Experiment set23IT084 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=144_hrs

200 most detrimental genes:

  gene name fitness t score description  
PP_1655 +3.0 6.6 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD compare
PP_1656 +2.9 9.9 ATP:GTP 3'-pyrophosphotransferase compare
PP_1650 +1.9 17.9 Sensor protein GacS compare
PP_4099 +1.8 14.0 two-componenent system BarA/UvrY - regulatory subunit compare
PP_5241 +1.7 3.8 DNA-binding response regulator, LuxR family compare
PP_5528 +1.3 1.5 conserved protein of unknown function compare
PP_0566 +1.3 1.4 translation-related factor compare
PP_4373 +1.1 8.0 Transcriptional regulator FleQ compare
PP_1528 +1.1 1.4 conserved protein of unknown function compare
PP_4156 +1.1 3.0 Transcriptional regulator, LysR family compare
PP_0630 +1.1 1.4 DNA gyrase inhibitor YacG compare
PP_2387 +1.1 4.0 conserved protein of unknown function compare
PP_1096 +1.1 2.2 putative electron transport complex protein compare
PP_3136 +1.0 5.3 putative O-acetyltransferase compare
PP_3892 +1.0 1.5 conserved protein of unknown function compare
PP_4701 +0.9 1.1 glucose-6-phosphate isomerase compare
PP_4660 +0.9 2.2 Transcriptional regulator, LysR family compare
PP_3441 +0.9 4.5 conserved protein of unknown function compare
PP_2060 +0.9 1.5 DNA-binding transcriptional dual regulator - SoxR-reversible one-electron oxidation of its [2Fe-2S] cluster, NADPH-dependent compare
PP_5594 +0.9 2.4 conserved protein of unknown function compare
PP_0025 +0.9 1.2 hypothetical protein compare
PP_3765 +0.9 1.5 H-NS family protein MvaT compare
PP_2107 +0.8 1.5 conserved protein of unknown function compare
PP_0168 +0.8 7.3 putative surface adhesion protein compare
PP_2677 +0.8 1.8 conserved exported protein of unknown function compare
PP_2087 +0.8 1.4 CmpX protein compare
PP_3880 +0.8 1.4 conserved exported protein of unknown function compare
PP_4136 +0.8 1.2 Transcriptional regulator, LuxR family compare
PP_2388 +0.8 2.0 Transporter, LysE family compare
PP_4444 +0.8 2.7 transposase compare
PP_0182 +0.8 2.9 conserved protein of unknown function compare
PP_4871 +0.8 2.8 putative lysine decarboxylase family protein compare
PP_3866 +0.8 2.3 conserved protein of unknown function compare
PP_3903 +0.8 1.8 conserved protein of unknown function compare
PP_1186 +0.8 1.9 two component system DNA-binding transcriptional dual regulator compare
PP_3211 +0.8 2.9 ABC transporter, ATP-binding protein compare
PP_2122 +0.8 1.6 molybdenum cofactor biosynthesis protein B compare
PP_4254 +0.7 1.2 conserved protein of unknown function compare
PP_5359 +0.7 2.0 CobW/P47K family protein compare
PP_0509 +0.7 1.3 conserved protein of unknown function compare
PP_5571 +0.7 1.1 conserved protein of unknown function compare
PP_1554 +0.7 2.1 conserved protein of unknown function compare
PP_0685 +0.7 1.3 conserved protein of unknown function compare
PP_0167 +0.7 6.2 Toxin secretion ATP-binding protein compare
PP_3488 +0.7 3.3 Sco1/SenC family protein compare
PP_0166 +0.7 5.7 HlyD family secretion protein compare
PP_3138 +0.7 3.4 VirK domain protein compare
PP_4372 +0.7 2.7 Sensory box histidine kinase FleS compare
PP_0165 +0.7 5.9 GGDEF domain protein compare
