Experiment set23IT060 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_2253 -6.7 -2.5 Transcriptional regulator, GntR family compare
PP_4364 -6.6 -3.8 putative Anti-sigma F factor antagonist compare
PP_2903 -6.6 -2.5 peptidyl-prolyl cis-trans isomerase B (rotamase B) compare
PP_5313 -6.6 -2.8 DNA-binding protein HU-alpha compare
PP_1623 -6.2 -6.5 RNA polymerase, sigma S (sigma 38) factor compare
PP_1328 -6.0 -2.2 Protein MraZ compare
PP_4994 -5.9 -4.1 conserved protein of unknown function compare
PP_0232 -5.6 -1.2 ATP-binding taurine transporter subunit compare
PP_1898 -5.6 -3.0 MotA/TolQ/ExbB proton channel family protein compare
PP_5508 -5.4 -1.2 conserved protein of unknown function compare
PP_4532 -5.3 -2.6 ATP-dependent DEAD-box RNA helicase require for 50S ribosomal subunit biogenesis compare
PP_0164 -5.1 -3.5 conserved protein of unknown function compare
PP_4720 -5.0 -2.5 putative RNA binding protein compare
PP_3241 -5.0 -1.1 conserved exported protein of unknown function compare
PP_5289 -5.0 -3.2 Acetylglutamate kinase compare
PP_4213 -4.8 -2.7 putative dipeptidase compare
PP_5017 -4.7 -1.0 Sec-independent protein translocase protein TatB compare
PP_5185 -4.7 -3.2 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_3245 -4.6 -1.4 conserved protein of unknown function compare
PP_0022 -4.5 -1.0 hypothetical protein compare
PP_4902 -4.5 -2.8 Oligoribonuclease compare
PP_4701 -4.5 -1.0 glucose-6-phosphate isomerase compare
PP_1214 -4.4 -2.3 putative transcriptional regulatory protein compare
PP_3883 -4.4 -2.7 putative Phage holin compare
PP_3926 -4.4 -1.3 short-chain dehydrogenase compare
PP_1088 -4.1 -10.0 Argininosuccinate synthase compare
PP_0001 -3.9 -1.7 probable chromosome-partitioning protein compare
PP_0184 -3.9 -2.7 Argininosuccinate lyase compare
PP_5569 -3.7 -3.1 protein of unknown function of phage origin compare
PP_0832 -3.7 -2.5 S-adenosylmethionine:tRNA ribosyltransferase-isomerase compare
PP_1237 -3.6 -1.3 4-hydroxy-tetrahydrodipicolinate synthase compare
PP_3946 -3.6 -1.1 HTH-type transcriptional repressor NicR compare
PP_2160 -3.6 -3.9 NADPH-dependent 7-cyano-7-deazaguanine reductase compare
PP_3637 -3.5 -1.3 putative Sulfonate ABC transporter, ATP-binding protein compare
PP_4696 -3.5 -2.4 Nitrogen regulation protein NR(I) compare
PP_2328 -3.4 -5.7 Phosphoadenosine phosphosulfate reductase compare
PP_4699 -3.4 -4.6 3-methyl-2-oxobutanoate hydroxymethyltransferase compare
PP_2031 -3.3 -1.8 conserved protein of unknown function compare
PP_2302 -3.2 -4.9 DNA-binding, ATP-dependent protease compare
PP_1186 -3.2 -2.2 two component system DNA-binding transcriptional dual regulator compare
PP_3484 -3.1 -3.5 Response regulator receiver protein compare
PP_2433 -3.0 -2.1 conserved protein of unknown function compare
PP_4342 -3.0 -3.4 flagellar synthesis regulator, putative ATPase compare
PP_2217 -3.0 -2.1 enoyl-CoA hydratase compare
PP_4681 -2.9 -2.9 conserved protein of unknown function compare
PP_4004 -2.9 -3.6 DNA translocase FtsK compare
PP_4008 -2.9 -5.8 ATP-dependent serine protease compare
PP_5328 -2.9 -1.9 putative phosphate transport system permease protein compare
PP_5338 -2.9 -3.4 aspartate ammonia-lyase compare
PP_0949 -2.9 -6.1 putative ATP-binding protein UPF0042 compare
PP_4122 -2.9 -1.4 proton-pumping NADH:ubiquinone oxidoreductase, respiratory complex I, subunit E compare
