Experiment set23IT047 for Pseudomonas putida KT2440

Compare to:

Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs

200 most important genes:

  gene name fitness t score description  
PP_1623 -5.8 -7.5 RNA polymerase, sigma S (sigma 38) factor compare
PP_0164 -3.9 -6.9 conserved protein of unknown function compare
PP_4943 -3.6 -2.5 putative Glycosyl transferase compare
PP_0406 -3.5 -2.4 Nucleotidyltransferase family protein compare
PP_4058 -3.3 -10.8 1,4-alpha-glucan branching enzyme compare
PP_4942 -3.2 -2.2 conserved protein of unknown function compare
PP_1428 -3.2 -2.2 Sigma factor AlgU negative regulatory protein compare
PP_5289 -2.8 -4.4 Acetylglutamate kinase compare
PP_0184 -2.8 -5.0 Argininosuccinate lyase compare
PP_1779 -2.7 -7.0 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_4008 -2.6 -7.4 ATP-dependent serine protease compare
PP_4936 -2.6 -7.0 O-antigen polymerase compare
PP_4941 -2.6 -7.4 conserved exported protein of unknown function compare
PP_0846 -2.5 -1.7 DnaK-like molecular chaperone specific for IscU compare
PP_1778 -2.5 -6.7 Lipopolysaccharide ABC export system, permease protein compare
PP_4874 -2.4 -1.6 50S ribosomal protein L9 compare
PP_5185 -2.4 -5.4 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_1088 -2.4 -8.7 Argininosuccinate synthase compare
PP_2903 -2.3 -2.1 peptidyl-prolyl cis-trans isomerase B (rotamase B) compare
PP_0547 -2.3 -5.2 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_4902 -2.3 -3.1 Oligoribonuclease compare
PP_1493 -2.3 -3.7 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_1237 -2.3 -2.2 4-hydroxy-tetrahydrodipicolinate synthase compare
PP_4546 -2.2 -3.3 ATP-dependent helicase HrpA compare
PP_1734 -2.2 -2.6 Probable septum site-determining protein MinC compare
PP_4642 -2.1 -2.0 Cyclic diguanosine monophosphate-binding protein compare
PP_4368 -2.1 -6.2 flagellar motor switch protein compare
PP_4121 -2.1 -2.8 NADH-quinone oxidoreductase subunit C/D compare
PP_0949 -2.1 -5.1 putative ATP-binding protein UPF0042 compare
PP_2378 -2.1 -2.4 Fe/S biogenesis protein NfuA compare
PP_1198 -2.1 -3.5 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_4361 -2.0 -5.4 Flagellar hook-length control protein FliK compare
PP_4726 -2.0 -2.7 Chaperone protein DnaJ compare
PP_2429 -1.9 -2.5 putative Membrane protein compare
PP_1733 -1.9 -2.5 membrane ATPase of the MinC-MinD-MinE system compare
PP_4944 -1.8 -3.4 Carbamoyltransferase compare
PP_5393 -1.8 -2.3 putative metal-binding chaperone compare
PP_0434 -1.8 -4.6 Anhydro-N-acetylmuramic acid kinase compare
PP_0218 -1.8 -6.1 Sensory box protein compare
PP_4940 -1.8 -7.9 Putative glycosyltransferase compare
PP_0630 -1.7 -1.6 DNA gyrase inhibitor YacG compare
PP_0396 -1.7 -8.3 conserved protein of unknown function compare
PP_0405 -1.7 -7.6 conserved protein of unknown function compare
PP_4131 -1.7 -3.3 NADH-quinone oxidoreductase subunit N compare
PP_0395 -1.7 -10.6 putative type IV piliation protein compare
PP_3484 -1.7 -3.4 Response regulator receiver protein compare
PP_1812 -1.6 -3.0 conserved protein of unknown function compare
PP_4367 -1.6 -3.4 Flagellar assembly protein FliH compare
PP_1224 -1.6 -5.6 periplasmic subunit of the TolQRA transport system compare
PP_4938 -1.6 -6.1 putative Glycosyl transferase compare
