Experiment set8IT094 for Pseudomonas putida KT2440

Compare to:

48hr timepoint from 1L M9/1% dextrose BATCH fermentation in 2L Sartorius Biostat reactor kept at 30% DO.

200 most important genes:

  gene name fitness t score description  
PP_4890 -5.5 -3.8 ATP phosphoribosyltransferase regulatory subunit compare
PP_1109 -5.2 -12.1 Transcriptional regulator, GntR family compare
PP_3511 -5.1 -3.6 Branched-chain-amino-acid aminotransferase compare
PP_0422 -5.0 -3.5 Indole-3-glycerol phosphate synthase compare
PP_1110 -4.9 -3.4 serine acetyltransferase compare
PP_3376 -4.5 -3.1 putative phosphonate dehydrogenase compare
PP_0787 -4.5 -3.1 quinolinate phosphoribosyltransferase (decarboxylating) monomer compare
PP_5104 -4.5 -4.4 thiazole synthase compare
PP_3790 -4.4 -6.0 diaminopimelate epimerase compare
PP_4678 -4.3 -5.9 Ketol-acid reductoisomerase compare
PP_0290 -4.2 -2.9 Imidazole glycerol phosphate synthase subunit HisH compare
PP_0966 -4.2 -2.9 Histidinol dehydrogenase compare
PP_1988 -4.2 -5.8 3-isopropylmalate dehydrogenase compare
PP_0967 -4.2 -2.9 histidinol-phosphate aminotransferase (EC 2.6.1.9) (from data) compare
PP_5076 -4.2 -9.7 L-glutamate synthase(NADPH) alpha subunit compare
PP_0420 -4.1 -6.9 aminodeoxychorismate synthase / para-aminobenzoate synthase multi-enzyme complex compare
PP_2433 -4.1 -2.8 conserved protein of unknown function compare
PP_4680 -4.1 -7.3 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_1985 -4.0 -2.8 3-isopropylmalate dehydratase large subunit compare
PP_4922 -4.0 -6.7 Phosphomethylpyrimidine synthase compare
PP_1079 -4.0 -2.7 Ornithine carbamoyltransferase compare
PP_2390 -3.9 -6.6 Transcriptional regulator, LysR family compare
PP_2348 -3.8 -4.5 Sensor histidine kinase compare
PP_5145 -3.8 -27.3 phosphoenolpyruvate-dependent regulator (with NPR and NTR proteins) compare
PP_5075 -3.8 -4.5 glutamate synthase (NADPH) beta subunit compare
PP_1111 -3.8 -3.7 putative Synthetase compare
PP_5346 -3.8 -6.3 pyruvate carboxylase subunit B compare
PP_0965 -3.7 -6.3 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
PP_2388 -3.7 -4.4 Transporter, LysE family compare
PP_5289 -3.7 -2.6 Acetylglutamate kinase compare
PP_2168 -3.7 -2.6 Transaldolase compare
PP_0417 -3.7 -8.6 Anthranilate synthase component 1 compare
PP_1348 -3.6 -4.3 putative MutT/nudix family protein/thiamine-phosphate pyrophosphorylase compare
PP_0293 -3.6 -2.5 Imidazole glycerol phosphate synthase subunit HisF compare
PP_5347 -3.6 -6.5 pyruvate carboxylase subunit A compare
PP_0292 -3.4 -2.4 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
PP_0421 -3.4 -5.6 Anthranilate phosphoribosyltransferase compare
PP_4679 -3.4 -2.3 acetohydroxybutanoate synthase / acetolactate synthase compare
PP_5348 -3.3 -9.0 Transcriptional regulator, LysR family compare
PP_5097 -3.3 -9.6 homoserine O-acetyltransferase compare
PP_1995 -3.2 -2.2 N-(5'-phosphoribosyl)anthranilate isomerase compare
PP_1088 -3.2 -2.2 Argininosuccinate synthase compare
PP_1231 -3.1 -2.2 quinolinate synthase [4Fe-4S] cluster subunit compare
PP_1233 -3.1 -3.0 sulfurtransferase compare
PP_5098 -3.1 -5.5 methionine biosynthesis protein MetW compare
PP_5128 -2.9 -8.0 Dihydroxy-acid dehydratase compare
PP_5185 -2.9 -2.0 acetylglutamate kinase-like protein (regulatory domain)/amino acid N-acetyltransferase compare
