Experiment set23IT081 for Pseudomonas putida KT2440

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Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; 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_1650 +4.1 38.1 Sensor protein GacS compare
PP_4099 +4.0 29.5 two-componenent system BarA/UvrY - regulatory subunit compare
PP_1656 +3.7 12.3 ATP:GTP 3'-pyrophosphotransferase compare
PP_1655 +3.7 7.6 23S rRNA (uracil(1939)-C(5))-methyltransferase RlmD compare
PP_4171 +2.2 13.6 conserved exported protein of unknown function compare
PP_0574 +2.1 17.0 DNA-binding response regulator, LuxR family compare
PP_4373 +1.4 12.8 Transcriptional regulator FleQ compare
PP_4265 +1.4 1.3 DNA-binding transcriptional dual regulator compare
PP_4999 +1.4 0.7 dihydroorotase-like protein compare
PP_5053 +1.4 7.5 Protein-export protein SecB compare
PP_0566 +1.4 2.2 translation-related factor compare
PP_4799 +1.4 0.7 putative Muramoyltetrapeptide carboxypeptidase compare
PP_3286 +1.4 6.9 DNA-binding transcriptional repressor PaaX(phenylacetyl-CoA) compare
PP_0856 +1.3 1.8 conserved lipoprotein of unknown function compare
PP_0691 +1.3 0.6 Glutamate 5-kinase compare
PP_1562 +1.3 4.2 putative Phage terminase, small subunit compare
PP_0167 +1.2 10.7 Toxin secretion ATP-binding protein compare
PP_1364 +1.2 8.9 conserved exported protein of unknown function compare
PP_1353 +1.2 2.3 conserved membrane protein of unknown function compare
PP_2683 +1.2 3.4 putative sensory box histidine kinase/response regulator compare
PP_1568 +1.2 2.2 conserved protein of unknown function compare
PP_1654 +1.1 0.7 cysteine synthase B compare
PP_0132 +1.1 4.9 Alginate biosynthesis sensor protein KinB compare
PP_0168 +1.1 10.7 putative surface adhesion protein compare
PP_2000 +1.1 1.6 amidophosphoribosyl transferase compare
PP_t12 +1.1 1.8 tRNA-Thr compare
PP_0166 +1.1 9.7 HlyD family secretion protein compare
PP_4246 +1.1 8.0 Periplasmic binding protein compare
PP_0340 +1.1 8.5 Glutamate-ammonia-ligase adenylyltransferase compare
PP_0165 +1.0 9.0 GGDEF domain protein compare
PP_3762 +1.0 2.7 Response regulator compare
PP_4519 +1.0 8.6 Agglutination protein compare
PP_4217 +1.0 9.1 outer membrane ferripyoverdine receptor FpvA, TonB-dependent compare
PP_5471 +1.0 2.4 putative response regulator receiver protein compare
PP_4173 +0.9 6.9 Sensor histidine kinase/response regulator compare
PP_4693 +0.9 2.7 RNA polymerase-binding transcription factor DksA compare
PP_4724 +0.9 0.6 Carbamoyl-phosphate synthase small chain compare
PP_2341 +0.9 2.3 6-carboxy-5,6,7,8-tetrahydropterin synthase compare
PP_3761 +0.9 7.5 Sensor histidine kinase/response regulator compare
PP_2682 +0.8 2.6 Fe-containing alcohol dehydrogenase compare
PP_1214 +0.8 1.6 putative transcriptional regulatory protein compare
PP_2354 +0.8 5.6 Sensory box histidine kinase/response regulator compare
PP_4136 +0.8 1.1 Transcriptional regulator, LuxR family compare
PP_0133 +0.8 6.3 Alginate biosynthesis transcriptional regulatory protein AlgB compare
PP_4723 +0.8 0.6 Carbamoyl-phosphate synthase large chain compare
PP_5017 +0.8 1.3 Sec-independent protein translocase protein TatB compare
PP_3892 +0.8 1.6 conserved protein of unknown function compare
PP_1110 +0.8 2.8 serine acetyltransferase compare
PP_1164 +0.7 2.2 Transcriptional regulator, LysR family compare