PP_4370 -1.6 -3.2 Flagellar hook-basal body complex protein FliE compare
PP_4383 -1.6 -2.8 Flagellar P-ring protein compare
PP_4824 -1.6 -5.4 Sensor histidine kinase/response regulator compare
PP_1217 -1.6 -3.7 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_4880 -1.6 -7.5 exoribonuclease R compare
PP_0832 -1.6 -3.5 S-adenosylmethionine:tRNA ribosyltransferase-isomerase compare
PP_4376 -1.5 -8.8 flagellar filament capping protein compare
PP_2144 -1.5 -3.8 Transcriptional regulator, TetR family compare
PP_2253 -1.5 -2.9 Transcriptional regulator, GntR family compare
PP_0397 -1.5 -9.5 protein kinase compare
PP_5155 -1.5 -2.9 D-3-phosphoglycerate dehydrogenase / alpha-ketoglutarate reductase compare
PP_4341 -1.5 -7.6 RNA polymerase sigma 28 (sigma F) factor for class III flagellar operons compare
PP_1783 -1.5 -1.4 dTDP-glucose pyrophosphorylase compare
PP_5514 -1.5 -1.6 conserved protein of unknown function compare
PP_2028 -1.5 -3.2 conserved protein of unknown function containing tetratricopeptide (TPR) domain repeat compare
PP_4129 -1.5 -2.2 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_4009 -1.5 -4.8 ATP-dependent Clp protease adapter protein ClpS compare
PP_4356 -1.5 -3.1 Flagellar protein FliO compare
PP_4375 -1.5 -6.1 flagellar chaperone, inhibits premature FliC assembly compare
PP_4124 -1.5 -2.8 NADH-quinone oxidoreductase subunit G compare
PP_2030 -1.5 -3.2 conserved protein of unknown function compare
PP_4358 -1.5 -4.8 flagellar synthesis, switching and energizing component compare
PP_5338 -1.4 -2.1 aspartate ammonia-lyase compare
PP_2145 -1.4 -2.8 beta-N-acetylglucosaminidase compare
PP_0065 -1.4 -2.8 NAD-binding component of TrK potassium transporter compare
PP_1036 -1.4 -7.5 membrane-bound lytic murein transglycosylase F compare
PP_0775 -1.4 -2.4 conserved protein of unknown function compare
PP_5217 -1.4 -9.7 Polyphosphate kinase compare
PP_1054 -1.4 -2.3 Type II secretion pathway protein XcpZ compare
PP_5327 -1.4 -1.8 putative phosphate ABC transporter, permease subunit compare
PP_4122 -1.4 -1.3 proton-pumping NADH:ubiquinone oxidoreductase, respiratory complex I, subunit E compare
PP_1355 -1.3 -7.4 Muropeptide permease AmpG compare
PP_2402 -1.3 -1.5 putative Sensor histidine kinase compare
PP_4381 -1.3 -7.4 Flagellar hook-associated protein FlgK compare
PP_4354 -1.3 -2.6 flagellar export apparatus subunit compare
PP_5145 -1.3 -10.3 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_4355 -1.3 -1.9 flagellar export apparatus subunit compare
PP_1142 -1.3 -1.5 conserved protein of unknown function compare
PP_4380 -1.3 -7.5 Flagellar hook-associated protein FlgL compare
PP_4988 -1.3 -4.9 signal transduction histidine kinase CheA/CheY-like receiver compare
PP_4369 -1.3 -5.4 Flagellar M-ring protein compare
PP_4388 -1.3 -8.4 Flagellar hook protein FlgE compare
PP_1366 -1.3 -1.4 Transcriptional regulator MvaT, P16 subunit compare
PP_4696 -1.3 -2.9 Nitrogen regulation protein NR(I) compare
PP_4382 -1.3 -5.8 Peptidoglycan hydrolase FlgJ compare
PP_4385 -1.3 -3.7 flagellar basal-body rod protein FlgG compare
PP_4964 -1.2 -2.2 D-erythrose 4-phosphate dehydrogenase compare
PP_2820 -1.2 -2.3 HTH-type transcriptional regulator nfxB compare
PP_4386 -1.2 -3.5 flagellar basal-body rod protein FlgF compare
PP_4909 -1.2 -4.2 phosphoserine phosphatase compare
PP_1629 -1.2 -4.0 Protein RecA compare
