Experiment set23IT084 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 -7.7 -8.5 RNA polymerase, sigma S (sigma 38) factor compare
PP_0164 -5.5 -5.3 conserved protein of unknown function compare
PP_1778 -5.5 -9.5 Lipopolysaccharide ABC export system, permease protein compare
PP_3312 -4.8 -1.7 putative Heat shock protein compare
PP_2121 -4.8 -2.7 putative Lipoprotein compare
PP_1779 -4.5 -8.7 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_2145 -3.9 -3.8 beta-N-acetylglucosaminidase compare
PP_0547 -3.9 -4.7 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_5289 -3.7 -4.6 Acetylglutamate kinase compare
PP_1898 -3.7 -3.9 MotA/TolQ/ExbB proton channel family protein compare
PP_4944 -3.6 -5.8 Carbamoyltransferase compare
PP_4726 -3.5 -3.3 Chaperone protein DnaJ compare
PP_1214 -3.4 -3.7 putative transcriptional regulatory protein compare
PP_1733 -3.4 -2.4 membrane ATPase of the MinC-MinD-MinE system compare
PP_5328 -3.4 -2.3 putative phosphate transport system permease protein compare
PP_4994 -3.4 -4.0 conserved protein of unknown function compare
PP_4122 -3.3 -1.8 proton-pumping NADH:ubiquinone oxidoreductase, respiratory complex I, subunit E compare
PP_2820 -3.1 -4.1 HTH-type transcriptional regulator nfxB compare
PP_0846 -3.1 -1.4 DnaK-like molecular chaperone specific for IscU compare
PP_5337 -3.1 -7.0 LysR family transcriptional regulator compare
PP_4910 -2.9 -2.5 conserved protein of unknown function compare
PP_4902 -2.9 -3.6 Oligoribonuclease compare
PP_3637 -2.8 -1.7 putative Sulfonate ABC transporter, ATP-binding protein compare
PP_0396 -2.8 -9.1 conserved protein of unknown function compare
PP_5338 -2.7 -4.8 aspartate ammonia-lyase compare
PP_4008 -2.6 -6.8 ATP-dependent serine protease compare
PP_1215 -2.6 -1.6 Crossover junction endodeoxyribonuclease RuvC compare
PP_1216 -2.6 -2.6 Holliday junction ATP-dependent DNA helicase RuvA compare
PP_1099 -2.5 -2.4 Cold shock protein CapB compare
PP_1783 -2.5 -1.7 dTDP-glucose pyrophosphorylase compare
PP_1994 -2.5 -2.7 tRNA pseudouridine (38-40)synthase compare
PP_3649 -2.4 -4.7 Transcriptional regulator, GntR family compare
PP_5145 -2.4 -15.0 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_2032 -2.4 -5.3 putative ATPase compare
PP_0395 -2.3 -9.7 putative type IV piliation protein compare
PP_5309 -2.3 -3.5 oxidative and nitrosative stress transcriptional dual regulator compare
PP_1208 -2.3 -1.6 conserved protein of unknown function, SlyX family compare
PP_4379 -2.3 -4.6 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_0065 -2.3 -4.3 NAD-binding component of TrK potassium transporter compare
PP_1493 -2.3 -2.1 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_4120 -2.2 -2.2 NADH-quinone oxidoreductase subunit B compare
PP_0397 -2.2 -11.1 protein kinase compare
PP_1217 -2.2 -5.0 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_4941 -2.2 -5.5 conserved exported protein of unknown function compare
PP_4124 -2.2 -4.4 NADH-quinone oxidoreductase subunit G compare
PP_4131 -2.2 -5.0 NADH-quinone oxidoreductase subunit N compare
PP_4964 -2.1 -3.5 D-erythrose 4-phosphate dehydrogenase compare
PP_5248 -2.1 -1.6 putative hydrolase compare
PP_1198 -2.1 -2.2 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_4342 -2.0 -3.9 flagellar synthesis regulator, putative ATPase compare
