Experiment set25IT033 for Pseudomonas putida KT2440

Compare to:

Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs

200 most important genes:

  gene name fitness t score description  
PP_1623 -7.8 -10.3 RNA polymerase, sigma S (sigma 38) factor compare
PP_0760 -7.6 -3.2 conserved membrane protein of unknown function compare
PP_1778 -6.9 -4.7 Lipopolysaccharide ABC export system, permease protein compare
PP_1779 -6.8 -4.7 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_0951 -6.6 -9.1 Ribosome hibernation promoting factor compare
PP_4994 -6.1 -3.8 conserved protein of unknown function compare
PP_3484 -6.0 -6.0 Response regulator receiver protein compare
PP_0164 -5.9 -4.1 conserved protein of unknown function compare
PP_0396 -5.9 -17.3 conserved protein of unknown function compare
PP_1898 -5.8 -2.6 MotA/TolQ/ExbB proton channel family protein compare
PP_2433 -5.7 -2.5 conserved protein of unknown function compare
PP_4517 -5.6 -2.1 conserved protein of unknown function compare
PP_4058 -5.6 -6.6 1,4-alpha-glucan branching enzyme compare
PP_0293 -5.6 -1.8 Imidazole glycerol phosphate synthase subunit HisF compare
PP_1198 -5.3 -3.6 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_4726 -5.2 -2.4 Chaperone protein DnaJ compare
PP_5014 -5.2 -2.7 Phosphoribosyl-AMP cyclohydrolase compare
PP_4355 -5.1 -1.3 flagellar export apparatus subunit compare
PP_t12 -4.9 -0.9 tRNA-Thr compare
PP_4902 -4.9 -2.6 Oligoribonuclease compare
PP_0395 -4.9 -15.7 putative type IV piliation protein compare
PP_2862 -4.8 -8.2 Undecaprenyl-diphosphatase compare
PP_2414 -4.7 -2.2 conserved exported protein of unknown function compare
PP_4943 -4.7 -1.9 putative Glycosyl transferase compare
PP_4337 -4.7 -5.4 chemotaxis response regulator protein-glutamate methylesterase of group 1 operon compare
PP_0397 -4.7 -15.0 protein kinase compare
PP_4358 -4.7 -6.5 flagellar synthesis, switching and energizing component compare
PP_1986 -4.7 -2.6 3-isopropylmalate dehydratase small subunit compare
PP_4143 -4.6 -3.9 conserved protein of unknown function compare
PP_4890 -4.5 -5.1 ATP phosphoribosyltransferase regulatory subunit compare
PP_4385 -4.5 -4.1 flagellar basal-body rod protein FlgG compare
PP_3511 -4.4 -8.2 Branched-chain-amino-acid aminotransferase compare
PP_5289 -4.4 -3.4 Acetylglutamate kinase compare
PP_3649 -4.3 -4.8 Transcriptional regulator, GntR family compare
PP_4342 -4.2 -2.7 flagellar synthesis regulator, putative ATPase compare
PP_4341 -4.1 -6.0 RNA polymerase sigma 28 (sigma F) factor for class III flagellar operons compare
PP_5185 -4.1 -6.5 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_3946 -4.1 -1.1 HTH-type transcriptional repressor NicR compare
PP_1088 -4.1 -11.4 Argininosuccinate synthase compare
PP_4910 -4.0 -2.8 conserved protein of unknown function compare
PP_0406 -3.9 -2.2 Nucleotidyltransferase family protein compare
PP_1215 -3.9 -1.7 Crossover junction endodeoxyribonuclease RuvC compare
PP_4471 -3.8 -6.2 Magnesium transporter compare
PP_5502 -3.8 -2.8 ribosome modulation factor compare
PP_1186 -3.7 -2.0 two component system DNA-binding transcriptional dual regulator compare
PP_5309 -3.7 -5.1 oxidative and nitrosative stress transcriptional dual regulator compare
PP_2144 -3.7 -4.9 Transcriptional regulator, TetR family compare
