1.8 -3.3 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_4131 -1.8 -5.2 NADH-quinone oxidoreductase subunit N compare
PP_4121 -1.8 -4.9 NADH-quinone oxidoreductase subunit C/D compare
PP_0951 -1.8 -6.2 Ribosome hibernation promoting factor compare
PP_5028 -1.7 -3.7 proline iminopeptidase compare
PP_4722 -1.7 -2.6 Transcription elongation factor GreA compare
PP_1355 -1.7 -7.0 Muropeptide permease AmpG compare
PP_4253 -1.7 -2.4 cytochrome c oxidase subunit, cbb3-type compare
PP_0891 -1.7 -2.7 conserved exported protein of unknown function compare
PP_2302 -1.7 -3.6 DNA-binding, ATP-dependent protease compare
PP_2999 -1.7 -1.3 Glyoxalase family protein compare
PP_5073 -1.7 -1.2 conserved exported protein of unknown function compare
PP_1629 -1.7 -4.9 Protein RecA compare
PP_4814 -1.7 -3.1 ATP-dependent protease La domain protein compare
PP_2439 -1.7 -3.4 peroxiredoxin, alkylhydroperoxide reductase - small subunit compare
PP_4824 -1.6 -5.1 Sensor histidine kinase/response regulator compare
PP_5017 -1.6 -0.9 Sec-independent protein translocase protein TatB compare
PP_5652 -1.6 -2.3 conserved protein of unknown function, phage origin compare
PP_4943 -1.6 -1.6 putative Glycosyl transferase compare
PP_5270 -1.6 -3.0 D-amino-acid:quinone oxidoreductase (deaminating) compare
PP_0833 -1.6 -1.1 queuine tRNA-ribosyltransferase compare
PP_0276 -1.6 -1.1 Transcriptional regulator, Cro/CI family compare
PP_1468 -1.6 -2.0 Tyrosine recombinase XerD compare
PP_0948 -1.6 -1.3 Phosphocarrier protein HPr compare
PP_4804 -1.5 -1.1 RlpA-like lipoprotein compare
PP_5140 -1.5 -2.3 Transcriptional regulator, MerR family compare
PP_5329 -1.5 -2.5 putative phosphate ABC transporter, periplasmic phosphate-binding protein compare
PP_1632 -1.5 -1.0 conserved protein of unknown function compare
PP_2976 -1.5 -1.8 putative transposase compare
PP_4342 -1.5 -2.9 flagellar synthesis regulator, putative ATPase compare
PP_0434 -1.5 -2.8 Anhydro-N-acetylmuramic acid kinase compare
PP_5095 -1.5 -0.7 pyrroline-5-carboxylate reductase compare
PP_0001 -1.5 -1.3 probable chromosome-partitioning protein compare
PP_2903 -1.5 -0.9 peptidyl-prolyl cis-trans isomerase B (rotamase B) compare
PP_5295 -1.5 -1.7 conserved protein of unknown function compare
PP_3411 -1.5 -1.6 conserved protein of unknown function compare
PP_2145 -1.5 -1.5 beta-N-acetylglucosaminidase compare
PP_0025 -1.4 -1.0 hypothetical protein compare
PP_0435 -1.4 -4.0 Peptidase, M23/M37 family compare
PP_4936 -1.4 -4.3 O-antigen polymerase compare
PP_1186 -1.4 -1.0 two component system DNA-binding transcriptional dual regulator compare
PP_2307 -1.4 -1.0 conserved protein of unknown function compare
PP_4707 -1.4 -2.2 OsmY-related protein compare
PP_4993 -1.4 -2.5 Glutathione synthetase compare
PP_1217 -1.4 -2.7 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_1224 -1.4 -3.7 periplasmic subunit of the TolQRA transport system compare
PP_0123 -1.4 -4.4 DNA polymerase I, 5 compare
PP_1598 -1.4 -2.1 regulatory intramembrane protein RIP zinc protease compare
PP_0789 -1.4 -2.8 N-acetyl-anhydromuramyl-L-alanine-amidase compare
PP_4940 -1.4 -4.8 Putative glycosyltransferase compare
PP_1097 -1.4 -1.0 Methionine--tRNA ligase compare
PP_1362 -1.4 -2.3 pyruvate kinase II compare
PP_4701 -1.4 -0.8 glucose-6-phosphate isomerase compare
PP_1239 -1.3 -3.1 Metallo-beta-lactamase family protein compare
PP_0127 -1.3 -2.5 Thiol:disulfide interchange protein compare
PP_0628 -1.3 -1.8 conserved protein of unknown function compare
PP_0832 -1.3 -2.9 S-adenosylmethionine:tRNA ribosyltransferase-isomerase compare
PP_4482 -1.3 -2.1 Transcriptional regulator, AraC family compare
PP_4122 -1.3 -1.1 proton-pumping NADH:ubiquinone oxidoreductase, respiratory complex I, subunit E compare
PP_4340 -1.3 -2.7 response regulator for chemotactic signal transduction compare
PP_4910 -1.3 -1.4 conserved protein of unknown function compare
PP_1733 -1.3 -2.2 membrane ATPase of the MinC-MinD-MinE system compare
PP_0273 -1.3 -1.7 conserved protein of unknown function compare
PP_1128 -1.3 -2.5 OmpA family protein compare
PP_4268 -1.3 -0.7 nucleoid-associated broad specificity regulator compare
PP_1319 -1.3 -3.2 Ubiquinol--cytochrome c reductase, cytochrome c1 compare
PP_1353 -1.3 -0.9 conserved membrane protein of unknown function compare