PP_4130 -2.0 -4.8 NADH:ubiquinone oxidoreductase, membrane subunit M compare
PP_2031 -2.0 -2.7 conserved protein of unknown function compare
PP_4126 -2.0 -1.2 NADH-quinone oxidoreductase subunit I compare
PP_4129 -2.0 -3.7 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_1036 -1.9 -7.1 membrane-bound lytic murein transglycosylase F compare
PP_1734 -1.9 -3.1 Probable septum site-determining protein MinC compare
PP_4880 -1.9 -8.7 exoribonuclease R compare
PP_2378 -1.9 -2.6 Fe/S biogenesis protein NfuA compare
PP_3946 -1.9 -1.2 HTH-type transcriptional repressor NicR compare
PP_0406 -1.9 -2.5 Nucleotidyltransferase family protein compare
PP_2302 -1.9 -4.1 DNA-binding, ATP-dependent protease compare
PP_3904 -1.8 -3.0 conserved protein of unknown function compare
PP_5508 -1.8 -1.3 conserved protein of unknown function compare
PP_0949 -1.8 -4.9 putative ATP-binding protein UPF0042 compare
PP_2029 -1.8 -2.4 von Willebrand factor type A domain protein compare
PP_1764 -1.8 -2.4 Phosphoglycolate phosphatase 2 compare
PP_4546 -1.8 -3.8 ATP-dependent helicase HrpA compare
PP_1088 -1.8 -5.0 Argininosuccinate synthase compare
PP_4058 -1.8 -6.3 1,4-alpha-glucan branching enzyme compare
PP_0405 -1.7 -6.1 conserved protein of unknown function compare
PP_4121 -1.7 -4.6 NADH-quinone oxidoreductase subunit C/D compare
PP_5185 -1.7 -3.1 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_5028 -1.6 -3.7 proline iminopeptidase compare
PP_1629 -1.6 -3.7 Protein RecA compare
PP_1055 -1.6 -1.4 Type II secretion pathway protein GspN compare
PP_4824 -1.6 -5.6 Sensor histidine kinase/response regulator compare
PP_4720 -1.6 -1.7 putative RNA binding protein compare
PP_2403 -1.6 -1.4 Chemotaxis protein CheY compare
PP_0833 -1.6 -1.1 queuine tRNA-ribosyltransferase compare
PP_5202 -1.6 -1.7 putative cell division protein compare
PP_4263 -1.6 -2.6 putative membrane-bounded cytochrome biogenesis cycZ-like domain, copper tolerance protein compare
PP_0290 -1.5 -5.2 Imidazole glycerol phosphate synthase subunit HisH compare
PP_5027 -1.5 -1.0 D-tyrosyl-tRNA(Tyr) deacylase compare
PP_4943 -1.5 -1.2 putative Glycosyl transferase compare
PP_4936 -1.5 -5.4 O-antigen polymerase compare
PP_5095 -1.5 -0.7 pyrroline-5-carboxylate reductase compare
PP_0789 -1.5 -2.8 N-acetyl-anhydromuramyl-L-alanine-amidase compare
PP_4874 -1.5 -1.2 50S ribosomal protein L9 compare
PP_2337 -1.5 -2.0 aconitate isomerase compare
PP_5155 -1.5 -2.5 D-3-phosphoglycerate dehydrogenase / alpha-ketoglutarate reductase compare
PP_2568 -1.5 -1.4 Ring-cleaving dioxygenase compare
PP_0293 -1.5 -1.4 Imidazole glycerol phosphate synthase subunit HisF compare
PP_5146 -1.5 -4.8 RNA pyrophosphohydrolase compare
PP_4785 -1.5 -4.3 conserved exported protein of unknown function compare
PP_1317 -1.5 -2.6 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_5022 -1.5 -1.4 Glutamine transport ATP-binding protein GlnQ compare
PP_0184 -1.5 -3.1 Argininosuccinate lyase compare
PP_4942 -1.4 -2.3 conserved protein of unknown function compare
PP_0753 -1.4 -5.0 putative Lipoprotein compare
PP_5110 -1.4 -1.8 cytokinetic ring ABC transporter-like subunit - ATP-binding subunit compare
PP_5310 -1.4 -4.0 junction-specific ATP-dependent DNA helicase compare
PP_4268 -1.4 -1.2 nucleoid-associated broad specificity regulator compare
