Experiment set24IT060 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=72_hrs

200 most important genes:

  gene name fitness t score description  
PP_0164 -5.8 -4.0 conserved protein of unknown function compare
PP_1623 -4.9 -6.3 RNA polymerase, sigma S (sigma 38) factor compare
PP_1898 -3.9 -4.6 MotA/TolQ/ExbB proton channel family protein compare
PP_4696 -3.4 -4.1 Nitrogen regulation protein NR(I) compare
PP_1055 -3.3 -2.3 Type II secretion pathway protein GspN compare
PP_4058 -3.2 -12.8 1,4-alpha-glucan branching enzyme compare
PP_0406 -3.2 -3.7 Nucleotidyltransferase family protein compare
PP_1734 -3.2 -6.4 Probable septum site-determining protein MinC compare
PP_4994 -3.1 -4.8 conserved protein of unknown function compare
PP_5185 -3.1 -5.9 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_5289 -3.1 -4.2 Acetylglutamate kinase compare
PP_2402 -3.1 -2.9 putative Sensor histidine kinase compare
PP_0846 -3.0 -1.9 DnaK-like molecular chaperone specific for IscU compare
PP_1733 -2.7 -4.5 membrane ATPase of the MinC-MinD-MinE system compare
PP_4902 -2.7 -3.6 Oligoribonuclease compare
PP_4263 -2.7 -4.2 putative membrane-bounded cytochrome biogenesis cycZ-like domain, copper tolerance protein compare
PP_0065 -2.7 -4.4 NAD-binding component of TrK potassium transporter compare
PP_2307 -2.6 -3.2 conserved protein of unknown function compare
PP_0022 -2.6 -1.7 hypothetical protein compare
PP_1428 -2.6 -1.8 Sigma factor AlgU negative regulatory protein compare
PP_4726 -2.6 -4.2 Chaperone protein DnaJ compare
PP_5309 -2.6 -8.0 oxidative and nitrosative stress transcriptional dual regulator compare
PP_0218 -2.5 -8.4 Sensory box protein compare
PP_4356 -2.4 -5.4 Flagellar protein FliO compare
PP_1088 -2.4 -8.6 Argininosuccinate synthase compare
PP_4342 -2.4 -3.6 flagellar synthesis regulator, putative ATPase compare
PP_0184 -2.2 -5.4 Argininosuccinate lyase compare
PP_4910 -2.2 -3.4 conserved protein of unknown function compare
PP_0949 -2.2 -5.8 putative ATP-binding protein UPF0042 compare
PP_4131 -2.2 -4.2 NADH-quinone oxidoreductase subunit N compare
PP_4262 -2.0 -3.3 Cytochrome oxidase maturation protein, cbb3-type compare
PP_1779 -2.0 -4.8 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_4066 -2.0 -3.4 methylglutaconyl-CoA hydratase compare
PP_4874 -2.0 -1.3 50S ribosomal protein L9 compare
PP_5230 -2.0 -3.3 Tyrosine recombinase XerC compare
PP_1493 -1.9 -2.3 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_4358 -1.9 -6.8 flagellar synthesis, switching and energizing component compare
PP_4941 -1.9 -6.3 conserved exported protein of unknown function compare
PP_2378 -1.9 -2.5 Fe/S biogenesis protein NfuA compare
PP_1362 -1.9 -4.5 pyruvate kinase II compare
PP_4804 -1.8 -1.3 RlpA-like lipoprotein compare
PP_4124 -1.8 -3.0 NADH-quinone oxidoreductase subunit G compare
PP_0513 -1.8 -2.9 DNA-binding transcriptional repressor NrdR-Zn2+-ATP/dATP compare
PP_2214 -1.8 -3.8 3-hydroxyacyl-CoA dehydrogenase type-2 compare
PP_2121 -1.7 -2.5 putative Lipoprotein compare
PP_1778 -1.7 -4.9 Lipopolysaccharide ABC export system, permease protein compare
PP_0872 -1.7 -6.7 Peptide chain release factor 3 compare
PP_4008 -1.7 -5.2 ATP-dependent serine protease compare
PP_4353 -1.7 -4.5 Flagellar biosynthetic protein fliR compare