PP_0735 -2.9 -2.0 molybdopterin-synthase adenylyltransferase compare
PP_3821 -2.8 -7.0 UTP-glucose-1-phosphate uridylyltransferase compare
PP_0513 -2.8 -1.9 DNA-binding transcriptional repressor NrdR-Zn2+-ATP/dATP compare
PP_4994 -2.7 -2.7 conserved protein of unknown function compare
PP_0289 -2.7 -5.2 Imidazoleglycerol-phosphate dehydratase compare
PP_1826 -2.7 -1.8 Hydrolase, isochorismatase family compare
PP_2327 -2.6 -5.0 transcriptional dual regulator / CysB-O-acetyl-L-serine compare
PP_0362 -2.6 -10.9 Biotin synthase compare
PP_4782 -2.6 -1.8 Phosphomethylpyrimidine kinase compare
PP_1986 -2.6 -1.8 3-isopropylmalate dehydratase small subunit compare
PP_2001 -2.5 -7.5 O-succinylhomoserine sulfhydrylase compare
PP_0948 -2.5 -4.0 Phosphocarrier protein HPr compare
PP_5155 -2.4 -3.7 D-3-phosphoglycerate dehydrogenase / alpha-ketoglutarate reductase compare
PP_3505 -2.4 -2.8 conserved protein of unknown function compare
PP_2371 -2.4 -3.3 Sulphite reductase hemoprotein, beta subunit compare
PP_5303 -2.4 -2.9 aminoacrylate/iminopropionate hydrolase/deaminase compare
PP_1025 -2.3 -8.6 2-isopropylmalate synthase compare
PP_0957 -2.3 -3.1 D-arabinose 5-phosphate isomerase compare
PP_4058 -2.3 -1.6 1,4-alpha-glucan branching enzyme compare
PP_1142 -2.2 -1.2 conserved protein of unknown function compare
PP_4684 -2.2 -3.4 conserved protein of unknown function with kinase-like domain compare
PP_0184 -2.2 -1.5 Argininosuccinate lyase compare
PP_0630 -2.1 -1.6 DNA gyrase inhibitor YacG compare
PP_4480 -2.0 -6.1 arginine N-succinyltransferase, subunit alpha compare
PP_5327 -2.0 -5.3 putative phosphate ABC transporter, permease subunit compare
PP_4909 -1.9 -1.9 phosphoserine phosphatase compare
PP_0120 -1.9 -5.8 putative zinc ABC transporter compare
PP_3508 -1.9 -3.1 Protein CobW compare
PP_5453 -1.8 -1.2 conserved protein of unknown function compare
PP_4505 -1.8 -4.9 Sensor histidine kinase compare
PP_3417 -1.8 -3.8 D-gluconate transporter compare
PP_5328 -1.8 -3.1 putative phosphate transport system permease protein compare
PP_0117 -1.7 -4.3 Zn(2+) ABC transporter - permease subunit compare
PP_4829 -1.7 -2.6 putative precorrin-3B synthase compare
PP_1011 -1.7 -6.6 glucokinase compare
PP_1898 -1.7 -1.2 MotA/TolQ/ExbB proton channel family protein compare
PP_0291 -1.7 -2.3 conserved protein of unknown function compare
PP_4828 -1.7 -1.1 Precorrin-8X methylmutase compare
PP_2370 -1.7 -1.9 conserved protein of unknown function compare
PP_0261 -1.6 -4.6 adenosine-3'(2'),5'-bisphosphate nucleotidase compare
PP_1017 -1.6 -5.0 mannose/glucose ABC transporter, permease protein compare
PP_1309 -1.6 -5.9 conserved exported protein of unknown function compare
PP_0083 -1.6 -1.1 tryptophan synthase beta chain compare
PP_2328 -1.6 -2.1 Phosphoadenosine phosphosulfate reductase compare
PP_2714 -1.5 -4.3 Sensor histidine kinase compare
PP_1439 -1.5 -1.5 conserved exported protein of unknown function compare
PP_5047 -1.5 -4.9 two-component system sensory histidine kinase/phosphatase GlnL/GlnG compare
PP_1426 -1.5 -7.7 L-aspartate oxidase compare
PP_1912 -1.5 -2.7 Phosphate acyltransferase compare
PP_5014 -1.5 -1.0 Phosphoribosyl-AMP cyclohydrolase compare
PP_4940 -1.5 -3.3 Putative glycosyltransferase compare
PP_0593 -1.5 -0.8 putative ribosome-binding factor compare