PP_4100 +0.7 2.4 Transcriptional regulator, Cro/CI family compare
PP_1301 +0.7 4.6 quality control serine endoprotease DegS compare
PP_2889 +0.7 4.0 putative Transmembrane regulator PrtR compare
PP_5491 +0.7 2.1 conserved protein of unknown function with SEC-C motif domain compare
PP_4122 +0.7 1.1 proton-pumping NADH:ubiquinone oxidoreductase, respiratory complex I, subunit E compare
PP_4329 +0.7 1.7 FlhB domain protein compare
PP_3643 +0.7 2.2 putative Oxidoreductase compare
PP_1190 +0.7 2.5 conserved protein of unknown function compare
PP_2231 +0.7 1.4 putative permease of the drug/metabolite transporter (DMT) superfamily compare
PP_4793 +0.7 2.1 conserved protein of unknown function compare
PP_1038 +0.7 1.9 conserved protein of unknown function compare
PP_1381 +0.7 1.2 4-carboxymuconolactone decarboxylase compare
PP_1113 +0.7 4.2 Pyridoxal-phosphate dependent enzyme family protein compare
PP_4959 +0.7 5.6 diguanylate cyclase compare
PP_1112 +0.7 4.3 conserved membrane protein of unknown function compare
PP_0886 +0.7 2.3 conserved exported protein of unknown function compare
PP_0639 +0.6 3.3 conserved protein of unknown function compare
PP_1109 +0.6 5.2 Transcriptional regulator, GntR family compare
PP_5331 +0.6 1.9 Long-chain acyl-CoA thioester hydrolase compare
PP_t49 +0.6 2.3 tRNA-Met compare
PP_1427 +0.6 3.9 RNA polymerase sigma E factor compare
PP_2992 +0.6 2.3 conserved exported protein of unknown function compare
PP_3241 +0.6 1.0 conserved exported protein of unknown function compare
PP_1713 +0.6 1.5 Transcriptional regulator PcaQ compare
PP_5272 +0.6 2.4 conserved protein of unknown function compare
PP_1987 +0.6 2.0 Methlytransferase, UbiE/COQ5 family compare
PP_0787 +0.6 1.8 quinolinate phosphoribosyltransferase (decarboxylating) monomer compare
PP_3239 +0.6 0.9 putative cointegrate resolution protein T Tn4652 compare
PP_3637 +0.6 1.3 putative Sulfonate ABC transporter, ATP-binding protein compare
PP_1875 +0.6 3.7 Sensor histidine kinase/response regulator compare
PP_5541 +0.6 2.3 conserved protein of unknown function compare
PP_3971 +0.6 0.6 conserved protein of unknown function compare
PP_5393 +0.6 0.5 putative metal-binding chaperone compare
PP_0360 +0.6 3.3 Molybdate transport regulator compare
PP_4172 +0.6 2.2 conserved exported protein of unknown function compare
PP_0174 +0.6 3.4 conserved protein of unknown function compare
PP_0607 +0.6 1.0 putative Type IV pili biogenesis protein FimT compare
PP_4630 +0.6 2.2 Transcriptional regulator, MerR family compare
PP_4951 +0.6 3.5 Drug resistance transporter, EmrB/QacA family compare
PP_1774 +0.6 1.2 conserved exported protein of unknown function compare
PP_3318 +0.6 1.3 conserved protein of unknown function compare
PP_4710 +0.6 3.6 tRNA pseudouridine 55 synthase compare
PP_4792 +0.6 2.0 conserved exported protein of unknown function compare
PP_4957 +0.5 1.3 conserved protein of unknown function compare
PP_3654 +0.5 2.6 leucine-responsive regulatory protein compare
PP_2326 +0.5 2.8 Universal stress protein compare
PP_1238 +0.5 3.2 putative Lipoprotein compare
PP_1322 +0.5 1.4 putative Lipoprotein compare
PP_3831 +0.5 1.9 conserved protein of unknown function compare
PP_1410 +0.5 0.9 conserved protein of unknown function compare
PP_4828 +0.5 0.8 Precorrin-8X methylmutase compare