PP_5327 -1.7 -2.8 putative phosphate ABC transporter, permease subunit compare
PP_4369 -1.7 -6.2 Flagellar M-ring protein compare
PP_5337 -1.6 -4.4 LysR family transcriptional regulator compare
PP_2302 -1.6 -4.5 DNA-binding, ATP-dependent protease compare
PP_4126 -1.6 -1.1 NADH-quinone oxidoreductase subunit I compare
PP_4332 -1.6 -2.5 Chemotaxis protein CheW compare
PP_4386 -1.5 -5.6 flagellar basal-body rod protein FlgF compare
PP_4120 -1.5 -2.9 NADH-quinone oxidoreductase subunit B compare
PP_0888 -1.5 -3.0 Photosynthetic apparatus regulatory protein RegA compare
PP_1217 -1.5 -3.9 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_4098 -1.5 -1.4 UvrABC system protein C compare
PP_2054 -1.5 -3.6 putative DNA-binding transcriptional regulator compare
PP_4355 -1.5 -1.7 flagellar export apparatus subunit compare
PP_4482 -1.4 -2.7 Transcriptional regulator, AraC family compare
PP_4824 -1.4 -5.2 Sensor histidine kinase/response regulator compare
PP_4375 -1.4 -5.2 flagellar chaperone, inhibits premature FliC assembly compare
PP_4532 -1.4 -2.1 ATP-dependent DEAD-box RNA helicase require for 50S ribosomal subunit biogenesis compare
PP_4376 -1.4 -7.3 flagellar filament capping protein compare
PP_4380 -1.4 -8.4 Flagellar hook-associated protein FlgL compare
PP_1629 -1.4 -3.8 Protein RecA compare
PP_4379 -1.4 -2.7 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_4384 -1.4 -6.3 Flagellar L-ring protein compare
PP_2499 -1.4 -1.7 conserved protein of unknown function compare
PP_2336 -1.4 -1.3 aconitate hydratase 1 compare
PP_4370 -1.4 -2.0 Flagellar hook-basal body complex protein FliE compare
PP_1912 -1.4 -2.5 Phosphate acyltransferase compare
PP_4396 -1.4 -2.1 conserved protein of unknown function compare
PP_4344 -1.4 -6.4 flagellar export pore protein compare
PP_5338 -1.4 -2.8 aspartate ammonia-lyase compare
PP_4383 -1.4 -3.9 Flagellar P-ring protein compare
PP_2145 -1.4 -2.5 beta-N-acetylglucosaminidase compare
PP_5279 -1.4 -2.9 conserved protein of unknown function compare
PP_4891 -1.3 -3.9 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_1322 -1.3 -1.7 putative Lipoprotein compare
PP_5216 -1.3 -1.8 exopolyphosphatase compare
PP_4700 -1.3 -1.3 pantothenate synthetase compare
PP_2160 -1.3 -4.3 NADPH-dependent 7-cyano-7-deazaguanine reductase compare
PP_3241 -1.3 -1.3 conserved exported protein of unknown function compare
PP_4392 -1.3 -5.6 chemotaxis protein methyltransferase compare
PP_4361 -1.3 -4.8 Flagellar hook-length control protein FliK compare
PP_4067 -1.3 -5.2 methylcrotonyl-CoA carboxylase biotin-containing subunit alpha compare
PP_1328 -1.3 -1.8 Protein MraZ compare
PP_4909 -1.3 -4.1 phosphoserine phosphatase compare
PP_4004 -1.3 -3.1 DNA translocase FtsK compare
PP_3902 -1.3 -2.4 conserved protein of unknown function compare
PP_0405 -1.3 -5.6 conserved protein of unknown function compare
PP_4943 -1.3 -1.6 putative Glycosyl transferase compare
PP_4368 -1.3 -3.3 flagellar motor switch protein compare
PP_4359 -1.2 -5.6 Flagellar protein FliL compare
PP_0435 -1.2 -4.8 Peptidase, M23/M37 family compare
PP_4378 -1.2 -7.7 flagellin, filament structural protein compare
PP_4366 -1.2 -6.8 flagellum-specific ATP synthase compare
PP_0789 -1.2 -3.2 N-acetyl-anhydromuramyl-L-alanine-amidase compare