PP_4268 -1.2 -1.5 nucleoid-associated broad specificity regulator compare
PP_1906 -1.2 -2.8 ribosomal large subunit pseudouridine synthase C compare
PP_1317 -1.2 -3.7 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_4344 -1.2 -5.9 flagellar export pore protein compare
PP_2031 -1.2 -2.8 conserved protein of unknown function compare
PP_4390 -1.2 -6.0 flagellar basal-body rod protein FlgC compare
PP_4993 -1.2 -3.3 Glutathione synthetase compare
PP_0789 -1.2 -3.2 N-acetyl-anhydromuramyl-L-alanine-amidase compare
PP_4378 -1.2 -7.7 flagellin, filament structural protein compare
PP_4384 -1.2 -5.5 Flagellar L-ring protein compare
PP_4891 -1.2 -2.8 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_1898 -1.2 -1.7 MotA/TolQ/ExbB proton channel family protein compare
PP_2337 -1.2 -1.5 aconitate isomerase compare
PP_4365 -1.1 -4.5 Flagellar protein FliJ compare
PP_4130 -1.1 -2.7 NADH:ubiquinone oxidoreductase, membrane subunit M compare
PP_4366 -1.1 -7.2 flagellum-specific ATP synthase compare
PP_2370 -1.1 -1.9 conserved protein of unknown function compare
PP_0833 -1.1 -0.8 queuine tRNA-ribosyltransferase compare
PP_0435 -1.1 -5.3 Peptidase, M23/M37 family compare
PP_0872 -1.1 -4.3 Peptide chain release factor 3 compare
PP_1548 -1.1 -1.8 conserved protein of unknown function compare
PP_2160 -1.1 -2.9 NADPH-dependent 7-cyano-7-deazaguanine reductase compare
PP_0292 -1.1 -1.9 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
PP_2433 -1.1 -1.8 conserved protein of unknown function compare
PP_5095 -1.1 -0.7 pyrroline-5-carboxylate reductase compare
PP_3946 -1.1 -1.2 HTH-type transcriptional repressor NicR compare
PP_1716 -1.1 -2.5 Transcriptional regulator, Cro/CI family compare
PP_1764 -1.1 -2.3 Phosphoglycolate phosphatase 2 compare
PP_4352 -1.1 -6.0 flagellin export apparatus, substrate specificity protein compare
PP_3821 -1.1 -4.6 UTP-glucose-1-phosphate uridylyltransferase compare
PP_4517 -1.1 -1.4 conserved protein of unknown function compare
PP_2773 -1.1 -1.9 conserved protein of unknown function compare
PP_4879 -1.0 -3.2 23S rRNA (guanosine-2'-O-)-methyltransferase RlmB compare
PP_0914 -1.0 -5.7 GGDEF domain protein compare
PP_4337 -1.0 -2.9 chemotaxis response regulator protein-glutamate methylesterase of group 1 operon compare
PP_0735 -1.0 -1.8 molybdopterin-synthase adenylyltransferase compare
PP_5000 -1.0 -1.7 peptidase component of the ATP-dependent HslVU protease compare
PP_4394 -1.0 -3.1 flagella basal body P-ring formation protein compare
PP_1729 -1.0 -1.5 conserved protein of unknown function compare
PP_1318 -1.0 -3.8 Cytochrome b compare
PP_0951 -1.0 -4.3 Ribosome hibernation promoting factor compare
PP_4067 -1.0 -4.2 methylcrotonyl-CoA carboxylase biotin-containing subunit alpha compare
PP_0888 -1.0 -1.9 Photosynthetic apparatus regulatory protein RegA compare
PP_4828 -1.0 -1.1 Precorrin-8X methylmutase compare
PP_4126 -1.0 -0.9 NADH-quinone oxidoreductase subunit I compare
PP_4785 -1.0 -5.4 conserved exported protein of unknown function compare
PP_3460 -1.0 -1.6 quinohemoprotein amine dehydrogenase, gamma subunit compare
PP_2313 -1.0 -1.9 conserved membrane protein of unknown function compare
PP_5090 -1.0 -2.5 putative cell division protein compare
PP_4994 -1.0 -2.7 conserved protein of unknown function compare