PP_4937 -3.7 -5.0 toluene tolerance protein compare
PP_3821 -3.6 -9.6 UTP-glucose-1-phosphate uridylyltransferase compare
PP_0184 -3.6 -5.0 Argininosuccinate lyase compare
PP_4383 -3.6 -2.5 Flagellar P-ring protein compare
PP_2402 -3.5 -1.7 putative Sensor histidine kinase compare
PP_0966 -3.4 -6.6 Histidinol dehydrogenase compare
PP_4375 -3.4 -8.2 flagellar chaperone, inhibits premature FliC assembly compare
PP_4369 -3.4 -5.2 Flagellar M-ring protein compare
PP_2145 -3.3 -2.8 beta-N-acetylglucosaminidase compare
PP_2568 -3.3 -1.1 Ring-cleaving dioxygenase compare
PP_4938 -3.3 -9.0 putative Glycosyl transferase compare
PP_4367 -3.3 -3.7 Flagellar assembly protein FliH compare
PP_1428 -3.3 -1.5 Sigma factor AlgU negative regulatory protein compare
PP_1310 -3.2 -2.6 conserved hypothetical protein compare
PP_2121 -3.2 -1.8 putative Lipoprotein compare
PP_4008 -3.2 -5.5 ATP-dependent serine protease compare
PP_1734 -3.2 -4.0 Probable septum site-determining protein MinC compare
PP_4680 -3.1 -10.7 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_4880 -3.1 -9.8 exoribonuclease R compare
PP_0290 -3.1 -4.8 Imidazole glycerol phosphate synthase subunit HisH compare
PP_0035 -3.0 -2.0 putative bactoprenol-linked glycose transferase compare
PP_0123 -3.0 -8.7 DNA polymerase I, 5 compare
PP_4936 -3.0 -5.4 O-antigen polymerase compare
PP_2378 -3.0 -1.8 Fe/S biogenesis protein NfuA compare
PP_0435 -3.0 -8.6 Peptidase, M23/M37 family compare
PP_4941 -3.0 -7.2 conserved exported protein of unknown function compare
PP_0276 -2.9 -0.9 Transcriptional regulator, Cro/CI family compare
PP_4678 -2.9 -8.9 Ketol-acid reductoisomerase compare
PP_0025 -2.9 -0.9 hypothetical protein compare
PP_4368 -2.9 -3.5 flagellar motor switch protein compare
PP_0185 -2.9 -8.0 Positive alginate biosynthesis regulatory protein compare
PP_2631 -2.8 -1.4 putative cellulose biosynthesis, BcsF/YhjT compare
PP_4380 -2.8 -10.0 Flagellar hook-associated protein FlgL compare
PP_0434 -2.8 -4.5 Anhydro-N-acetylmuramic acid kinase compare
PP_4344 -2.8 -6.4 flagellar export pore protein compare
PP_4376 -2.7 -7.3 flagellar filament capping protein compare
PP_5017 -2.7 -0.9 Sec-independent protein translocase protein TatB compare
PP_2720 -2.7 -1.0 conserved protein of unknown function compare
PP_0965 -2.7 -6.4 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
PP_5128 -2.7 -6.5 Dihydroxy-acid dehydratase compare
PP_1217 -2.7 -4.6 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_5514 -2.7 -2.3 conserved protein of unknown function compare
PP_0289 -2.7 -6.3 Imidazoleglycerol-phosphate dehydratase compare
PP_0292 -2.7 -2.6 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
PP_4004 -2.7 -3.7 DNA translocase FtsK compare
PP_4352 -2.7 -4.9 flagellin export apparatus, substrate specificity protein compare
PP_4381 -2.7 -7.1 Flagellar hook-associated protein FlgK compare
PP_4874 -2.6 -1.0 50S ribosomal protein L9 compare
PP_3052 -2.6 -1.0 conserved protein of unknown function compare
PP_2327 -2.6 -3.7 transcriptional dual regulator / CysB-O-acetyl-L-serine compare
PP_4378 -2.6 -8.5 flagellin, filament structural protein compare
PP_5310 -2.6 -5.9 junction-specific ATP-dependent DNA helicase compare
PP_1493 -2.6 -2.6 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_1318 -2.6 -5.0 Cytochrome b compare
