Experiment set24IT084 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=none; SoilTreatmentTime=144_hrs

200 most important genes:

  gene name fitness t score description  
PP_1623 -6.2 -6.4 RNA polymerase, sigma S (sigma 38) factor compare
PP_0164 -6.1 -4.2 conserved protein of unknown function compare
PP_4943 -5.0 -3.1 putative Glycosyl transferase compare
PP_5309 -4.7 -5.6 oxidative and nitrosative stress transcriptional dual regulator compare
PP_4004 -4.3 -6.1 DNA translocase FtsK compare
PP_5338 -4.3 -2.9 aspartate ammonia-lyase compare
PP_4726 -4.0 -3.8 Chaperone protein DnaJ compare
PP_0406 -4.0 -2.7 Nucleotidyltransferase family protein compare
PP_2402 -3.9 -2.7 putative Sensor histidine kinase compare
PP_4902 -3.9 -3.8 Oligoribonuclease compare
PP_4058 -3.8 -11.7 1,4-alpha-glucan branching enzyme compare
PP_1778 -3.7 -6.7 Lipopolysaccharide ABC export system, permease protein compare
PP_1198 -3.7 -4.2 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_5185 -3.2 -5.5 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_2378 -3.2 -2.2 Fe/S biogenesis protein NfuA compare
PP_1734 -3.0 -5.5 Probable septum site-determining protein MinC compare
PP_4122 -3.0 -1.9 proton-pumping NADH:ubiquinone oxidoreductase, respiratory complex I, subunit E compare
PP_1088 -3.0 -8.3 Argininosuccinate synthase compare
PP_0789 -2.9 -6.5 N-acetyl-anhydromuramyl-L-alanine-amidase compare
PP_1733 -2.9 -3.0 membrane ATPase of the MinC-MinD-MinE system compare
PP_4199 -2.7 -1.3 putative Lipoprotein compare
PP_0547 -2.7 -3.7 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_2145 -2.6 -4.3 beta-N-acetylglucosaminidase compare
PP_1898 -2.6 -2.6 MotA/TolQ/ExbB proton channel family protein compare
PP_1779 -2.6 -4.8 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_4008 -2.6 -6.8 ATP-dependent serine protease compare
PP_4941 -2.6 -7.5 conserved exported protein of unknown function compare
PP_4942 -2.6 -3.2 conserved protein of unknown function compare
PP_5337 -2.5 -5.6 LysR family transcriptional regulator compare
PP_5090 -2.5 -2.8 putative cell division protein compare
PP_4131 -2.4 -4.6 NADH-quinone oxidoreductase subunit N compare
PP_4253 -2.4 -2.7 cytochrome c oxidase subunit, cbb3-type compare
PP_4471 -2.4 -5.2 Magnesium transporter compare
PP_4696 -2.4 -5.1 Nitrogen regulation protein NR(I) compare
PP_4124 -2.4 -2.3 NADH-quinone oxidoreductase subunit G compare
PP_4379 -2.4 -4.2 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_4261 -2.4 -5.7 cation-transporting P-type ATPase compare
PP_3649 -2.4 -4.9 Transcriptional regulator, GntR family compare
PP_4342 -2.4 -4.0 flagellar synthesis regulator, putative ATPase compare
PP_0184 -2.3 -5.1 Argininosuccinate lyase compare
PP_5327 -2.3 -3.5 putative phosphate ABC transporter, permease subunit compare
PP_4129 -2.3 -2.7 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_0218 -2.3 -7.7 Sensory box protein compare
PP_3484 -2.2 -3.4 Response regulator receiver protein compare
PP_5230 -2.2 -3.9 Tyrosine recombinase XerC compare
PP_0834 -2.1 -2.0 Sec translocation complex subunit YajC compare
PP_4368 -2.1 -4.2 flagellar motor switch protein compare
PP_3245 -2.1 -1.8 conserved protein of unknown function compare
PP_4120 -2.1 -3.8 NADH-quinone oxidoreductase subunit B compare
PP_4804 -2.1 -1.4 RlpA-like lipoprotein compare
