Experiment set23IT059 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=72_hrs

200 most important genes:

  gene name fitness t score description  
PP_1623 -8.0 -8.5 RNA polymerase, sigma S (sigma 38) factor compare
PP_1898 -6.1 -3.4 MotA/TolQ/ExbB proton channel family protein compare
PP_0630 -5.2 -1.2 DNA gyrase inhibitor YacG compare
PP_5185 -5.2 -3.6 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_4199 -5.1 -1.2 putative Lipoprotein compare
PP_4902 -5.0 -3.2 Oligoribonuclease compare
PP_4726 -5.0 -2.7 Chaperone protein DnaJ compare
PP_4808 -4.9 -2.6 23S rRNA m3psi1915 methyltransferase compare
PP_5289 -4.9 -4.5 Acetylglutamate kinase compare
PP_0022 -4.8 -1.1 hypothetical protein compare
PP_2145 -4.6 -3.1 beta-N-acetylglucosaminidase compare
PP_5475 -4.6 -1.5 conserved protein of unknown function compare
PP_0775 -4.5 -2.4 conserved protein of unknown function compare
PP_0184 -4.3 -3.0 Argininosuccinate lyase compare
PP_4379 -4.3 -3.0 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_4262 -4.3 -2.4 Cytochrome oxidase maturation protein, cbb3-type compare
PP_0164 -4.3 -7.5 conserved protein of unknown function compare
PP_1779 -4.2 -7.1 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_1344 -4.2 -1.8 conserved protein of unknown function compare
PP_4943 -4.1 -2.1 putative Glycosyl transferase compare
PP_0065 -3.8 -2.6 NAD-binding component of TrK potassium transporter compare
PP_2214 -3.8 -4.1 3-hydroxyacyl-CoA dehydrogenase type-2 compare
PP_0949 -3.7 -6.6 putative ATP-binding protein UPF0042 compare
PP_0874 -3.5 -1.9 conserved protein of unknown function compare
PP_4008 -3.4 -6.6 ATP-dependent serine protease compare
PP_5328 -3.4 -2.3 putative phosphate transport system permease protein compare
PP_2378 -3.4 -2.3 Fe/S biogenesis protein NfuA compare
PP_1362 -3.2 -4.5 pyruvate kinase II compare
PP_1994 -3.2 -2.1 tRNA pseudouridine (38-40)synthase compare
PP_5533 -3.1 -1.7 conserved protein of unknown function compare
PP_3484 -3.1 -3.5 Response regulator receiver protein compare
PP_1906 -3.1 -3.0 ribosomal large subunit pseudouridine synthase C compare
PP_0846 -3.0 -1.2 DnaK-like molecular chaperone specific for IscU compare
PP_0832 -3.0 -4.6 S-adenosylmethionine:tRNA ribosyltransferase-isomerase compare
PP_4364 -3.0 -2.4 putative Anti-sigma F factor antagonist compare
PP_4546 -3.0 -4.0 ATP-dependent helicase HrpA compare
PP_t29 -2.9 -2.5 tRNA-Ala compare
PP_1088 -2.9 -6.4 Argininosuccinate synthase compare
PP_1198 -2.9 -3.0 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_4874 -2.9 -1.3 50S ribosomal protein L9 compare
PP_4964 -2.9 -2.0 D-erythrose 4-phosphate dehydrogenase compare
PP_4944 -2.8 -4.3 Carbamoyltransferase compare
PP_4342 -2.8 -4.2 flagellar synthesis regulator, putative ATPase compare
PP_1322 -2.8 -1.7 putative Lipoprotein compare
PP_2402 -2.7 -2.3 putative Sensor histidine kinase compare
PP_0547 -2.6 -3.6 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_5232 -2.6 -2.1 conserved protein of unknown function compare
PP_3064 -2.6 -1.7 Phage tail protein compare
PP_4120 -2.6 -1.8 NADH-quinone oxidoreductase subunit B compare
PP_5327 -2.5 -1.7 putative phosphate ABC transporter, permease subunit compare