PP_5327 -2.5 -2.5 putative phosphate ABC transporter, permease subunit compare
PP_4940 -2.5 -6.2 Putative glycosyltransferase compare
PP_4120 -2.5 -1.7 NADH-quinone oxidoreductase subunit B compare
PP_1319 -2.5 -3.8 Ubiquinol--cytochrome c reductase, cytochrome c1 compare
PP_5202 -2.5 -1.7 putative cell division protein compare
PP_2681 -2.5 -1.3 coenzyme PQQ synthesis protein D compare
PP_4129 -2.5 -1.7 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_1999 -2.5 -1.7 membrane protein required for colicin V production compare
PP_4388 -2.5 -6.7 Flagellar hook protein FlgE compare
PP_4382 -2.5 -4.2 Peptidoglycan hydrolase FlgJ compare
PP_4546 -2.5 -3.4 ATP-dependent helicase HrpA compare
PP_4875 -2.4 -3.9 conserved membrane protein of unknown function compare
PP_2348 -2.4 -5.0 Sensor histidine kinase compare
PP_4320 -2.4 -3.9 cytochrome c-type biogenesis protein compare
PP_0082 -2.4 -4.0 tryptophan synthase alpha chain compare
PP_1317 -2.4 -3.4 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_4389 -2.4 -4.0 Flagellar basal-body rod modification protein FlgD compare
PP_4555 -2.4 -2.2 conserved protein of unknown function compare
PP_4891 -2.4 -3.9 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_5328 -2.4 -1.8 putative phosphate transport system permease protein compare
PP_0150 -2.4 -1.9 conserved exported protein of unknown function compare
PP_4332 -2.4 -2.5 Chemotaxis protein CheW compare
PP_4942 -2.4 -2.6 conserved protein of unknown function compare
PP_4073 -2.4 -1.8 conserved exported protein of unknown function compare
PP_4386 -2.4 -2.7 flagellar basal-body rod protein FlgF compare
PP_4370 -2.3 -3.3 Flagellar hook-basal body complex protein FliE compare
PP_1355 -2.3 -6.4 Muropeptide permease AmpG compare
PP_4343 -2.3 -5.1 Flagellar biosynthesis protein FlhF compare
PP_4366 -2.3 -5.6 flagellum-specific ATP synthase compare
PP_1988 -2.3 -4.6 3-isopropylmalate dehydrogenase compare
PP_4268 -2.3 -0.8 nucleoid-associated broad specificity regulator compare
PP_4384 -2.3 -6.2 Flagellar L-ring protein compare
PP_5217 -2.3 -8.2 Polyphosphate kinase compare
PP_1804 -2.3 -6.0 Glycosyl transferase WbpL compare
PP_4361 -2.3 -5.9 Flagellar hook-length control protein FliK compare
PP_4124 -2.3 -3.1 NADH-quinone oxidoreductase subunit G compare
PP_5491 -2.2 -1.8 conserved protein of unknown function with SEC-C motif domain compare
PP_4944 -2.2 -3.0 Carbamoyltransferase compare
PP_1629 -2.2 -4.7 Protein RecA compare
PP_0963 -2.2 -2.2 putative BolA family protein compare
PP_2136 -2.2 -3.8 enoyl-CoA hydratase/3-hydroxyacyl-CoA dehydrogenase compare
PP_1938 -2.2 -1.5 conserved protein of unknown function compare
PP_5279 -2.2 -2.7 conserved protein of unknown function compare
PP_3401 -2.2 -3.5 conserved protein of unknown function compare
PP_2280 -2.2 -1.8 conserved protein of unknown function compare
PP_4365 -2.2 -3.6 Flagellar protein FliJ compare
PP_3833 -2.2 -2.8 Response regulator compare
PP_4391 -2.2 -4.9 flagellar basal-body rod protein FlgB compare
PP_2214 -2.2 -2.6 3-hydroxyacyl-CoA dehydrogenase type-2 compare
PP_4964 -2.1 -2.5 D-erythrose 4-phosphate dehydrogenase compare
PP_0513 -2.1 -1.7 DNA-binding transcriptional repressor NrdR-Zn2+-ATP/dATP compare