PP_1664 +0.5 1.3 phosphoribosylglycinamide formyltransferase 1 compare
PP_2153 +0.5 0.9 conserved protein of unknown function compare
PP_3365 +0.5 1.0 Acetolactate synthase compare
PP_3597 +0.5 2.3 L-lysine and D-lysine ABC transporter, ATPase component (from data) compare
PP_4734 +0.5 3.3 DNA-binding transcriptional dual regulator, LldR-L-lactate compare
PP_5748 +0.5 0.7 cytochrome c heme lyase subunit compare
PP_5039 +0.5 1.0 conserved protein of unknown function compare
PP_5711 +0.5 2.6 protein of unknown function compare
PP_4050 +0.5 4.3 glycogen synthase compare
PP_1117 +0.5 3.4 conserved protein of unknown function compare
PP_4486 +0.5 2.7 lysine / arginine / ornithine ABC transporter - periplasmic binding protein compare
PP_5322 +0.5 2.8 putative metal ion transporter compare
PP_0022 +0.5 0.7 hypothetical protein compare
PP_1833 +0.5 2.1 conserved protein of unknown function compare
PP_1663 +0.5 2.9 conserved exported protein of unknown function compare
PP_1137 +0.5 2.8 high-affinity branched-chain amino acid transporter, ATP binding compare
PP_2794 +0.5 1.0 Oxidoreductase, short chain dehydrogenase/reductase family compare
PP_3819 +0.5 2.8 glutathione reductase (NADPH) compare
PP_1761 +0.5 3.9 diguanylate cyclase with phosphodiesterase domain compare
PP_0235 +0.5 1.8 Peroxidase compare
PP_1111 +0.5 2.7 putative Synthetase compare
PP_5303 +0.5 1.9 aminoacrylate/iminopropionate hydrolase/deaminase compare
PP_3541 +0.5 1.4 Transporter, MgtC family compare
PP_4629 +0.5 1.7 Sensory box protein compare
PP_2245 +0.5 2.7 Transcriptional regulator, Cro/CI family compare
PP_2060 +0.5 0.7 DNA-binding transcriptional dual regulator - SoxR-reversible one-electron oxidation of its [2Fe-2S] cluster, NADPH-dependent compare
PP_5295 +0.5 1.4 conserved protein of unknown function compare
PP_3234 +0.5 1.8 Heat shock protein, HSP20 family compare
PP_3434 +0.5 1.0 conserved protein of unknown function compare
PP_0962 +0.5 0.8 toluene-tolerance protein compare
PP_5317 +0.5 2.0 Probable chorismate pyruvate-lyase compare
PP_3221 +0.5 1.2 ABC transporter, permease protein compare
PP_4254 +0.5 1.3 conserved protein of unknown function compare
PP_5546 +0.5 1.4 conserved protein of unknown function compare
PP_1523 +0.5 1.5 conserved protein of unknown function compare
PP_2978 +0.5 1.8 conserved protein of unknown function compare
PP_3804 +0.5 2.2 conserved exported protein of unknown function compare
PP_5569 +0.5 1.5 protein of unknown function of phage origin compare
PP_1299 +0.5 2.4 putative amino acid ABC transporter - membrane subunit compare
PP_2389 +0.5 2.5 conserved protein of unknown function compare
PP_0262 +0.5 1.7 conserved protein of unknown function compare
PP_5725 +0.5 1.2 protein of unknown function compare
PP_5628 +0.4 2.0 conserved protein of unknown function compare
PP_4555 +0.4 1.0 conserved protein of unknown function compare
PP_5525 +0.4 1.6 conserved exported protein of unknown function compare
PP_5528 +0.4 0.8 conserved protein of unknown function compare
PP_0048 +0.4 0.8 conserved protein of unknown function compare
PP_0655 +0.4 2.6 Fimbrial protein-related protein compare
PP_0640 +0.4 1.6 conserved protein of unknown function compare
PP_5426 +0.4 1.9 conserved protein of unknown function compare
PP_5194 +0.4 2.7 aminomethyltransferase compare
PP_4625 +0.4 1.8 anti-holin regulator of holin CidA compare
