Experiment set23IT082 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 -6.8 -7.7 RNA polymerase, sigma S (sigma 38) factor compare
PP_4517 -6.1 -2.5 conserved protein of unknown function compare
PP_2433 -5.4 -2.5 conserved protein of unknown function compare
PP_0164 -5.3 -6.3 conserved protein of unknown function compare
PP_4994 -4.6 -6.2 conserved protein of unknown function compare
PP_0834 -4.6 -2.1 Sec translocation complex subunit YajC compare
PP_1778 -4.5 -6.4 Lipopolysaccharide ABC export system, permease protein compare
PP_5185 -4.5 -6.2 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_5393 -4.4 -1.3 putative metal-binding chaperone compare
PP_4532 -4.3 -2.8 ATP-dependent DEAD-box RNA helicase require for 50S ribosomal subunit biogenesis compare
PP_4943 -4.1 -1.9 putative Glycosyl transferase compare
PP_1237 -4.1 -1.4 4-hydroxy-tetrahydrodipicolinate synthase compare
PP_3946 -3.9 -1.1 HTH-type transcriptional repressor NicR compare
PP_4902 -3.8 -3.6 Oligoribonuclease compare
PP_0184 -3.6 -6.0 Argininosuccinate lyase compare
PP_1733 -3.3 -2.2 membrane ATPase of the MinC-MinD-MinE system compare
PP_4122 -3.3 -1.5 proton-pumping NADH:ubiquinone oxidoreductase, respiratory complex I, subunit E compare
PP_5337 -3.1 -6.9 LysR family transcriptional regulator compare
PP_4941 -3.1 -8.2 conserved exported protein of unknown function compare
PP_0846 -3.1 -1.1 DnaK-like molecular chaperone specific for IscU compare
PP_0406 -3.0 -2.9 Nucleotidyltransferase family protein compare
PP_4227 -3.0 -1.5 conserved protein of unknown function compare
PP_5508 -3.0 -1.2 conserved protein of unknown function compare
PP_5230 -2.9 -3.1 Tyrosine recombinase XerC compare
PP_4874 -2.8 -1.1 50S ribosomal protein L9 compare
PP_4944 -2.8 -3.9 Carbamoyltransferase compare
PP_0293 -2.8 -1.6 Imidazole glycerol phosphate synthase subunit HisF compare
PP_0547 -2.7 -3.6 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_1734 -2.7 -3.8 Probable septum site-determining protein MinC compare
PP_2253 -2.7 -1.7 Transcriptional regulator, GntR family compare
PP_2378 -2.6 -2.7 Fe/S biogenesis protein NfuA compare
PP_0395 -2.6 -7.7 putative type IV piliation protein compare
PP_0250 -2.6 -2.4 heat shock protein Hsp15 involved in ribosome recycling compare
PP_2307 -2.6 -1.1 conserved protein of unknown function compare
PP_4964 -2.6 -3.0 D-erythrose 4-phosphate dehydrogenase compare
PP_5705 -2.6 -1.6 protein of unknown function compare
PP_0397 -2.5 -9.7 protein kinase compare
PP_4364 -2.5 -3.0 putative Anti-sigma F factor antagonist compare
PP_4696 -2.5 -4.9 Nitrogen regulation protein NR(I) compare
PP_5145 -2.5 -14.2 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_4379 -2.4 -4.9 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_0963 -2.4 -2.4 putative BolA family protein compare
PP_2899 -2.4 -1.5 conserved exported protein of unknown function compare
PP_4058 -2.3 -7.1 1,4-alpha-glucan branching enzyme compare
PP_0396 -2.3 -7.0 conserved protein of unknown function compare
PP_0757 -2.3 -2.3 conserved protein of unknown function compare
PP_4880 -2.3 -9.6 exoribonuclease R compare
PP_1198 -2.3 -2.6 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_0914 -2.3 -5.9 GGDEF domain protein compare