PP_3808 -1.2 -1.9 Antibiotic synthesis protein MbtH compare
PP_1215 -1.2 -2.2 Crossover junction endodeoxyribonuclease RuvC compare
PP_0290 -1.2 -4.2 Imidazole glycerol phosphate synthase subunit HisH compare
PP_4381 -1.2 -7.5 Flagellar hook-associated protein FlgK compare
PP_0855 -1.2 -1.4 conserved protein of unknown function compare
PP_4261 -1.2 -3.7 cation-transporting P-type ATPase compare
PP_2773 -1.2 -2.1 conserved protein of unknown function compare
PP_1598 -1.2 -4.0 regulatory intramembrane protein RIP zinc protease compare
PP_4720 -1.2 -1.2 putative RNA binding protein compare
PP_4365 -1.2 -3.7 Flagellar protein FliJ compare
PP_4338 -1.2 -6.7 Chemotaxis histidine kinase CheA compare
PP_0401 -1.2 -2.0 Ribosomal RNA small subunit methyltransferase A compare
PP_4354 -1.2 -1.9 flagellar export apparatus subunit compare
PP_4394 -1.2 -4.0 flagella basal body P-ring formation protein compare
PP_1036 -1.2 -4.8 membrane-bound lytic murein transglycosylase F compare
PP_4388 -1.2 -7.4 Flagellar hook protein FlgE compare
PP_3447 -1.2 -1.5 conserved membrane protein of unknown function compare
PP_1319 -1.1 -3.5 Ubiquinol--cytochrome c reductase, cytochrome c1 compare
PP_0393 -1.1 -0.8 putative 2-amino-4-hydroxy-6-hydroxymethyldihydropteridine pyrophosphokinase compare
PP_4471 -1.1 -4.1 Magnesium transporter compare
PP_4892 -1.1 -4.0 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_2088 -1.1 -1.7 RNA polymerase sigma factor SigX compare
PP_1214 -1.1 -1.5 putative transcriptional regulatory protein compare
PP_1062 -1.1 -1.8 MutT/nudix family protein compare
PP_0214 -1.1 -3.9 4-aminobutyrate aminotransferase compare
PP_4389 -1.1 -4.8 Flagellar basal-body rod modification protein FlgD compare
PP_1216 -1.1 -1.9 Holliday junction ATP-dependent DNA helicase RuvA compare
PP_1994 -1.1 -1.8 tRNA pseudouridine (38-40)synthase compare
PP_4340 -1.1 -2.8 response regulator for chemotactic signal transduction compare
PP_4875 -1.1 -2.6 conserved membrane protein of unknown function compare
PP_3649 -1.1 -2.9 Transcriptional regulator, GntR family compare
PP_4722 -1.1 -2.7 Transcription elongation factor GreA compare
PP_0725 -1.1 -2.9 conserved hypothetical TPR repeat protein compare
PP_5146 -1.1 -5.6 RNA pyrophosphohydrolase compare
PP_4546 -1.1 -2.6 ATP-dependent helicase HrpA compare
PP_1906 -1.1 -2.9 ribosomal large subunit pseudouridine synthase C compare
PP_4385 -1.1 -3.7 flagellar basal-body rod protein FlgG compare
PP_4121 -1.1 -2.4 NADH-quinone oxidoreductase subunit C/D compare
PP_1702 -1.1 -3.7 Recombination-associated protein RdgC compare
PP_4337 -1.1 -2.8 chemotaxis response regulator protein-glutamate methylesterase of group 1 operon compare
PP_5007 -1.1 -1.5 Polyhydroxyalkanoate granule-associated protein GA2 compare
PP_4352 -1.1 -6.1 flagellin export apparatus, substrate specificity protein compare
PP_1317 -1.0 -2.6 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_4268 -1.0 -1.1 nucleoid-associated broad specificity regulator compare
PP_3359 -1.0 -2.7 putative Hydroxycinnamic acid degradation regulator compare
PP_2631 -1.0 -2.0 putative cellulose biosynthesis, BcsF/YhjT compare
PP_4367 -1.0 -3.2 Flagellar assembly protein FliH compare
PP_2028 -1.0 -2.7 conserved protein of unknown function containing tetratricopeptide (TPR) domain repeat compare