PP_2378 -2.9 -1.9 Fe/S biogenesis protein NfuA compare
PP_0914 -2.8 -7.3 GGDEF domain protein compare
PP_4722 -2.7 -3.8 Transcription elongation factor GreA compare
PP_4952 -2.7 -1.6 ATP-dependent RNA helicase, specific for 23S rRNA compare
PP_3810 -2.7 -1.5 conserved protein of unknown function compare
PP_1994 -2.7 -1.7 tRNA pseudouridine (38-40)synthase compare
PP_0846 -2.7 -1.0 DnaK-like molecular chaperone specific for IscU compare
PP_3243 -2.6 -2.5 Acetyltransferase, GNAT family compare
PP_5393 -2.6 -1.3 putative metal-binding chaperone compare
PP_1764 -2.6 -2.7 Phosphoglycolate phosphatase 2 compare
PP_0547 -2.6 -3.4 UDP-N-acetylmuramate:L-alanyl-gamma-D-glutamyl- meso-diaminopimelate ligase compare
PP_1096 -2.6 -1.9 putative electron transport complex protein compare
PP_4829 -2.6 -2.1 putative precorrin-3B synthase compare
PP_4818 -2.5 -2.6 ribosomal protein L11 methyltransferase compare
PP_1629 -2.5 -5.4 Protein RecA compare
PP_1198 -2.5 -2.1 transcriptional regulator, Cro/CI family (higA antitoxin like) compare
PP_1679 -2.5 -1.4 Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase compare
PP_1428 -2.5 -1.8 Sigma factor AlgU negative regulatory protein compare
PP_4482 -2.5 -3.2 Transcriptional regulator, AraC family compare
PP_4531 -2.5 -2.9 conserved exported protein of unknown function compare
PP_1317 -2.5 -3.2 Ubiquinol-cytochrome c reductase iron-sulfur subunit compare
PP_5310 -2.5 -6.0 junction-specific ATP-dependent DNA helicase compare
PP_5337 -2.5 -4.0 LysR family transcriptional regulator compare
PP_2088 -2.5 -2.2 RNA polymerase sigma factor SigX compare
PP_1774 -2.5 -1.8 conserved exported protein of unknown function compare
PP_5580 -2.5 -1.3 protein of unknown function compare
PP_4199 -2.5 -0.9 putative Lipoprotein compare
PP_5309 -2.4 -1.7 oxidative and nitrosative stress transcriptional dual regulator compare
PP_1217 -2.4 -4.3 Holliday junction ATP-dependent DNA helicase RuvB compare
PP_2203 -2.4 -2.1 conserved protein of unknown function compare
PP_0254 -2.4 -2.2 conserved protein of unknown function compare
PP_5014 -2.4 -2.5 Phosphoribosyl-AMP cyclohydrolase compare
PP_1788 -2.4 -2.1 conserved protein of unknown function compare
PP_4131 -2.4 -3.6 NADH-quinone oxidoreductase subunit N compare
PP_3808 -2.3 -1.1 Antibiotic synthesis protein MbtH compare
PP_0852 -2.3 -2.1 Transcriptional regulator, Cro/CI family compare
PP_4993 -2.3 -3.6 Glutathione synthetase compare
PP_5610 -2.3 -1.4 protein of unknown function compare
PP_0872 -2.3 -4.9 Peptide chain release factor 3 compare
PP_0246 -2.3 -1.4 two-component system DNA-binding response transcriptional dual regulator compare
PP_4058 -2.3 -5.7 1,4-alpha-glucan branching enzyme compare
PP_4824 -2.2 -6.5 Sensor histidine kinase/response regulator compare
PP_t11 -2.2 -2.1 tRNA-Lys compare
PP_2309 -2.2 -1.1 conserved protein of unknown function compare
PP_4941 -2.2 -4.9 conserved exported protein of unknown function compare
PP_4379 -2.2 -2.8 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_5652 -2.2 -1.6 conserved protein of unknown function, phage origin compare
PP_2510 -2.2 -1.3 conserved protein of unknown function compare
PP_5198 -2.2 -2.2 conserved protein of unknown function compare
PP_0735 -2.2 -1.4 molybdopterin-synthase adenylyltransferase compare