PP_5748 -1.5 -1.7 cytochrome c heme lyase subunit compare
PP_4060 -1.5 -8.8 Alpha-1,4-glucan:maltose-1-phosphate maltosyltransferase compare
PP_3999 -1.4 -1.0 Uroporphyrinogen-III C-methyltransferase/Precorrin-2 dehydrogenase/Sirohydrochlorin ferrochelatase compare
PP_0082 -1.4 -1.0 tryptophan synthase alpha chain compare
PP_0880 -1.4 -2.7 dipeptide ABC transporter - putative membrane subunit compare
PP_3105 -1.4 -1.9 conserved membrane protein of unknown function compare
PP_5015 -1.4 -1.4 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
PP_1346 -1.4 -3.1 Glutamate N-acetyltransferase/Amino-acid acetyltransferase compare
PP_3866 -1.4 -3.0 conserved protein of unknown function compare
PP_1623 -1.3 -3.1 RNA polymerase, sigma S (sigma 38) factor compare
PP_1016 -1.3 -6.0 mannose/glucose ABC transporter, permease protein compare
PP_0406 -1.3 -4.1 Nucleotidyltransferase family protein compare
PP_0951 -1.3 -4.8 Ribosome hibernation promoting factor compare
PP_5359 -1.2 -2.6 CobW/P47K family protein compare
PP_0118 -1.2 -5.5 zinc import ATP-binding protein compare
PP_1355 -1.2 -10.1 Muropeptide permease AmpG compare
PP_2217 -1.2 -2.1 enoyl-CoA hydratase compare
PP_5329 -1.2 -2.2 putative phosphate ABC transporter, periplasmic phosphate-binding protein compare
PP_1097 -1.2 -1.2 Methionine--tRNA ligase compare
PP_5203 -1.2 -4.3 5-formyltetrahydrofolate cyclo-ligase compare
PP_0673 -1.2 -1.4 conserved protein of unknown function compare
PP_5507 -1.2 -3.1 protein of unknown function compare
PP_1304 -1.2 -5.3 sulfate adenylyltransferase subunit 1/adenylyl-sulfate kinase compare
PP_4977 -1.2 -5.5 5,10-methylenetetrahydrofolate reductase compare
PP_5216 -1.2 -0.8 exopolyphosphatase compare
PP_1018 -1.2 -3.6 mannose/glucose ABC transporter - ATP binding subunit compare
PP_3453 -1.2 -6.1 putative Sensor protein RstB compare
PP_1015 -1.1 -4.6 mannose/glucose ABC transporter, glucose-binding periplasmic protein compare
PP_0881 -1.1 -3.3 dipeptide ABC transporter - putative membrane subunit compare
PP_2326 -1.1 -4.9 Universal stress protein compare
PP_1999 -1.1 -1.7 membrane protein required for colicin V production compare
PP_1303 -1.1 -3.5 Sulfate adenylyltransferase subunit 2 compare
PP_5274 -1.1 -1.5 conserved protein of unknown function compare
PP_5162 -1.1 -1.9 conserved exported protein of unknown function compare
PP_4504 -1.1 -1.5 conserved exported protein of unknown function compare
PP_5661 -1.1 -2.5 putative lipoprotein compare
PP_4260 -1.1 -2.3 conserved protein of unknown function compare
PP_4387 -1.1 -2.2 conserved exported protein of unknown function compare
PP_0910 -1.0 -3.1 conserved exported protein of unknown function compare
PP_1012 -1.0 -2.9 DNA-binding response regulator compare
PP_0508 -1.0 -2.1 conserved exported protein of unknown function compare
PP_4811 -1.0 -3.0 Gamma-glutamyl phosphate reductase compare
PP_5393 -1.0 -0.6 putative metal-binding chaperone compare
PP_2928 -1.0 -4.2 Saccharopine dehydrogenase compare
PP_1679 -1.0 -1.9 Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase compare
PP_1523 -1.0 -2.3 conserved protein of unknown function compare
PP_3035 -1.0 -1.2 conserved protein of unknown function compare
PP_0995 -1.0 -3.2 conserved membrane protein of unknown function compare
PP_5095 -1.0 -0.9 pyrroline-5-carboxylate reductase compare