PP_4814 -2.3 -1.5 ATP-dependent protease La domain protein compare
PP_1598 -2.2 -4.8 regulatory intramembrane protein RIP zinc protease compare
PP_4824 -2.2 -7.6 Sensor histidine kinase/response regulator compare
PP_4936 -2.1 -5.9 O-antigen polymerase compare
PP_1783 -2.1 -1.8 dTDP-glucose pyrophosphorylase compare
PP_4726 -2.1 -2.1 Chaperone protein DnaJ compare
PP_4253 -2.0 -1.6 cytochrome c oxidase subunit, cbb3-type compare
PP_1779 -2.0 -3.8 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_5274 -2.0 -1.3 conserved protein of unknown function compare
PP_1994 -2.0 -2.3 tRNA pseudouridine (38-40)synthase compare
PP_5310 -2.0 -4.9 junction-specific ATP-dependent DNA helicase compare
PP_4126 -1.9 -1.0 NADH-quinone oxidoreductase subunit I compare
PP_1493 -1.9 -1.8 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_4131 -1.9 -5.5 NADH-quinone oxidoreductase subunit N compare
PP_5090 -1.9 -1.3 putative cell division protein compare
PP_1553 -1.9 -2.0 conserved protein of unknown function compare
PP_5114 -1.9 -1.9 putative adenine methyltransferase compare
PP_5309 -1.9 -3.6 oxidative and nitrosative stress transcriptional dual regulator compare
PP_0025 -1.9 -1.0 hypothetical protein compare
PP_4342 -1.9 -3.6 flagellar synthesis regulator, putative ATPase compare
PP_0949 -1.9 -4.0 putative ATP-binding protein UPF0042 compare
PP_5338 -1.9 -2.3 aspartate ammonia-lyase compare
PP_4124 -1.8 -4.4 NADH-quinone oxidoreductase subunit G compare
PP_0435 -1.8 -5.3 Peptidase, M23/M37 family compare
PP_4505 -1.8 -3.3 Sensor histidine kinase compare
PP_3411 -1.8 -1.2 conserved protein of unknown function compare
PP_4120 -1.8 -3.1 NADH-quinone oxidoreductase subunit B compare
PP_4891 -1.8 -3.3 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_0711 -1.8 -2.3 putative hydrolase compare
PP_1355 -1.8 -5.4 Muropeptide permease AmpG compare
PP_5248 -1.8 -1.1 putative hydrolase compare
PP_5058 -1.8 -2.9 Carboxy-terminal-processing protease compare
PP_4130 -1.8 -3.8 NADH:ubiquinone oxidoreductase, membrane subunit M compare
PP_2302 -1.7 -3.9 DNA-binding, ATP-dependent protease compare
PP_5329 -1.7 -2.0 putative phosphate ABC transporter, periplasmic phosphate-binding protein compare
PP_4909 -1.7 -4.3 phosphoserine phosphatase compare
PP_0735 -1.7 -1.4 molybdopterin-synthase adenylyltransferase compare
PP_3484 -1.7 -2.1 Response regulator receiver protein compare
PP_5456 -1.7 -1.5 conserved protein of unknown function compare
PP_0855 -1.7 -1.8 conserved protein of unknown function compare
PP_1317 -1.7 -2.4 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_2439 -1.7 -2.9 peroxiredoxin, alkylhydroperoxide reductase - small subunit compare
PP_0951 -1.7 -4.2 Ribosome hibernation promoting factor compare
PP_5110 -1.6 -1.3 cytokinetic ring ABC transporter-like subunit - ATP-binding subunit compare
PP_3295 -1.6 -3.6 YeeE/YedE family protein compare
PP_0405 -1.6 -4.6 conserved protein of unknown function compare
PP_4196 -1.6 -1.4 conserved exported protein of unknown function compare
PP_1036 -1.6 -5.4 membrane-bound lytic murein transglycosylase F compare
PP_2525 -1.6 -1.7 conserved protein of unknown function compare
PP_0959 -1.6 -1.2 phospholipid ABC transporter compare
PP_2922 -1.6 -2.6 Urea amidolyase-related protein compare