PP_4058 -2.5 -6.1 1,4-alpha-glucan branching enzyme compare
PP_2328 -2.5 -4.3 Phosphoadenosine phosphosulfate reductase compare
PP_5216 -2.5 -1.4 exopolyphosphatase compare
PP_5054 -2.5 -2.5 glutaredoxin 3 compare
PP_4263 -2.4 -2.7 putative membrane-bounded cytochrome biogenesis cycZ-like domain, copper tolerance protein compare
PP_3447 -2.4 -1.4 conserved membrane protein of unknown function compare
PP_4696 -2.4 -4.1 Nitrogen regulation protein NR(I) compare
PP_1318 -2.4 -4.2 Cytochrome b compare
PP_5644 -2.4 -2.9 conserved membrane protein of unknown function compare
PP_4121 -2.3 -4.7 NADH-quinone oxidoreductase subunit C/D compare
PP_1912 -2.3 -4.2 Phosphate acyltransferase compare
PP_1826 -2.3 -2.4 Hydrolase, isochorismatase family compare
PP_0293 -2.3 -1.4 Imidazole glycerol phosphate synthase subunit HisF compare
PP_1493 -2.3 -2.6 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_1903 -2.3 -1.9 putative phosphotyrosine-protein phosphatase compare
PP_3580 -2.2 -2.2 conserved protein of unknown function compare
PP_4131 -2.2 -4.9 NADH-quinone oxidoreductase subunit N compare
PP_3649 -2.2 -3.1 Transcriptional regulator, GntR family compare
PP_5350 -2.2 -3.6 Transcriptional regulator, RpiR family compare
PP_4130 -2.2 -5.6 NADH:ubiquinone oxidoreductase, membrane subunit M compare
PP_4004 -2.2 -3.0 DNA translocase FtsK compare
PP_3519 -2.2 -1.2 putative Lipoprotein compare
PP_4941 -2.1 -4.4 conserved exported protein of unknown function compare
PP_5338 -2.1 -2.6 aspartate ammonia-lyase compare
PP_0401 -2.1 -2.4 Ribosomal RNA small subunit methyltransferase A compare
PP_0435 -2.0 -5.2 Peptidase, M23/M37 family compare
PP_5329 -2.0 -1.4 putative phosphate ABC transporter, periplasmic phosphate-binding protein compare
PP_1734 -2.0 -2.9 Probable septum site-determining protein MinC compare
PP_4124 -2.0 -4.4 NADH-quinone oxidoreductase subunit G compare
PP_4785 -2.0 -3.0 conserved exported protein of unknown function compare
PP_4966 -2.0 -1.4 transcriptional regulator of methionine metabolism compare
PP_0405 -2.0 -4.9 conserved protein of unknown function compare
PP_0127 -2.0 -2.0 Thiol:disulfide interchange protein compare
PP_4811 -2.0 -2.4 Gamma-glutamyl phosphate reductase compare
PP_1598 -2.0 -3.1 regulatory intramembrane protein RIP zinc protease compare
PP_4126 -2.0 -1.1 NADH-quinone oxidoreductase subunit I compare
PP_3164 -1.9 -2.7 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase compare
PP_0406 -1.9 -2.0 Nucleotidyltransferase family protein compare
PP_0396 -1.8 -6.0 conserved protein of unknown function compare
PP_0087 -1.8 -1.5 conserved exported protein of unknown function compare
PP_4993 -1.8 -3.4 Glutathione synthetase compare
PP_2337 -1.8 -2.3 aconitate isomerase compare
PP_4880 -1.8 -6.5 exoribonuclease R compare
PP_0984 -1.7 -1.7 conserved membrane protein of unknown function compare
PP_1355 -1.7 -4.3 Muropeptide permease AmpG compare
PP_4891 -1.7 -3.0 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_5486 -1.7 -1.4 conserved protein of unknown function compare
PP_2433 -1.7 -1.2 conserved protein of unknown function compare
PP_4722 -1.7 -3.3 Transcription elongation factor GreA compare