PP_4268 -1.0 -0.7 nucleoid-associated broad specificity regulator compare
PP_3551 -1.0 -1.3 DNA-binding response regulator, LuxR family compare
PP_3903 -1.0 -0.7 conserved protein of unknown function compare
PP_0377 -1.0 -1.3 coenzyme PQQ synthesis protein D compare
PP_1731 -1.0 -2.3 23S rRNA (746) and tRNA (32) pseudouridine synthase compare
PP_4695 -1.0 -4.6 Sensory box histidine kinase compare
PP_4009 -1.0 -2.8 ATP-dependent Clp protease adapter protein ClpS compare
PP_4569 -1.0 -1.7 conserved protein of unknown function compare
PP_4212 -1.0 -2.9 pyoverdine biosynthesis related protein compare
PP_1589 -1.0 -2.9 uridylyltransferase compare
PP_5035 -1.0 -3.4 Histidine utilization repressor compare
PP_0434 -1.0 -6.0 Anhydro-N-acetylmuramic acid kinase compare
PP_2274 -1.0 -2.5 conserved protein of unknown function compare
PP_3398 -1.0 -2.5 putative Curli fiber surface-exposed nucleator CsgB compare
PP_1269 -0.9 -1.5 Universal stress protein family compare
PP_2499 -0.9 -1.4 conserved protein of unknown function compare
PP_2107 -0.9 -1.2 conserved protein of unknown function compare
PP_2442 -0.9 -1.1 conserved protein of unknown function, DUF480 family compare
PP_0025 -0.9 -1.6 hypothetical protein compare
PP_2088 -0.9 -2.3 RNA polymerase sigma factor SigX compare
PP_3443 -0.9 -4.2 putative glyceraldehyde-3-phosphate dehydrogenase compare
PP_0435 -0.9 -6.5 Peptidase, M23/M37 family compare
PP_3786 -0.9 -5.6 aminotransferase compare
PP_1013 -0.9 -3.0 Sensor histidine kinase compare
PP_0691 -0.9 -0.6 Glutamate 5-kinase compare
PP_2580 -0.9 -1.5 conserved protein of unknown function compare
PP_1778 -0.9 -1.9 Lipopolysaccharide ABC export system, permease protein compare
PP_2375 -0.9 -5.4 cobalamin-dependent methionine synthase compare
PP_0949 -0.9 -2.6 putative ATP-binding protein UPF0042 compare
PP_4379 -0.9 -2.9 Beta-ketoacyl-acyl-carrier-protein synthase I compare
PP_5608 -0.9 -2.7 putative exported protein compare
PP_1903 -0.9 -2.1 putative phosphotyrosine-protein phosphatase compare
PP_4328 -0.9 -2.1 conserved protein of unknown function compare
PP_3776 -0.9 -3.3 putative permease (RarD protein) compare
PP_3833 -0.9 -2.4 Response regulator compare
PP_1364 -0.8 -4.3 conserved exported protein of unknown function compare
PP_4143 -0.8 -2.4 conserved protein of unknown function compare
PP_1214 -0.8 -0.8 putative transcriptional regulatory protein compare
PP_3787 -0.8 -3.5 conserved protein of unknown function compare
PP_2762 -0.8 -2.7 acyl-CoA dehydrogenase/oxidase family protein compare
PP_4830 -0.8 -2.2 precorrin-6Y C(5,15)-methyltransferase compare
PP_0042 -0.8 -2.6 conserved exported protein of unknown function compare
PP_1004 -0.8 -1.5 conserved protein of unknown function compare
PP_0119 -0.8 -2.2 putative zinc uptake regulation protein ZUR compare
PP_2568 -0.8 -0.9 Ring-cleaving dioxygenase compare
PP_2846 -0.8 -1.7 urease accessory protein compare
PP_3052 -0.8 -1.0 conserved protein of unknown function compare
PP_1063 -0.8 -4.3 DNA-binding transcriptional regulator, homocysteine-binding compare
PP_5008 -0.8 -1.1 Poly granule-associated protein compare
PP_3098 -0.8 -1.3 conserved protein of unknown function compare
PP_2999 -0.8 -1.1 Glyoxalase family protein compare
PP_1987 -0.8 -1.0 Methlytransferase, UbiE/COQ5 family compare


Specific Phenotypes

For 3 genes in this experiment