PP_1568 -1.4 -1.0 conserved protein of unknown function compare
PP_t29 -1.4 -1.3 tRNA-Ala compare
PP_0218 -1.4 -5.1 Sensory box protein compare
PP_2794 -1.4 -2.2 Oxidoreductase, short chain dehydrogenase/reductase family compare
PP_5350 -1.4 -2.6 Transcriptional regulator, RpiR family compare
PP_1355 -1.4 -6.8 Muropeptide permease AmpG compare
PP_4722 -1.4 -2.7 Transcription elongation factor GreA compare
PP_2370 -1.4 -1.7 conserved protein of unknown function compare
PP_4940 -1.4 -5.8 Putative glycosyltransferase compare
PP_4368 -1.3 -2.7 flagellar motor switch protein compare
PP_5327 -1.3 -2.5 putative phosphate ABC transporter, permease subunit compare
PP_4471 -1.3 -2.9 Magnesium transporter compare
PP_0951 -1.3 -4.1 Ribosome hibernation promoting factor compare
PP_4993 -1.3 -3.0 Glutathione synthetase compare
PP_2898 -1.3 -1.9 conserved exported protein of unknown function compare
PP_0435 -1.3 -5.0 Peptidase, M23/M37 family compare
PP_0401 -1.3 -2.1 Ribosomal RNA small subunit methyltransferase A compare
PP_1224 -1.3 -2.3 periplasmic subunit of the TolQRA transport system compare
PP_2027 -1.3 -4.3 conserved exported protein of unknown function compare
PP_2442 -1.3 -1.7 conserved protein of unknown function, DUF480 family compare
PP_4271 -1.2 -0.7 conserved protein of unknown function compare
PP_3239 -1.2 -1.5 putative cointegrate resolution protein T Tn4652 compare
PP_2903 -1.2 -1.6 peptidyl-prolyl cis-trans isomerase B (rotamase B) compare
PP_5SB -1.2 -1.7 5S ribosomal RNA compare
PP_1000 -1.2 -2.0 ornithine carbamoyltransferase, catabolic compare
PP_1293 -1.2 -1.4 molybdopterin synthase small subunit compare
PP_4358 -1.2 -3.7 flagellar synthesis, switching and energizing component compare
PP_3460 -1.2 -0.8 quinohemoprotein amine dehydrogenase, gamma subunit compare
PP_5514 -1.2 -1.5 conserved protein of unknown function compare
PP_3378 -1.2 -1.6 putative 2-ketogluconokinase compare
PP_4892 -1.2 -3.4 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_3484 -1.2 -1.8 Response regulator receiver protein compare
PP_2999 -1.2 -1.1 Glyoxalase family protein compare
PP_0801 -1.2 -1.0 conserved exported protein of unknown function compare
PP_4700 -1.2 -0.8 pantothenate synthetase compare
PP_0434 -1.2 -3.2 Anhydro-N-acetylmuramic acid kinase compare
PP_3821 -1.2 -5.1 UTP-glucose-1-phosphate uridylyltransferase compare
PP_2723 -1.1 -3.6 Uncharacterized oxidoreductase YhdF compare
PP_2510 -1.1 -0.9 conserved protein of unknown function compare
PP_4988 -1.1 -4.0 signal transduction histidine kinase CheA/CheY-like receiver compare
PP_1237 -1.1 -1.0 4-hydroxy-tetrahydrodipicolinate synthase compare
PP_3824 -1.1 -1.5 conserved exported protein of unknown function compare
PP_5502 -1.1 -2.7 ribosome modulation factor compare
PP_4917 -1.1 -2.8 3',5'-cyclic-nucleotide phosphodiesterase compare
PP_1455 -1.1 -2.7 conserved protein of unknown function compare
PP_5500 -1.1 -1.6 protein of unknown function compare
PP_5748 -1.1 -1.2 cytochrome c heme lyase subunit compare
PP_0007 -1.1 -1.2 conserved hypothetical protein compare
PP_0214 -1.1 -3.9 4-aminobutyrate aminotransferase compare
PP_0627 -1.1 -1.3 conserved protein of unknown function compare
PP_0319 -1.1 -1.0 conserved protein of unknown function compare