PP_3874 -2.1 -2.1 conserved protein of unknown function compare
PP_0082 -2.1 -3.3 tryptophan synthase alpha chain compare
PP_4892 -2.1 -5.7 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare
PP_4546 -2.1 -4.3 ATP-dependent helicase HrpA compare
PP_1783 -2.1 -1.4 dTDP-glucose pyrophosphorylase compare
PP_1319 -2.1 -3.1 Ubiquinol--cytochrome c reductase, cytochrome c1 compare
PP_2044 -2.0 -1.0 conserved inner membrane protein of unknown function compare
PP_1493 -2.0 -2.1 chemotaxis response regulator protein-glutamate methylesterase of group 3 operon compare
PP_5216 -2.0 -1.1 exopolyphosphatase compare
PP_1763 -2.0 -2.3 putative oxidoreductase compare
PP_t10 -2.0 -1.2 tRNA-Pro compare
PP_4944 -2.0 -2.9 Carbamoyltransferase compare
PP_0937 -2.0 -4.2 endoribonuclease G (RNAse G) compare
PP_0513 -2.0 -1.5 DNA-binding transcriptional repressor NrdR-Zn2+-ATP/dATP compare
PP_4785 -2.0 -2.9 conserved exported protein of unknown function compare
PP_1099 -2.0 -1.6 Cold shock protein CapB compare
PP_2820 -2.0 -2.2 HTH-type transcriptional regulator nfxB compare
PP_2475 -1.9 -2.8 Transcriptional regulator, TetR family compare
PP_1779 -1.9 -3.0 Lipopolysaccharide ABC export system, ATP-binding protein compare
PP_1778 -1.9 -3.3 Lipopolysaccharide ABC export system, permease protein compare
PP_0305 -1.9 -1.4 HTH-type transcriptional regulator CdhR compare
PP_5701 -1.9 -1.1 conserved protein of unknown function compare
PP_3999 -1.9 -4.3 Uroporphyrinogen-III C-methyltransferase/Precorrin-2 dehydrogenase/Sirohydrochlorin ferrochelatase compare
PP_0123 -1.9 -5.5 DNA polymerase I, 5 compare
PP_4936 -1.8 -3.4 O-antigen polymerase compare
PP_5230 -1.8 -2.0 Tyrosine recombinase XerC compare
PP_4880 -1.7 -6.1 exoribonuclease R compare
PP_2446 -1.7 -1.8 conserved exported protein of unknown function compare
PP_4726 -1.7 -1.7 Chaperone protein DnaJ compare
PP_5748 -1.7 -1.2 cytochrome c heme lyase subunit compare
PP_5184 -1.7 -3.5 glutamylpolyamine synthetase compare
PP_5028 -1.7 -2.8 proline iminopeptidase compare
PP_1824 -1.7 -1.3 Smr domain protein compare
PP_0801 -1.7 -0.9 conserved exported protein of unknown function compare
PP_4098 -1.7 -1.8 UvrABC system protein C compare
PP_2951 -1.6 -3.0 Transcriptional regulator, TetR family compare
PP_1731 -1.6 -2.3 23S rRNA (746) and tRNA (32) pseudouridine synthase compare
PP_4690 -1.6 -1.7 Rieske 2Fe-2S family protein compare
PP_2756 -1.6 -1.1 conserved protein of unknown function compare
PP_5456 -1.6 -1.3 conserved protein of unknown function compare
PP_0874 -1.6 -0.9 conserved protein of unknown function compare
PP_2417 -1.6 -1.8 putative Iron ABC transporter, permease protein compare
PP_5058 -1.6 -2.6 Carboxy-terminal-processing protease compare
PP_5329 -1.6 -1.1 putative phosphate ABC transporter, periplasmic phosphate-binding protein compare
PP_4328 -1.6 -2.2 conserved protein of unknown function compare
PP_4126 -1.6 -0.8 NADH-quinone oxidoreductase subunit I compare
PP_4129 -1.6 -2.6 NADH:ubiquinone oxidoreductase, membrane subunit L compare
PP_2060 -1.6 -1.2 DNA-binding transcriptional dual regulator - SoxR-reversible one-electron oxidation of its [2Fe-2S] cluster, NADPH-dependent compare
PP_5146 -1.6 -4.5 RNA pyrophosphohydrolase compare
PP_5327 -1.5 -2.3 putative phosphate ABC transporter, permease subunit compare