PP_4121 -1.5 -3.9 NADH-quinone oxidoreductase subunit C/D compare
PP_1804 -1.5 -4.1 Glycosyl transferase WbpL compare
PP_0123 -1.5 -5.3 DNA polymerase I, 5 compare
PP_2152 -1.5 -1.2 glycerophosphoryl diester phosphodiesterase compare
PP_0789 -1.5 -3.1 N-acetyl-anhydromuramyl-L-alanine-amidase compare
PP_1322 -1.5 -1.4 putative Lipoprotein compare
PP_4847 -1.5 -1.7 chaperone modulatory of CbpA co-chaperone protein compare
PP_4129 -1.5 -2.8 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_1605 -1.5 -2.2 Ribonuclease HII compare
PP_5289 -1.5 -1.7 Acetylglutamate kinase compare
PP_4004 -1.5 -2.0 DNA translocase FtsK compare
PP_4892 -1.5 -4.3 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_0065 -1.5 -2.0 NAD-binding component of TrK potassium transporter compare
PP_3999 -1.5 -4.7 Uroporphyrinogen-III C-methyltransferase/Precorrin-2 dehydrogenase/Sirohydrochlorin ferrochelatase compare
PP_4989 -1.5 -2.2 Protein PilJ compare
PP_1224 -1.5 -3.0 periplasmic subunit of the TolQRA transport system compare
PP_2575 -1.5 -1.4 conserved exported protein of unknown function compare
PP_1629 -1.5 -3.7 Protein RecA compare
PP_5095 -1.4 -0.6 pyrroline-5-carboxylate reductase compare
PP_4136 -1.4 -0.7 Transcriptional regulator, LuxR family compare
PP_4546 -1.4 -3.4 ATP-dependent helicase HrpA compare
PP_5502 -1.4 -3.1 ribosome modulation factor compare
PP_5106 -1.4 -1.5 conserved inner membrane protein compare
PP_4942 -1.4 -2.1 conserved protein of unknown function compare
PP_0888 -1.4 -1.7 Photosynthetic apparatus regulatory protein RegA compare
PP_0119 -1.4 -2.7 putative zinc uptake regulation protein ZUR compare
PP_1088 -1.4 -4.3 Argininosuccinate synthase compare
PP_4008 -1.4 -3.9 ATP-dependent serine protease compare
PP_2999 -1.3 -1.0 Glyoxalase family protein compare
PP_1319 -1.3 -2.8 Ubiquinol--cytochrome c reductase, cytochrome c1 compare
PP_5610 -1.3 -1.1 protein of unknown function compare
PP_4722 -1.3 -2.6 Transcription elongation factor GreA compare
PP_0218 -1.3 -4.4 Sensory box protein compare
PP_5327 -1.3 -2.5 putative phosphate ABC transporter, permease subunit compare
PP_0900 -1.3 -1.6 PAP2 family protein compare
PP_1128 -1.3 -2.2 OmpA family protein compare
PP_3205 -1.3 -2.2 Fumarylacetoacetate hydrolase family protein compare
PP_4785 -1.3 -3.3 conserved exported protein of unknown function compare
PP_0398 -1.3 -1.7 Thiosulfate sulfurtransferase GlpE compare
PP_1176 -1.3 -1.0 conserved protein of unknown function compare
PP_3908 -1.3 -1.7 conserved protein of unknown function compare
PP_1410 -1.3 -0.8 conserved protein of unknown function compare
PP_5748 -1.3 -1.1 cytochrome c heme lyase subunit compare
PP_2903 -1.3 -1.7 peptidyl-prolyl cis-trans isomerase B (rotamase B) compare
PP_5486 -1.3 -1.3 conserved protein of unknown function compare
PP_4829 -1.2 -1.3 putative precorrin-3B synthase compare
PP_3315 -1.2 -1.5 conserved membrane protein of unknown function compare
PP_1217 -1.2 -2.4 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_2229 -1.2 -2.3 putative K(+)/H(+) antiporter subunit C compare
PP_2820 -1.2 -1.3 HTH-type transcriptional regulator nfxB compare
PP_5582 -1.2 -0.9 conserved protein of unknown function compare
PP_0063 -1.2 -1.9 putative Lipid A biosynthesis lauroyl acyltransferase compare