PP_1489 +0.7 2.7 CheW domain protein compare
PP_3258 +0.7 1.4 conserved protein of unknown function compare
PP_2972 +0.7 0.9 conserved protein of unknown function compare
PP_2231 +0.7 2.1 putative permease of the drug/metabolite transporter (DMT) superfamily compare
PP_1404 +0.7 1.7 conserved protein of unknown function compare
PP_1062 +0.7 1.3 MutT/nudix family protein compare
PP_5609 +0.7 2.1 conserved protein of unknown function compare
PP_2575 +0.7 1.4 conserved exported protein of unknown function compare
PP_1663 +0.7 4.6 conserved exported protein of unknown function compare
PP_5519 +0.7 1.1 conserved protein of unknown function of phage origin compare
PP_1736 +0.7 1.9 conserved protein of unknown function compare
PP_4519 +0.7 5.4 Agglutination protein compare
PP_0262 +0.7 1.7 conserved protein of unknown function compare
PP_4139 +0.7 1.6 conserved protein of unknown function compare
PP_5575 +0.7 1.2 conserved protein of unknown function compare
PP_2311 +0.7 1.9 Mg-dependent cytoplasmic DNase / RNase compare
PP_3052 +0.7 0.9 conserved protein of unknown function compare
PP_3930 +0.7 1.6 conserved exported protein of unknown function compare
PP_2595 +0.7 2.1 putative ABC transporter, permease/ATP-binding protein compare
PP_2530 +0.7 1.5 conserved protein of unknown function compare
PP_2720 +0.7 1.1 conserved protein of unknown function compare
PP_t12 +0.7 0.7 tRNA-Thr compare
PP_4213 +0.7 0.9 putative dipeptidase compare
PP_4246 +0.7 4.2 Periplasmic binding protein compare
PP_1366 +0.6 0.8 Transcriptional regulator MvaT, P16 subunit compare
PP_4792 +0.6 1.7 conserved exported protein of unknown function compare
PP_2764 +0.6 1.2 FMN reductase (NADPH) compare
PP_2192 +0.6 2.1 putative RNA polymerase sigma-70 factor, ECF subfamily/transmembrane sensor protein compare
PP_5604 +0.6 0.8 putative subtilisin-like serine protease compare
PP_0839 +0.6 1.6 tRNA Cm32/Um32 methyltransferase compare
PP_4171 +0.6 5.1 conserved exported protein of unknown function compare
PP_3131 +0.6 4.0 conserved membrane protein of unknown function compare
PP_3307 +0.6 1.0 conserved protein of unknown function compare
PP_4500 +0.6 2.9 TrpH family protein compare
PP_3164 +0.6 2.1 1,6-dihydroxycyclohexa-2,4-diene-1-carboxylate dehydrogenase compare
PP_3804 +0.6 2.3 conserved exported protein of unknown function compare
PP_4094 +0.6 1.7 conserved protein of unknown function compare
PP_5423 +0.6 0.8 conserved membrane protein of unknown function compare
PP_1368 +0.6 2.4 putative membrane protein containing a glycosyltransferase domain compare
PP_2462 +0.6 1.2 conserved protein of unknown function compare
PP_1787 +0.6 2.0 conserved protein of unknown function compare
PP_3126 +0.6 3.5 putative polysaccharide exported protein compare
PP_3408 +0.6 1.2 cobalt transporter subunit A compare
PP_1812 +0.6 1.3 conserved protein of unknown function compare
PP_5453 +0.6 1.0 conserved protein of unknown function compare
PP_0917 +0.6 1.6 Chromosome initiation inhibitor compare
PP_0352 +0.6 1.8 RNA polymerase sigma-70 factor, ECF subfamily compare
PP_0064 +0.6 1.3 conserved protein of unknown function compare
PP_4045 +0.6 1.6 conserved protein of unknown function compare
PP_3142 +0.6 3.2 putative Sugar transferase compare