PP_1876 -1.5 -1.7 putative ATP/GTP-binding protein of the AAA+ family compare
PP_4296 -1.5 -0.9 conserved exported protein of unknown function compare
PP_4875 -1.5 -1.6 conserved membrane protein of unknown function compare
PP_1233 -1.5 -1.8 sulfurtransferase compare
PP_4362 -1.5 -1.8 conserved protein of unknown function compare
PP_5145 -1.5 -7.0 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_2633 -1.5 -1.1 conserved protein of unknown function compare
PP_4356 -1.5 -1.3 Flagellar protein FliO compare
PP_0396 -1.5 -4.7 conserved protein of unknown function compare
PP_5525 -1.5 -1.4 conserved exported protein of unknown function compare
PP_4669 -1.5 -1.9 OmpA family protein compare
PP_2514 -1.5 -2.6 4-carboxy-4-hydroxy-2-oxoadipic acid aldolase compare
PP_2220 -1.5 -2.5 C4-type zinc finger protein, DksA/TraR family compare
PP_2402 -1.5 -1.4 putative Sensor histidine kinase compare
PP_0397 -1.5 -6.1 protein kinase compare
PP_0435 -1.5 -3.8 Peptidase, M23/M37 family compare
PP_0827 -1.5 -2.3 putative phosphonate transport system permease protein PtxC compare
PP_0214 -1.5 -3.2 4-aminobutyrate aminotransferase compare
PP_5107 -1.4 -1.9 Monofunctional biosynthetic peptidoglycan transglycosylase compare
PP_4917 -1.4 -2.4 3',5'-cyclic-nucleotide phosphodiesterase compare
PP_1548 -1.4 -1.5 conserved protein of unknown function compare
PP_0775 -1.4 -1.2 conserved protein of unknown function compare
PP_1318 -1.4 -2.9 Cytochrome b compare
PP_1442 -1.4 -1.4 conserved protein of unknown function compare
PP_0127 -1.4 -2.7 Thiol:disulfide interchange protein compare
PP_4308 -1.4 -1.8 Transcriptional regulator, AsnC family compare
PP_1208 -1.4 -0.6 conserved protein of unknown function, SlyX family compare
PP_5248 -1.4 -1.0 putative hydrolase compare
PP_2705 -1.4 -1.4 conserved protein of unknown function compare
PP_3649 -1.3 -2.3 Transcriptional regulator, GntR family compare
PP_0921 -1.3 -2.7 Transcriptional regulator, ArsR family compare
PP_0406 -1.3 -1.2 Nucleotidyltransferase family protein compare
PP_2540 -1.3 -1.8 Oxidoreductase, short-chain dehydrogenase/reductase family compare
PP_1734 -1.3 -2.2 Probable septum site-determining protein MinC compare
PP_4365 -1.3 -2.0 Flagellar protein FliJ compare
PP_1216 -1.3 -1.1 Holliday junction ATP-dependent DNA helicase RuvA compare
PP_4909 -1.3 -2.5 phosphoserine phosphatase compare
PP_5045 -1.3 -1.8 tRNA sulfurtransferase compare
PP_4069 -1.3 -1.7 conserved protein of unknown function compare
PP_5507 -1.3 -1.9 protein of unknown function compare
PP_4808 -1.3 -0.8 23S rRNA m3psi1915 methyltransferase compare
PP_5471 -1.3 -1.1 putative response regulator receiver protein compare
PP_3328 -1.3 -1.3 putative Ring-cleaving dioxygenase compare
PP_0276 -1.3 -0.8 Transcriptional regulator, Cro/CI family compare
PP_1410 -1.3 -0.7 conserved protein of unknown function compare
PP_0345 -1.3 -1.7 putative Heptose kinase WapP compare
PP_1000 -1.3 -2.6 ornithine carbamoyltransferase, catabolic compare
PP_5279 -1.3 -1.6 conserved protein of unknown function compare
PP_4891 -1.3 -2.3 integral membrane ATP-dependent zinc metallopeptidase / HflK-HflC complex compare


Specific Phenotypes

For 1 genes in this experiment

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 in Pseudomonas putida KT2440

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