PP_4009 -1.2 -3.0 ATP-dependent Clp protease adapter protein ClpS compare
PP_4782 -1.2 -1.4 Phosphomethylpyrimidine kinase compare
PP_4369 -1.2 -4.2 Flagellar M-ring protein compare
PP_3730 -1.2 -1.0 Transcriptional regulatory protein AruR compare
PP_0957 -1.2 -0.9 D-arabinose 5-phosphate isomerase compare
PP_4940 -1.2 -3.6 Putative glycosyltransferase compare
PP_4591 -1.2 -1.7 Ribonuclease D compare
PP_5422 -1.2 -1.5 hypothetical protein compare
PP_1353 -1.2 -0.7 conserved membrane protein of unknown function compare
PP_0513 -1.2 -1.3 DNA-binding transcriptional repressor NrdR-Zn2+-ATP/dATP compare
PP_5216 -1.2 -1.3 exopolyphosphatase compare
PP_0150 -1.1 -0.7 conserved exported protein of unknown function compare
PP_2328 -1.1 -2.0 Phosphoadenosine phosphosulfate reductase compare
PP_4143 -1.1 -1.3 conserved protein of unknown function compare
PP_4247 -1.1 -0.9 Exonuclease compare
PP_0627 -1.1 -1.2 conserved protein of unknown function compare
PP_1068 -1.1 -3.1 glutamate / aspartate ABC transporter - ATP binding subunit compare
PP_3863 -1.1 -1.7 putative Phage tail protein compare
PP_5001 -1.1 -1.3 protease HslVU, ATPase component compare
PP_0393 -1.1 -0.7 putative 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase compare
PP_5084 -1.1 -3.5 penicillin-insensitive transglycosylase/penicillin-sensitive transpeptidase compare
PP_5328 -1.1 -1.3 putative phosphate transport system permease protein compare
PP_2499 -1.1 -0.6 conserved protein of unknown function compare
PP_1076 -1.1 -2.5 aquaglyceroporin compare
PP_0127 -1.1 -2.4 Thiol:disulfide interchange protein compare
PP_2720 -1.1 -0.9 conserved protein of unknown function compare
PP_3073 -1.1 -3.5 3-hydroxybutyrate dehydrogenase compare
PP_1004 -1.1 -1.6 conserved protein of unknown function compare
PP_5533 -1.1 -1.0 conserved protein of unknown function compare
PP_4356 -1.1 -1.5 Flagellar protein FliO compare
PP_0319 -1.1 -0.9 conserved protein of unknown function compare
PP_1041 -1.1 -0.9 twin arginine protein export complex subunit compare
PP_3757 -1.1 -1.5 Chemotaxis protein CheY compare
PP_3002 -1.1 -1.6 shikimate dehydrogenase-related enzyme compare
PP_0083 -1.1 -2.3 tryptophan synthase beta chain compare
PP_5227 -1.0 -3.5 diaminopimelate decarboxylase compare
PP_2634 -1.0 -1.7 putative Cellulose synthase compare
PP_0002 -1.0 -3.6 probable chromosome partition protein compare
PP_3264 -1.0 -3.2 cardiolipin synthase 2 compare
PP_3824 -1.0 -1.3 conserved exported protein of unknown function compare
PP_4337 -1.0 -2.8 chemotaxis response regulator protein-glutamate methylesterase of group 1 operon compare
PP_5556 -1.0 -1.4 putative bacteriophage lysis protein compare
PP_5423 -1.0 -0.6 conserved membrane protein of unknown function compare
PP_1802 -1.0 -4.7 glycosyl transferase compare
PP_0872 -1.0 -2.9 Peptide chain release factor 3 compare
PP_1716 -1.0 -1.6 Transcriptional regulator, Cro/CI family compare
PP_2813 -1.0 -2.0 BNR domain protein compare
PP_4997 -1.0 -1.0 pyrimidine operon regulatory protein/uracil phosphoribosyltransferase compare


Specific Phenotypes

For 2 genes in this experiment

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 in Pseudomonas putida KT2440

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