PP_1186 -1.6 -1.2 two component system DNA-binding transcriptional dual regulator compare
PP_0872 -1.6 -3.2 Peptide chain release factor 3 compare
PP_5146 -1.6 -3.3 RNA pyrophosphohydrolase compare
PP_0434 -1.6 -2.8 Anhydro-N-acetylmuramic acid kinase compare
PP_4343 -1.6 -3.0 Flagellar biosynthesis protein FlhF compare
PP_5001 -1.6 -1.3 protease HslVU, ATPase component compare
PP_4261 -1.6 -2.7 cation-transporting P-type ATPase compare
PP_5090 -1.6 -1.5 putative cell division protein compare
PP_4925 -1.6 -2.0 conserved protein of unknown function compare
PP_0914 -1.6 -3.7 GGDEF domain protein compare
PP_0801 -1.6 -1.0 conserved exported protein of unknown function compare
PP_1097 -1.6 -1.0 Methionine--tRNA ligase compare
PP_4848 -1.6 -1.6 Curved DNA-binding protein compare
PP_1082 -1.6 -2.9 bacterioferritin compare
PP_3926 -1.6 -1.1 short-chain dehydrogenase compare
PP_3295 -1.6 -3.5 YeeE/YedE family protein compare
PP_0833 -1.6 -1.0 queuine tRNA-ribosyltransferase compare
PP_4066 -1.5 -2.0 methylglutaconyl-CoA hydratase compare
PP_5145 -1.5 -8.7 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_4067 -1.5 -4.0 methylcrotonyl-CoA carboxylase biotin-containing subunit alpha compare
PP_2815 -1.5 -3.3 conserved protein of unknown function compare
PP_5095 -1.5 -0.7 pyrroline-5-carboxylate reductase compare
PP_4909 -1.5 -3.5 phosphoserine phosphatase compare
PP_1215 -1.5 -1.1 Crossover junction endodeoxyribonuclease RuvC compare
PP_4394 -1.5 -2.6 flagella basal body P-ring formation protein compare
PP_3999 -1.5 -3.8 Uroporphyrinogen-III C-methyltransferase/Precorrin-2 dehydrogenase/Sirohydrochlorin ferrochelatase compare
PP_5045 -1.5 -3.5 tRNA sulfurtransferase compare
PP_1778 -1.5 -4.1 Lipopolysaccharide ABC export system, permease protein compare
PP_4320 -1.5 -2.4 cytochrome c-type biogenesis protein compare
PP_5008 -1.5 -1.1 Poly granule-associated protein compare
PP_2160 -1.5 -2.3 NADPH-dependent 7-cyano-7-deazaguanine reductase compare
PP_4471 -1.5 -2.4 Magnesium transporter compare
PP_4129 -1.5 -2.3 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_4697 -1.5 -2.0 poly(A) polymerase compare
PP_5309 -1.4 -3.2 oxidative and nitrosative stress transcriptional dual regulator compare
PP_4358 -1.4 -3.3 flagellar synthesis, switching and energizing component compare
PP_4739 -1.4 -1.1 conserved protein of unknown function compare
PP_5597 -1.4 -0.7 conserved protein of unknown function compare
PP_0395 -1.4 -5.5 putative type IV piliation protein compare
PP_4396 -1.4 -2.2 conserved protein of unknown function compare
PP_1041 -1.4 -1.5 twin arginine protein export complex subunit compare
PP_3307 -1.4 -1.5 conserved protein of unknown function compare
PP_0397 -1.4 -5.9 protein kinase compare
PP_3596 -1.4 -3.5 D-lysine oxidase compare
PP_1217 -1.4 -2.6 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_2217 -1.4 -1.3 enoyl-CoA hydratase compare
PP_5278 -1.4 -2.9 4-guanidinobutyraldehyde dehydrogenase compare
PP_3883 -1.4 -0.9 putative Phage holin compare
PP_0951 -1.4 -4.1 Ribosome hibernation promoting factor compare
PP_4499 -1.4 -2.1 putative maturation enzyme compare
PP_2302 -1.4 -3.0 DNA-binding, ATP-dependent protease compare