PP_1570 +0.6 2.1 Head-tail adaptor compare
PP_2309 +0.6 0.8 conserved protein of unknown function compare
PP_0695 +0.6 2.0 conserved protein of unknown function compare
PP_5267 +0.6 1.2 putative cytochrome c5 compare
PP_2889 +0.6 2.2 putative Transmembrane regulator PrtR compare
PP_4504 +0.6 1.2 conserved exported protein of unknown function compare
PP_1020 +0.6 1.5 putative glucose-6-phosphate 1-epimerase compare
PP_0086 +0.6 0.8 conserved protein of unknown function compare
PP_2880 +0.6 0.6 Transcriptional regulator, TetR family compare
PP_0663 +0.6 2.0 Transcriptional regulator, AsnC family compare
PP_5194 +0.6 2.6 aminomethyltransferase compare
PP_5648 +0.6 0.8 conserved exported protein of unknown function compare
PP_5499 +0.6 1.9 conserved protein of unknown function compare
PP_2159 +0.6 1.9 Copper-binding protein, plastocyanin/azurin family compare
PP_0710 +0.6 2.1 conserved protein of unknown function compare
PP_0235 +0.6 2.0 Peroxidase compare
PP_0755 +0.5 1.7 conserved protein of unknown function compare
PP_4999 +0.5 0.2 dihydroorotase-like protein compare
PP_4348 +0.5 1.3 putative Cystathionine beta-lyase compare
PP_5162 +0.5 2.1 conserved exported protein of unknown function compare
PP_4199 +0.5 0.6 putative Lipoprotein compare
PP_3782 +0.5 2.4 conserved protein of unknown function compare
PP_4899 +0.5 2.6 ADP-dependent (S)-NAD(P)H-hydrate dehydratase compare
PP_4797 +0.5 1.1 conserved protein of unknown function compare
PP_1265 +0.5 1.6 conserved protein of unknown function compare
PP_5476 +0.5 1.6 conserved protein of unknown function compare
PP_4288 +0.5 1.1 ureidoglycolate lyase compare
PP_5324 +0.5 1.3 Response regulator compare
PP_3061 +0.5 1.6 conserved protein of unknown function compare
PP_0825 +0.5 1.7 phosphonates import ATP-binding protein compare
PP_5198 +0.5 1.2 conserved protein of unknown function compare
PP_5714 +0.5 1.4 conserved protein of unknown function compare
PP_4793 +0.5 1.2 conserved protein of unknown function compare
PP_2970 +0.5 1.6 conserved exported protein of unknown function compare
PP_4258 +0.5 2.3 cytochrome c oxidase subunit, cbb3-type compare
PP_5437 +0.5 1.9 protein of unknown function compare
PP_4808 +0.5 0.8 23S rRNA m3psi1915 methyltransferase compare
PP_2046 +0.5 2.1 Transcriptional regulator, LysR family compare
PP_4502 +0.5 1.4 putative enzyme compare
PP_0989 +0.5 1.5 glycine cleavage system H protein 1 compare
PP_3135 +0.5 2.1 putative Glycosyl transferase compare
PP_3902 +0.5 1.4 conserved protein of unknown function compare
PP_2615 +0.5 1.4 hemolysin-coregulated protein compare
PP_4242 +0.5 2.2 conserved protein of unknown function with Rhs repeat-associated core domain compare
PP_4710 +0.5 2.7 tRNA pseudouridine 55 synthase compare
PP_5121 +0.5 1.0 conserved exported protein of unknown function compare
PP_0556 +0.5 1.7 Acetoin catabolism protein compare
PP_2067 +0.5 1.4 putative EmrB/QacA family drug resistance transporter compare
PP_1396 +0.5 1.3 conserved protein of unknown function compare
PP_1386 +0.5 2.5 Probable efflux pump periplasmic linker TtgA compare
PP_2441 +0.5 1.1 conserved protein of unknown function compare
PP_4144 +0.5 2.6 Hydroxyacylglutathione hydrolase compare