PP_4069 -1.0 -2.2 conserved protein of unknown function compare
PP_2878 -1.0 -2.0 conserved protein of unknown function compare
PP_4382 -1.0 -5.3 Peptidoglycan hydrolase FlgJ compare
PP_5028 -1.0 -2.3 proline iminopeptidase compare
PP_1293 -1.0 -1.5 molybdopterin synthase small subunit compare
PP_1553 -1.0 -1.9 conserved protein of unknown function compare
PP_2217 -1.0 -2.4 enoyl-CoA hydratase compare
PP_0153 -1.0 -1.3 hypothetical protein compare
PP_0951 -1.0 -4.2 Ribosome hibernation promoting factor compare
PP_2633 -1.0 -1.4 conserved protein of unknown function compare
PP_3102 -1.0 -2.3 conserved protein of unknown function compare
PP_4253 -1.0 -1.5 cytochrome c oxidase subunit, cbb3-type compare
PP_4390 -1.0 -4.7 flagellar basal-body rod protein FlgC compare
PP_0083 -1.0 -3.6 tryptophan synthase beta chain compare
PP_2153 -1.0 -3.3 conserved protein of unknown function compare
PP_0396 -1.0 -5.8 conserved protein of unknown function compare
PP_0117 -1.0 -3.1 Zn(2+) ABC transporter - permease subunit compare
PP_1355 -1.0 -4.8 Muropeptide permease AmpG compare
PP_5155 -0.9 -2.7 D-3-phosphoglycerate dehydrogenase / alpha-ketoglutarate reductase compare
PP_4942 -0.9 -1.7 conserved protein of unknown function compare
PP_3821 -0.9 -5.8 UTP-glucose-1-phosphate uridylyltransferase compare
PP_0957 -0.9 -1.3 D-arabinose 5-phosphate isomerase compare
PP_1198 -0.9 -1.2 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_4343 -0.9 -3.5 Flagellar biosynthesis protein FlhF compare
PP_1224 -0.9 -3.3 periplasmic subunit of the TolQRA transport system compare
PP_0547 -0.9 -1.9 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_0293 -0.9 -0.8 Imidazole glycerol phosphate synthase subunit HisF compare
PP_2847 -0.9 -1.7 Urease accessory protein UreJ compare
PP_5294 -0.9 -3.4 Ribonuclease PH compare
PP_4785 -0.9 -2.8 conserved exported protein of unknown function compare
PP_5499 -0.9 -1.8 conserved protein of unknown function compare
PP_4264 -0.9 -3.8 oxygen-independent coproporphyrinogen III dehydrogenase compare
PP_5475 -0.9 -1.5 conserved protein of unknown function compare
PP_0127 -0.9 -3.4 Thiol:disulfide interchange protein compare
PP_1232 -0.9 -3.1 conserved exported protein of unknown function compare
PP_3280 -0.9 -2.2 3-oxoadipyl-CoA/3-oxo-5,6-dehydrosuberyl-CoA thiolase compare
PP_4964 -0.9 -2.0 D-erythrose 4-phosphate dehydrogenase compare
PP_3484 -0.9 -1.5 Response regulator receiver protein compare
PP_2456 -0.9 -4.0 D-ribose ABC transporter - permease subunit compare
PP_0345 -0.9 -1.9 putative Heptose kinase WapP compare
PP_4159 -0.9 -2.0 Potassium-transporting ATPase C chain compare
PP_5701 -0.9 -0.9 conserved protein of unknown function compare
PP_4988 -0.8 -3.6 signal transduction histidine kinase CheA/CheY-like receiver compare
PP_4341 -0.8 -4.1 RNA polymerase sigma 28 (sigma F) factor for class III flagellar operons compare
PP_1826 -0.8 -1.6 Hydrolase, isochorismatase family compare
PP_1318 -0.8 -3.0 Cytochrome b compare
PP_4828 -0.8 -0.8 Precorrin-8X methylmutase compare
PP_4697 -0.8 -2.2 poly(A) polymerase compare
PP_4880 -0.8 -4.2 exoribonuclease R compare
PP_0504 -0.8 -3.5 Outer membrane protein OprG 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=72_hrs across organisms