PP_5095 -2.0 -1.1 pyrroline-5-carboxylate reductase compare
PP_1598 -2.0 -3.4 regulatory intramembrane protein RIP zinc protease compare
PP_2433 -2.0 -3.5 conserved protein of unknown function compare
PP_4337 -2.0 -4.4 chemotaxis response regulator protein-glutamate methylesterase of group 1 operon compare
PP_1237 -2.0 -0.9 4-hydroxy-tetrahydrodipicolinate synthase compare
PP_4262 -2.0 -1.9 Cytochrome oxidase maturation protein, cbb3-type compare
PP_4528 -2.0 -2.2 conserved protein of unknown function compare
PP_4369 -1.9 -5.5 Flagellar M-ring protein compare
PP_5471 -1.9 -1.9 putative response regulator receiver protein compare
PP_5017 -1.9 -1.3 Sec-independent protein translocase protein TatB compare
PP_1216 -1.9 -2.0 Holliday junction ATP-dependent DNA helicase RuvA compare
PP_4354 -1.9 -2.4 flagellar export apparatus subunit compare
PP_4376 -1.9 -7.9 flagellar filament capping protein compare
PP_4824 -1.9 -6.7 Sensor histidine kinase/response regulator compare
PP_2217 -1.9 -3.0 enoyl-CoA hydratase compare
PP_0127 -1.9 -3.7 Thiol:disulfide interchange protein compare
PP_1217 -1.9 -4.3 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_4997 -1.9 -1.5 pyrimidine operon regulatory protein/uracil phosphoribosyltransferase compare
PP_1036 -1.9 -7.1 membrane-bound lytic murein transglycosylase F compare
PP_4700 -1.9 -1.3 pantothenate synthetase compare
PP_4532 -1.9 -1.8 ATP-dependent DEAD-box RNA helicase require for 50S ribosomal subunit biogenesis compare
PP_4353 -1.9 -5.6 Flagellar biosynthetic protein fliR compare
PP_5289 -1.8 -1.6 Acetylglutamate kinase compare
PP_4994 -1.8 -3.1 conserved protein of unknown function compare
PP_1097 -1.8 -1.6 Methionine--tRNA ligase compare
PP_4367 -1.7 -3.2 Flagellar assembly protein FliH compare
PP_0435 -1.7 -5.4 Peptidase, M23/M37 family compare
PP_5533 -1.7 -1.6 conserved protein of unknown function compare
PP_4358 -1.7 -3.5 flagellar synthesis, switching and energizing component compare
PP_1232 -1.7 -5.6 conserved exported protein of unknown function compare
PP_4892 -1.7 -6.0 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_5146 -1.7 -5.3 RNA pyrophosphohydrolase compare
PP_1994 -1.7 -2.2 tRNA pseudouridine (38-40)synthase compare
PP_4396 -1.7 -2.3 conserved protein of unknown function compare
PP_4340 -1.7 -4.5 response regulator for chemotactic signal transduction compare
PP_0735 -1.6 -1.5 molybdopterin-synthase adenylyltransferase compare
PP_2336 -1.6 -2.2 aconitate hydratase 1 compare
PP_5328 -1.6 -2.1 putative phosphate transport system permease protein compare
PP_4880 -1.6 -7.2 exoribonuclease R compare
PP_2903 -1.6 -2.1 peptidyl-prolyl cis-trans isomerase B (rotamase B) compare
PP_5279 -1.6 -2.9 conserved protein of unknown function compare
PP_4380 -1.6 -9.1 Flagellar hook-associated protein FlgL compare
PP_1764 -1.5 -3.0 Phosphoglycolate phosphatase 2 compare
PP_2031 -1.5 -2.1 conserved protein of unknown function compare
PP_4381 -1.5 -7.4 Flagellar hook-associated protein FlgK compare
PP_4378 -1.5 -8.4 flagellin, filament structural protein compare
PP_5216 -1.5 -1.8 exopolyphosphatase compare
PP_4370 -1.5 -2.1 Flagellar hook-basal body complex protein FliE compare
PP_2070 -1.5 -1.5 Transcriptional regulator, AraC family compare
PP_4366 -1.5 -6.3 flagellum-specific ATP synthase compare