PP_4379 -2.1 -3.0 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_4263 -2.1 -2.8 putative membrane-bounded cytochrome biogenesis cycZ-like domain, copper tolerance protein compare
PP_5015 -2.1 -2.8 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
PP_0872 -2.1 -5.0 Peptide chain release factor 3 compare
PP_2302 -2.0 -4.1 DNA-binding, ATP-dependent protease compare
PP_4396 -2.0 -1.8 conserved protein of unknown function compare
PP_0368 -2.0 -8.4 putative Acyl-CoA dehydrogenase compare
PP_3919 -2.0 -2.2 conserved protein of unknown function compare
PP_0753 -2.0 -4.6 putative Lipoprotein compare
PP_4593 -2.0 -1.2 conserved protein of unknown function compare
PP_5145 -1.9 -6.2 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_4394 -1.9 -2.1 flagella basal body P-ring formation protein compare
PP_0832 -1.9 -3.2 S-adenosylmethionine:tRNA ribosyltransferase-isomerase compare
PP_1985 -1.9 -2.5 3-isopropylmalate dehydratase large subunit compare
PP_5146 -1.9 -5.1 RNA pyrophosphohydrolase compare
PP_4121 -1.9 -3.6 NADH-quinone oxidoreductase subunit C/D compare
PP_5155 -1.9 -2.7 D-3-phosphoglycerate dehydrogenase / alpha-ketoglutarate reductase compare
PP_4359 -1.9 -4.0 Flagellar protein FliL compare
PP_0967 -1.9 -6.3 histidinol-phosphate aminotransferase (EC 2.6.1.9) (from data) compare
PP_4699 -1.8 -2.8 3-methyl-2-oxobutanoate hydroxymethyltransferase compare
PP_3258 -1.8 -1.5 conserved protein of unknown function compare
PP_1994 -1.8 -1.7 tRNA pseudouridine (38-40)synthase compare
PP_0972 -1.8 -2.0 UPF0213 protein PP_0972 compare
PP_4227 -1.8 -1.2 conserved protein of unknown function compare
PP_4679 -1.8 -3.3 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_2929 -1.8 -6.2 Carboxynorspermidine/carboxyspermidine decarboxylase compare
PP_5294 -1.8 -3.8 Ribonuclease PH compare
PP_0834 -1.8 -1.3 Sec translocation complex subunit YajC compare
PP_3903 -1.8 -1.2 conserved protein of unknown function compare
PP_0948 -1.8 -1.0 Phosphocarrier protein HPr compare
PP_0547 -1.8 -2.2 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_5045 -1.8 -2.3 tRNA sulfurtransferase compare
PP_1001 -1.8 -2.7 arginine deiminase compare
PP_4532 -1.8 -1.4 ATP-dependent DEAD-box RNA helicase require for 50S ribosomal subunit biogenesis compare
PP_4390 -1.8 -2.4 flagellar basal-body rod protein FlgC compare
PP_4356 -1.8 -1.4 Flagellar protein FliO compare
PP_0801 -1.8 -0.9 conserved exported protein of unknown function compare
PP_4069 -1.8 -2.5 conserved protein of unknown function compare
PP_1322 -1.8 -1.3 putative Lipoprotein compare
PP_0377 -1.8 -1.2 coenzyme PQQ synthesis protein D compare
PP_1860 -1.7 -3.9 Organic hydroperoxide resistance transcriptional regulator compare
PP_5528 -1.7 -1.0 conserved protein of unknown function compare
PP_4353 -1.7 -2.5 Flagellar biosynthetic protein fliR compare
PP_1099 -1.7 -1.6 Cold shock protein CapB compare
PP_4131 -1.7 -4.3 NADH-quinone oxidoreductase subunit N compare
PP_2442 -1.7 -1.2 conserved protein of unknown function, DUF480 family compare
PP_4892 -1.7 -3.7 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_5533 -1.7 -1.0 conserved protein of unknown function compare


Specific Phenotypes

For 3 genes in this experiment

For soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs in Pseudomonas putida KT2440

For soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=288_hrs across organisms