PP_5552 +0.4 1.3 conserved protein of unknown function compare
PP_3248 +0.4 1.4 Dyp-type peroxidase family protein compare
PP_4273 +0.4 1.0 Transcriptional regulator, MerR family compare
PP_2738 +0.4 1.6 putative Transcriptional regulator compare
PP_1276 +0.4 0.9 conserved protein of unknown function compare
PP_2520 +0.4 1.8 conserved protein of unknown function compare
PP_5191 +0.4 1.3 conserved exported protein of unknown function compare
PP_2046 +0.4 2.0 Transcriptional regulator, LysR family compare
PP_4038 +0.4 1.9 Dihydropyrimidine dehydrogenase (NADP(+)) (EC 1.3.1.2) (from data) compare
PP_5648 +0.4 2.2 conserved exported protein of unknown function compare
PP_0719 +0.4 0.3 ribosome-associated potassium-dependent informational ATP/GTPase compare
PP_0575 +0.4 1.5 conserved membrane protein of unknown function compare
PP_4778 +0.4 1.7 23S rRNA pseudouridine 2457 synthase compare
PP_0533 +0.4 2.0 histidine kinase compare
PP_5121 +0.4 1.4 conserved exported protein of unknown function compare
PP_5339 +0.4 1.3 transcriptional regulator, ornithine utilization compare
PP_5085 +0.4 2.5 malic enzyme B compare
PP_0680 +0.4 3.4 ATP-dependent protease-like protein compare
PP_5032 +0.4 1.9 Histidine ammonia-lyase compare
PP_5241 +0.4 0.8 DNA-binding response regulator, LuxR family compare
PP_1812 +0.4 1.3 conserved protein of unknown function compare
PP_4208 +0.4 2.5 RNA polymerase sigma-70 factor, ECF subfamily compare
PP_1291 +0.4 2.5 PhoH family protein compare
PP_0258 +0.4 1.3 regulator of murein cross-linking compare
PP_2121 +0.4 0.9 putative Lipoprotein compare
PP_3527 +0.4 2.7 Transcriptional regulator, TetR family compare
PP_4247 +0.4 0.6 Exonuclease compare
PP_0546 +0.4 2.3 sigma-54 dependent transcriptional regulator compare
PP_0177 +0.4 2.2 conserved protein of unknown function compare
PP_4961 +0.4 1.0 putative Lipoprotein compare
PP_4581 +0.4 0.9 putative amidotransferase compare
PP_2857 +0.4 1.3 conserved exported protein of unknown function compare
PP_5671 +0.4 1.2 conserved protein of unknown function compare
PP_4916 +0.4 2.0 putative esterase compare
PP_1000 +0.4 1.5 ornithine carbamoyltransferase, catabolic compare
PP_4760 +0.4 1.6 Alcohol dehydrogenase, zinc-containing compare
PP_1509 +0.4 2.4 conserved protein of unknown function compare
PP_2226 +0.4 1.8 putative K(+)/H(+) antiporter subunit F compare
PP_5676 +0.4 1.8 conserved protein of unknown function compare
PP_1141 +0.4 2.2 branched-chain amino acids ABC transporter - periplasmic leucine binding subunit compare
PP_5247 +0.4 1.5 conserved protein of unknown function compare
PP_0122 +0.4 0.9 conserved exported protein of unknown function compare
PP_5293 +0.4 1.4 conserved protein of unknown function compare
PP_2146 +0.4 2.9 helicase SNF2/RAD54 family compare
PP_2650 +0.4 1.8 putative 4-hydroxybutyrate dehydrogenase compare
PP_2196 +0.4 1.0 agmatinase compare
PP_0917 +0.4 2.1 Chromosome initiation inhibitor compare
PP_2677 +0.4 1.5 conserved exported 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_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs in Pseudomonas putida KT2440

For soil Soil=PNNL_Prosser_PlotA_B_20191220; Sterility=sterile; Collection=outgrowth_in_LB_2hrs_then_extra_outgrowth_in_LB; SoilTreatment=coldshock; SoilTreatmentTime=144_hrs across organisms