PP_1055 -1.0 -1.5 Type II secretion pathway protein GspN compare
PP_1079 -0.9 -2.6 Ornithine carbamoyltransferase compare
PP_4353 -0.9 -2.6 Flagellar biosynthetic protein fliR compare
PP_4505 -0.9 -3.1 Sensor histidine kinase compare
PP_5748 -0.9 -1.5 cytochrome c heme lyase subunit compare
PP_0246 -0.9 -1.7 two-component system DNA-binding response transcriptional dual regulator compare
PP_1097 -0.9 -1.1 Methionine--tRNA ligase compare
PP_0135 -0.9 -1.7 conserved exported protein of unknown function compare
PP_0082 -0.9 -2.5 tryptophan synthase alpha chain compare
PP_4260 -0.9 -2.8 conserved protein of unknown function compare
PP_0117 -0.9 -2.6 Zn(2+) ABC transporter - permease subunit compare
PP_1986 -0.9 -1.7 3-isopropylmalate dehydratase small subunit compare
PP_4261 -0.9 -2.9 cation-transporting P-type ATPase compare
PP_5324 -0.9 -1.6 Response regulator compare
PP_2027 -0.9 -3.7 conserved exported protein of unknown function compare
PP_5014 -0.9 -1.8 Phosphoribosyl-AMP cyclohydrolase compare
PP_4359 -0.9 -3.9 Flagellar protein FliL compare
PP_3649 -0.9 -2.0 Transcriptional regulator, GntR family compare
PP_0002 -0.9 -4.3 probable chromosome partition protein compare
PP_5248 -0.9 -1.2 putative hydrolase compare
PP_4392 -0.9 -4.9 chemotaxis protein methyltransferase compare
PP_4379 -0.8 -1.9 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_4396 -0.8 -2.3 conserved protein of unknown function compare
PP_3359 -0.8 -2.5 putative Hydroxycinnamic acid degradation regulator compare
PP_4263 -0.8 -2.2 putative membrane-bounded cytochrome biogenesis cycZ-like domain, copper tolerance protein compare
PP_5329 -0.8 -1.2 putative phosphate ABC transporter, periplasmic phosphate-binding protein compare
PP_1466 -0.8 -1.9 Long-chain acyl-CoA thioester hydrolase family protein compare
PP_4804 -0.8 -1.0 RlpA-like lipoprotein compare
PP_0123 -0.8 -4.4 DNA polymerase I, 5 compare
PP_1048 -0.8 -1.5 putative protein secretion protein for export compare
PP_4338 -0.8 -3.8 Chemotaxis histidine kinase CheA compare
PP_0957 -0.8 -1.2 D-arabinose 5-phosphate isomerase compare
PP_5051 -0.8 -1.2 conserved protein of unknown function compare
PP_4336 -0.8 -2.9 flagellar motor rotation protein compare
PP_5045 -0.8 -2.6 tRNA sulfurtransferase compare
PP_0120 -0.8 -2.8 putative zinc ABC transporter compare
PP_2029 -0.8 -1.9 von Willebrand factor type A domain protein compare
PP_2121 -0.8 -1.3 putative Lipoprotein compare
PP_5598 -0.8 -2.2 conserved protein of unknown function compare
PP_0346 -0.8 -4.7 putative Heptose kinase WapQ compare
PP_1087 -0.8 -3.3 Outer membrane protein, OmpA family compare
PP_2077 -0.8 -3.3 diaminopimelate decarboxylase compare
PP_4301 -0.8 -2.0 Pyruvate kinase compare
PP_5216 -0.8 -1.1 exopolyphosphatase compare
PP_3766 -0.8 -1.6 Lactoylglutathione lyase compare
PP_5473 -0.8 -1.7 putative transcriptional regulator, LuxR family compare
PP_4332 -0.8 -2.2 Chemotaxis protein CheW compare
PP_3935 -0.8 -2.7 conserved protein of unknown function compare
PP_4335 -0.8 -4.8 flagellar motor protein compare


Specific Phenotypes

For 1 genes in this experiment

For soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs in Pseudomonas putida KT2440

For soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=nonsterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=72_hrs across organisms