PP_4328 -1.3 -2.6 conserved protein of unknown function compare
PP_3866 -1.3 -2.0 conserved protein of unknown function compare
PP_5203 -1.3 -4.0 5-formyltetrahydrofolate cyclo-ligase compare
PP_5221 -1.2 -1.7 conserved protein of unknown function, UPF0178 family compare
PP_4355 -1.2 -1.4 flagellar export apparatus subunit compare
PP_4332 -1.2 -2.7 Chemotaxis protein CheW compare
PP_0258 -1.2 -1.8 regulator of murein cross-linking compare
PP_0236 -1.2 -2.2 NAD(P)H-dependent FMN reductase subunit compare
PP_0214 -1.2 -3.0 4-aminobutyrate aminotransferase compare
PP_4396 -1.2 -2.2 conserved protein of unknown function compare
PP_1790 -1.2 -1.5 putative Acylneuraminate cytidylyltransferase compare
PP_4370 -1.2 -1.7 Flagellar hook-basal body complex protein FliE compare
PP_3821 -1.2 -4.1 UTP-glucose-1-phosphate uridylyltransferase compare
PP_5701 -1.2 -0.9 conserved protein of unknown function compare
PP_3265 -1.2 -2.5 putative phosphohydrolase of unknown function compare
PP_2611 -1.2 -3.9 membrane protein of unknown function compare
PP_5027 -1.2 -1.4 D-tyrosyl-tRNA(Tyr) deacylase compare
PP_2433 -1.2 -1.5 conserved protein of unknown function compare
PP_2800 -1.2 -3.7 putative Diaminobutyrate-2-oxoglutarate transaminase compare
PP_1318 -1.2 -3.3 Cytochrome b compare
PP_4988 -1.2 -3.9 signal transduction histidine kinase CheA/CheY-like receiver compare
PP_1527 -1.1 -3.1 tRNA threonylcarbamoyladenosine dehydratase (t(6)A37 dehydratase) compare
PP_1058 -1.1 -7.5 conserved protein of unknown function compare
PP_2215 -1.1 -2.6 acetyl-CoA acetyltransferase compare
PP_0547 -1.1 -2.2 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_4787 -1.1 -1.3 putative protein with nucleoside triphosphate hydrolase domain compare
PP_t13 -1.1 -1.5 tRNA-Lys compare
PP_0401 -1.1 -2.7 Ribosomal RNA small subunit methyltransferase A compare
PP_5502 -1.1 -1.7 ribosome modulation factor compare
PP_4700 -1.1 -0.8 pantothenate synthetase compare
PP_4989 -1.1 -3.0 Protein PilJ compare
PP_1325 -1.1 -3.4 putative lipoprotein compare
PP_5317 -1.1 -1.8 Probable chorismate pyruvate-lyase compare
PP_2414 -1.1 -1.1 conserved exported protein of unknown function compare
PP_2088 -1.1 -1.1 RNA polymerase sigma factor SigX compare
PP_1860 -1.1 -2.4 Organic hydroperoxide resistance transcriptional regulator compare
PP_0405 -1.1 -4.2 conserved protein of unknown function compare
PP_5253 -1.1 -2.5 Arylesterase compare
PP_4069 -1.1 -1.8 conserved protein of unknown function compare
PP_1036 -1.1 -4.0 membrane-bound lytic murein transglycosylase F compare
PP_2160 -1.1 -1.8 NADPH-dependent 7-cyano-7-deazaguanine reductase compare
PP_5248 -1.1 -0.7 putative hydrolase compare
PP_4891 -1.1 -2.3 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_2073 -1.1 -2.1 Acetyltransferase, GNAT family compare
PP_4944 -1.1 -1.7 Carbamoyltransferase compare
PP_1804 -1.1 -3.7 Glycosyl transferase WbpL compare
PP_4354 -1.1 -1.3 flagellar export apparatus subunit compare
PP_0218 -1.1 -3.3 Sensory box protein compare
PP_5514 -1.1 -1.5 conserved protein of unknown function compare
PP_0289 -1.0 -2.5 Imidazoleglycerol-phosphate dehydratase compare
PP_0872 -1.0 -3.1 Peptide chain release factor 3 compare
PP_0677 -1.0 -1.4 putative Lipoprotein compare
PP_0512 -1.0 -1.8 hypothetical protein compare
PP_4356 -1.0 -1.2 Flagellar protein FliO compare
PP_2705 -1.0 -1.7 conserved protein of unknown function compare
PP_2724 -1.0 -1.7 conserved protein of unknown function compare
PP_4348 -1.0 -2.2 putative Cystathionine beta-lyase compare
PP_1554 -1.0 -1.4 conserved protein of unknown function compare
PP_3102 -1.0 -1.6 conserved protein of unknown function compare
PP_1906 -1.0 -2.0 ribosomal large subunit pseudouridine synthase C compare
PP_5324 -1.0 -1.1 Response regulator compare
PP_0888 -1.0 -1.0 Photosynthetic apparatus regulatory protein RegA compare
PP_0002 -1.0 -3.4 probable chromosome partition protein compare
PP_2555 -1.0 -2.7 conserved protein of unknown function compare
PP_5310 -1.0 -2.3 junction-specific ATP-dependent DNA helicase compare
PP_5045 -1.0 -2.0 tRNA sulfurtransferase compare
PP_5473 -1.0 -1.6 putative transcriptional regulator, LuxR family compare
PP_2322 -1.0 -3.3 Major outer membrane lipoprotein 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=coldshock; SoilTreatmentTime=144_hrs across organisms