PP_5145 -1.5 -9.6 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_4251 -1.5 -1.8 cytochrome c oxidase subunit, cbb3-type compare
PP_4964 -1.5 -3.2 D-erythrose 4-phosphate dehydrogenase compare
PP_4382 -1.5 -7.4 Peptidoglycan hydrolase FlgJ compare
PP_4937 -1.5 -3.0 toluene tolerance protein compare
PP_4130 -1.5 -3.8 NADH:ubiquinone oxidoreductase, membrane subunit M compare
PP_4332 -1.5 -3.2 Chemotaxis protein CheW compare
PP_4389 -1.4 -4.8 Flagellar basal-body rod modification protein FlgD compare
PP_0250 -1.4 -2.0 heat shock protein Hsp15 involved in ribosome recycling compare
PP_0949 -1.4 -3.5 putative ATP-binding protein UPF0042 compare
PP_0395 -1.4 -7.0 putative type IV piliation protein compare
PP_2322 -1.4 -4.2 Major outer membrane lipoprotein compare
PP_1224 -1.4 -3.8 periplasmic subunit of the TolQRA transport system compare
PP_3532 -1.4 -1.7 Transcriptional regulator, AsnC family compare
PP_2720 -1.4 -1.3 conserved protein of unknown function compare
PP_4388 -1.4 -8.4 Flagellar hook protein FlgE compare
PP_2510 -1.4 -1.3 conserved protein of unknown function compare
PP_1317 -1.4 -2.3 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_0393 -1.4 -0.9 putative 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase compare
PP_4895 -1.4 -2.1 tRNA dimethylallyltransferase compare
PP_4375 -1.4 -4.3 flagellar chaperone, inhibits premature FliC assembly compare
PP_1214 -1.4 -1.3 putative transcriptional regulatory protein compare
PP_4365 -1.4 -2.7 Flagellar protein FliJ compare
PP_2302 -1.4 -3.8 DNA-binding, ATP-dependent protease compare
PP_5310 -1.4 -3.5 junction-specific ATP-dependent DNA helicase compare
PP_2160 -1.4 -3.4 NADPH-dependent 7-cyano-7-deazaguanine reductase compare
PP_1629 -1.4 -4.6 Protein RecA compare
PP_1318 -1.3 -4.1 Cytochrome b compare
PP_5045 -1.3 -2.7 tRNA sulfurtransferase compare
PP_1319 -1.3 -3.4 Ubiquinol--cytochrome c reductase, cytochrome c1 compare
PP_3821 -1.3 -4.4 UTP-glucose-1-phosphate uridylyltransferase compare
PP_0905 -1.3 -1.3 conserved exported protein of unknown function compare
PP_4066 -1.3 -3.4 methylglutaconyl-CoA hydratase compare
PP_4352 -1.3 -6.6 flagellin export apparatus, substrate specificity protein compare
PP_3102 -1.3 -2.6 conserved protein of unknown function compare
PP_4121 -1.3 -3.3 NADH-quinone oxidoreductase subunit C/D compare
PP_0022 -1.3 -1.0 hypothetical protein compare
PP_4391 -1.3 -4.2 flagellar basal-body rod protein FlgB compare
PP_3999 -1.3 -4.1 Uroporphyrinogen-III C-methyltransferase/Precorrin-2 dehydrogenase/Sirohydrochlorin ferrochelatase compare
PP_0673 -1.3 -0.9 conserved protein of unknown function compare
PP_5093 -1.3 -1.3 twitching motility protein compare
PP_4394 -1.3 -4.2 flagella basal body P-ring formation protein compare
PP_0065 -1.3 -2.0 NAD-binding component of TrK potassium transporter compare
PP_0125 -1.3 -1.7 putative cytochrome c-type protein compare
PP_0846 -1.2 -0.9 DnaK-like molecular chaperone specific for IscU compare
PP_0397 -1.2 -6.6 protein kinase compare
PP_2414 -1.2 -1.3 conserved exported protein of unknown function compare
PP_2030 -1.2 -2.8 conserved protein of unknown function compare
PP_1906 -1.2 -3.6 ribosomal large subunit pseudouridine synthase C compare
PP_1468 -1.2 -1.3 Tyrosine recombinase XerD compare
PP_4390 -1.2 -4.0 flagellar basal-body rod protein FlgC compare