PP_2737 +0.5 0.9 Oxidoreductase, short-chain dehydrogenase/reductase family compare
PP_3923 +0.5 1.7 Phosphoglycerate mutase compare
PP_2874 +0.5 2.7 conserved protein of unknown function compare
PP_5256 +0.5 1.3 Cyclic nucleotide-binding protein compare
PP_0275 +0.5 1.6 conserved protein of unknown function compare
PP_5039 +0.5 0.9 conserved protein of unknown function compare
PP_2232 +0.5 1.5 XRE family transcriptional regulator compare
PP_4916 +0.5 1.4 putative esterase compare
PP_1271 +0.5 1.1 putative Multidrug efflux MFS transporter compare
PP_4419 +0.5 1.4 transposase compare
PP_1441 +0.5 2.0 tRNA (cmo5U34)-methyltransferase compare
PP_3117 +0.5 1.1 putative protein involved in error-prone processing of DNA lesions compare
PP_2360 +0.5 1.4 putative type 1 pili subunit CsuA/B protein compare
PP_4159 +0.5 1.1 Potassium-transporting ATPase C chain compare
PP_2976 +0.5 1.1 putative transposase compare
PP_5430 +0.5 1.2 protein of unknown function compare
PP_2653 +0.5 1.0 Transcriptional regulator, Cro/CI family compare
PP_3139 +0.5 3.3 Glycosyl transferase, group 1 family protein compare
PP_4218 +0.5 1.7 Lipase/esterase family protein compare
PP_1044 +0.5 1.4 Lipoprotein UxpA compare
PP_3140 +0.5 2.1 Glycosyl transferase, group 2 family protein compare
PP_2514 +0.5 1.2 4-carboxy-4-hydroxy-2-oxoadipic acid aldolase compare
PP_3504 +0.5 1.4 conserved protein of unknown function compare
PP_1544 +0.5 0.9 conserved protein of unknown function compare
PP_2581 +0.5 0.9 conserved protein of unknown function compare
PP_0787 +0.5 1.3 quinolinate phosphoribosyltransferase (decarboxylating) monomer compare
PP_5481 +0.5 2.0 conserved protein of unknown function compare
PP_0874 +0.5 0.8 conserved protein of unknown function compare
PP_1676 +0.5 1.8 subunit of adenosylcobinamide-phosphate synthase beta component compare
PP_5589 +0.5 1.5 protein of unknown function containing Rhs repeat-associated core domain compare
PP_4173 +0.5 2.5 Sensor histidine kinase/response regulator compare
PP_4615 +0.5 2.5 conserved membrane protein of unknown function compare
PP_4799 +0.5 0.2 putative Muramoyltetrapeptide carboxypeptidase compare
PP_1187 +0.5 1.6 sensor protein compare
PP_1855 +0.5 1.4 conserved exported protein of unknown function compare
PP_4930 +0.5 1.0 putative small multidrug resistance protein compare
PP_4707 +0.5 1.4 OsmY-related protein compare
PP_5625 +0.4 2.5 conserved protein of unknown function compare
PP_3017 +0.4 1.7 O6-methylguanine-DNA methyltransferase compare
PP_0647 +0.4 2.0 conserved membrane protein of unknown function compare
PP_3749 +0.4 1.1 conserved protein of unknown function compare
PP_3295 +0.4 1.2 YeeE/YedE family protein compare
PP_1926 +0.4 1.6 putative phosphotyrosine-protein phosphatase compare
PP_5541 +0.4 1.7 conserved protein of unknown function compare
PP_1178 +0.4 1.5 conserved protein of unknown function compare
PP_5723 +0.4 2.0 protein of unknown function compare
PP_5704 +0.4 1.1 conserved protein of unknown function compare
PP_4217 +0.4 3.8 outer membrane ferripyoverdine receptor FpvA, TonB-dependent compare
PP_0054 +0.4 1.8 conserved membrane protein of unknown function 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=144_hrs across organisms