PP_2336 -1.4 -2.5 aconitate hydratase 1 compare
PP_3908 -1.4 -1.5 conserved protein of unknown function compare
PP_2029 -1.4 -2.1 von Willebrand factor type A domain protein compare
PP_4994 -1.4 -1.4 conserved protein of unknown function compare
PP_4936 -1.4 -4.1 O-antigen polymerase compare
PP_4367 -1.4 -1.6 Flagellar assembly protein FliH compare
PP_4375 -1.4 -3.3 flagellar chaperone, inhibits premature FliC assembly compare
PP_1733 -1.4 -1.8 membrane ATPase of the MinC-MinD-MinE system compare
PP_1836 -1.4 -1.4 putative metal transporter, ZIP family compare
PP_2555 -1.3 -2.8 conserved protein of unknown function compare
PP_0197 -1.3 -1.7 conserved protein of unknown function compare
PP_4356 -1.3 -2.1 Flagellar protein FliO compare
PP_5295 -1.3 -1.5 conserved protein of unknown function compare
PP_1783 -1.3 -1.5 dTDP-glucose pyrophosphorylase compare
PP_4940 -1.3 -3.9 Putative glycosyltransferase compare
PP_3258 -1.3 -1.9 conserved protein of unknown function compare
PP_3094 -1.3 -1.1 conserved exported protein of unknown function compare
PP_5198 -1.3 -1.3 conserved protein of unknown function compare
PP_4988 -1.3 -3.9 signal transduction histidine kinase CheA/CheY-like receiver compare
PP_1575 -1.3 -1.4 conserved protein of unknown function compare
PP_2291 -1.3 -1.7 conserved protein of unknown function compare
PP_5483 -1.3 -1.4 conserved protein of unknown function compare
PP_0840 -1.3 -2.3 serine acetyltransferase compare
PP_5310 -1.3 -3.1 junction-specific ATP-dependent DNA helicase compare
PP_0760 -1.2 -2.1 conserved membrane protein of unknown function compare
PP_4620 -1.2 -4.0 Fumarylacetoacetase compare
PP_2088 -1.2 -1.3 RNA polymerase sigma factor SigX compare
PP_1001 -1.2 -2.0 arginine deiminase compare
PP_5267 -1.2 -0.8 putative cytochrome c5 compare
PP_3888 -1.2 -1.8 conserved protein of unknown function compare
PP_1692 -1.2 -1.9 conserved protein of unknown function compare
PP_4892 -1.2 -2.9 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_1036 -1.2 -3.2 membrane-bound lytic murein transglycosylase F compare
PP_2285 -1.2 -2.2 conserved exported protein of unknown function compare
PP_3591 -1.2 -2.1 Delta 1-piperideine-2-carboxylate reductase compare
PP_1317 -1.2 -1.8 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_0202 -1.2 -1.7 CBS domain-containing protein compare
PP_3938 -1.2 -1.1 conserved protein of unknown function compare
PP_4333 -1.2 -2.5 CheW domain protein compare
PP_0240 -1.2 -1.0 Aliphatic sulfonates import ATP-binding protein SsuB compare
PP_4470 -1.2 -0.6 putative transcriptional regulator (Arc domain-containing) compare
PP_4376 -1.2 -4.5 flagellar filament capping protein compare
PP_4381 -1.2 -4.2 Flagellar hook-associated protein FlgK compare
PP_0001 -1.2 -0.9 probable chromosome-partitioning protein compare
PP_4700 -1.1 -0.8 pantothenate synthetase compare
PP_0218 -1.1 -3.3 Sensory box protein compare
PP_4054 -1.1 -1.1 conserved protein of unknown function compare
PP_4695 -1.1 -4.8 Sensory box histidine kinase compare
PP_4797 -1.1 -1.1 conserved protein of unknown function compare
PP_4575 -1.1 -2.4 Urea amidolyase-related protein 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=72_hrs across organisms