PP_2088 -1.2 -1.8 RNA polymerase sigma factor SigX compare
PP_4333 -1.2 -3.0 CheW domain protein compare
PP_2029 -1.2 -1.7 von Willebrand factor type A domain protein compare
PP_4271 -1.2 -0.8 conserved protein of unknown function compare
PP_0401 -1.2 -1.8 Ribosomal RNA small subunit methyltransferase A compare
PP_0888 -1.2 -1.0 Photosynthetic apparatus regulatory protein RegA compare
PP_4470 -1.2 -3.1 putative transcriptional regulator (Arc domain-containing) compare
PP_4785 -1.2 -3.5 conserved exported protein of unknown function compare
PP_2214 -1.2 -2.1 3-hydroxyacyl-CoA dehydrogenase type-2 compare
PP_0951 -1.2 -3.6 Ribosome hibernation promoting factor compare
PP_1493 -1.2 -1.6 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_0434 -1.2 -2.6 Anhydro-N-acetylmuramic acid kinase compare
PP_4874 -1.2 -0.8 50S ribosomal protein L9 compare
PP_4909 -1.2 -3.6 phosphoserine phosphatase compare
PP_2073 -1.1 -2.5 Acetyltransferase, GNAT family compare
PP_1355 -1.1 -5.0 Muropeptide permease AmpG compare
PP_4344 -1.1 -4.6 flagellar export pore protein compare
PP_2144 -1.1 -2.2 Transcriptional regulator, TetR family compare
PP_2371 -1.1 -3.4 Sulphite reductase hemoprotein, beta subunit compare
PP_1729 -1.1 -1.0 conserved protein of unknown function compare
PP_4988 -1.1 -4.0 signal transduction histidine kinase CheA/CheY-like receiver compare
PP_4341 -1.1 -4.4 RNA polymerase sigma 28 (sigma F) factor for class III flagellar operons compare
PP_0405 -1.1 -4.2 conserved protein of unknown function compare
PP_4385 -1.1 -3.1 flagellar basal-body rod protein FlgG compare
PP_1268 -1.1 -1.6 putative HtrA suppressor protein sohA compare
PP_5597 -1.1 -1.5 conserved protein of unknown function compare
PP_4343 -1.1 -3.6 Flagellar biosynthesis protein FlhF compare
PP_4482 -1.1 -2.2 Transcriptional regulator, AraC family compare
PP_0984 -1.1 -2.2 conserved membrane protein of unknown function compare
PP_5350 -1.1 -1.6 Transcriptional regulator, RpiR family compare
PP_4384 -1.1 -4.4 Flagellar L-ring protein compare
PP_1428 -1.1 -1.1 Sigma factor AlgU negative regulatory protein compare
PP_4098 -1.1 -1.6 UvrABC system protein C compare
PP_4364 -1.1 -1.6 putative Anti-sigma F factor antagonist compare
PP_2756 -1.1 -2.3 conserved protein of unknown function compare
PP_2737 -1.1 -1.4 Oxidoreductase, short-chain dehydrogenase/reductase family compare
PP_4136 -1.1 -1.1 Transcriptional regulator, LuxR family compare
PP_4065 -1.0 -3.7 methylcrotonyl-CoA carboxylase biotin-containing subunit beta compare
PP_0236 -1.0 -2.3 NAD(P)H-dependent FMN reductase subunit compare
PP_0914 -1.0 -4.1 GGDEF domain protein compare
PP_3989 -1.0 -2.3 DNA-cytosine methyltransferase compare
PP_4296 -1.0 -1.4 conserved exported protein of unknown function compare
PP_0725 -1.0 -2.4 conserved hypothetical TPR repeat protein compare
PP_4504 -1.0 -1.2 conserved exported protein of unknown function compare
PP_4944 -1.0 -2.7 Carbamoyltransferase compare
PP_0191 -1.0 -2.4 Transcriptional regulatory protein AlgQ compare
PP_0123 -1.0 -4.6 DNA polymerase I, 5 compare
PP_4940 -1.0 -3.3 Putative glycosyltransferase compare
PP_4917 -1.0 -2.3 3',5'-cyclic-nucleotide phosphodiesterase 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=none; SoilTreatmentTime=144_hrs across organisms