PP_1986 -1.1 -2.2 3-isopropylmalate dehydratase small subunit compare
PP_0872 -1.1 -3.0 Peptide chain release factor 3 compare
PP_2328 -1.1 -2.3 Phosphoadenosine phosphosulfate reductase compare
PP_1598 -1.1 -3.1 regulatory intramembrane protein RIP zinc protease compare
PP_0125 -1.1 -2.1 putative cytochrome c-type protein compare
PP_4517 -1.1 -1.4 conserved protein of unknown function compare
PP_0508 -1.0 -1.9 conserved exported protein of unknown function compare
PP_0306 -1.0 -1.6 conserved protein of unknown function compare
PP_5230 -1.0 -1.4 Tyrosine recombinase XerC compare
PP_0948 -1.0 -1.1 Phosphocarrier protein HPr compare
PP_5090 -1.0 -0.9 putative cell division protein compare
PP_0152 -1.0 -1.1 conserved exported protein of unknown function compare
PP_5279 -1.0 -1.5 conserved protein of unknown function compare
PP_2214 -1.0 -1.9 3-hydroxyacyl-CoA dehydrogenase type-2 compare
PP_2028 -1.0 -1.8 conserved protein of unknown function containing tetratricopeptide (TPR) domain repeat compare
PP_3496 -1.0 -2.6 Endoribonuclease L-PSP compare
PP_5051 -1.0 -1.7 conserved protein of unknown function compare
PP_4938 -1.0 -3.6 putative Glycosyl transferase compare
PP_2475 -1.0 -2.1 Transcriptional regulator, TetR family compare
PP_0775 -1.0 -1.0 conserved protein of unknown function compare
PP_5486 -1.0 -0.9 conserved protein of unknown function compare
PP_4591 -1.0 -2.3 Ribonuclease D compare
PP_4369 -1.0 -4.0 Flagellar M-ring protein compare
PP_4337 -1.0 -3.4 chemotaxis response regulator protein-glutamate methylesterase of group 1 operon compare
PP_5014 -1.0 -1.5 Phosphoribosyl-AMP cyclohydrolase compare
PP_2939 -1.0 -2.6 toxin of the YefM-YoeB antitoxin/toxin complex and DNA-binding transcriptional repressor compare
PP_2539 -1.0 -3.2 Transcriptional regulator, LysR family compare
PP_1397 -0.9 -2.1 conserved protein of unknown function compare
PP_4361 -0.9 -2.8 Flagellar hook-length control protein FliK compare
PP_1730 -0.9 -3.4 Probable M18 family aminopeptidase 2 compare
PP_3359 -0.9 -1.9 putative Hydroxycinnamic acid degradation regulator compare
PP_3002 -0.9 -2.1 shikimate dehydrogenase-related enzyme compare
PP_t11 -0.9 -1.7 tRNA-Lys compare
PP_0276 -0.9 -0.8 Transcriptional regulator, Cro/CI family compare
PP_1058 -0.9 -6.6 conserved protein of unknown function compare
PP_4662 -0.9 -1.6 conserved protein of unknown function compare
PP_5329 -0.9 -1.9 putative phosphate ABC transporter, periplasmic phosphate-binding protein compare
PP_5058 -0.9 -2.5 Carboxy-terminal-processing protease compare
PP_4370 -0.9 -1.1 Flagellar hook-basal body complex protein FliE compare
PP_2144 -0.9 -2.3 Transcriptional regulator, TetR family compare
PP_0063 -0.9 -1.6 putative Lipid A biosynthesis lauroyl acyltransferase compare
PP_4067 -0.9 -3.0 methylcrotonyl-CoA carboxylase biotin-containing subunit alpha compare
PP_3035 -0.9 -1.3 conserved protein of unknown function compare
PP_4204 -0.9 -2.5 antitoxin of the type II toxin-antitoxin MqsRA system and DNA-binding transcriptional repressor compare
PP_0191 -0.9 -1.4 Transcriptional regulatory protein AlgQ compare
PP_2857 -0.9 -1.0 conserved exported protein of unknown function compare
PP_2800 -0.9 -2.6 putative Diaminobutyrate-2-oxoglutarate transaminase 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