Experiment set4IT054 for Pseudomonas fluorescens FW300-N2E2

Compare to:

N1B4wt with N2E2m denitrifying replicate C

200 most important genes:

  gene name fitness t score description  
Pf6N2E2_5006 -6.1 -12.4 Muramoyltetrapeptide carboxypeptidase (EC 3.4.17.13) compare
Pf6N2E2_2752 -4.8 -18.4 Exported zinc metalloprotease YfgC precursor compare
Pf6N2E2_3839 -4.4 -5.1 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
Pf6N2E2_3661 -4.3 -7.6 hypothetical protein compare
Pf6N2E2_71 -3.8 -7.2 Phosphoribosylanthranilate isomerase (EC 5.3.1.24) compare
Pf6N2E2_3842 -3.7 -8.0 Imidazoleglycerol-phosphate dehydratase (EC 4.2.1.19) compare
Pf6N2E2_4048 -3.6 -9.4 Tryptophan synthase beta chain (EC 4.2.1.20) compare
Pf6N2E2_4596 -3.5 -10.4 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf6N2E2_3610 -3.5 -6.1 ATP phosphoribosyltransferase regulatory subunit (EC 2.4.2.17) compare
Pf6N2E2_3751 -3.4 -15.5 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
Pf6N2E2_737 -3.4 -2.3 Ribonucleotide reductase of class III (anaerobic), activating protein (EC 1.97.1.4) compare
Pf6N2E2_5720 -3.4 -16.7 BarA sensory histidine kinase (= VarS = GacS) compare
Pf6N2E2_4047 -3.3 -7.0 Tryptophan synthase alpha chain (EC 4.2.1.20) compare
Pf6N2E2_4597 -3.3 -11.9 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf6N2E2_3782 -3.3 -5.3 Phosphoribosyl-AMP cyclohydrolase (EC 3.5.4.19) compare
Pf6N2E2_3461 -3.2 -3.0 Exodeoxyribonuclease V gamma chain (EC 3.1.11.5) compare
Pf6N2E2_3252 -3.2 -10.7 Histidinol dehydrogenase (EC 1.1.1.23) compare
Pf6N2E2_3253 -3.1 -10.0 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
Pf6N2E2_4826 -3.1 -10.2 Indole-3-glycerol phosphate synthase (EC 4.1.1.48) compare
Pf6N2E2_4825 -3.0 -10.9 Anthranilate phosphoribosyltransferase (EC 2.4.2.18) compare
Pf6N2E2_5175 -3.0 -13.0 Acetolactate synthase large subunit (EC 2.2.1.6) compare
Pf6N2E2_3752 -3.0 -18.5 Glutamate synthase [NADPH] large chain (EC 1.4.1.13) compare
Pf6N2E2_4564 -3.0 -10.0 Dihydroxy-acid dehydratase (EC 4.2.1.9) compare
Pf6N2E2_63 -2.9 -4.8 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
Pf6N2E2_66 -2.9 -11.9 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
Pf6N2E2_2022 -2.9 -7.6 BarA-associated response regulator UvrY (= GacA = SirA) compare
Pf6N2E2_5337 -2.8 -5.8 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
Pf6N2E2_2073 -2.7 -10.2 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
Pf6N2E2_5177 -2.7 -13.1 Ketol-acid reductoisomerase (EC 1.1.1.86) compare
Pf6N2E2_5257 -2.7 -10.0 Sulfate adenylyltransferase subunit 2 (EC 2.7.7.4) compare
Pf6N2E2_3841 -2.7 -8.2 Imidazole glycerol phosphate synthase amidotransferase subunit (EC 2.4.2.-) compare
Pf6N2E2_3659 -2.6 -7.8 Protein fixF compare
Pf6N2E2_5258 -2.6 -11.1 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) / Adenylylsulfate kinase (EC 2.7.1.25) compare
Pf6N2E2_2217 -2.6 -7.0 ATP-dependent Clp protease ATP-binding subunit ClpX compare
Pf6N2E2_64 -2.6 -3.5 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
Pf6N2E2_4372 -2.6 -6.6 FIG00460773: hypothetical protein compare
Pf6N2E2_77 -2.5 -5.7 O-acetylhomoserine sulfhydrylase (EC 2.5.1.49) / O-succinylhomoserine sulfhydrylase (EC 2.5.1.48) compare
Pf6N2E2_735 -2.5 -14.9 Ribonucleotide reductase of class III (anaerobic), large subunit (EC 1.17.4.2) compare
Pf6N2E2_4473 -2.4 -10.5 HlyD family secretion protein compare
Pf6N2E2_3932 -2.4 -7.7 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
Pf6N2E2_5338 -2.4 -8.1 Ubiquinol--cytochrome c reductase, cytochrome B subunit (EC 1.10.2.2) compare
Pf6N2E2_2218 -2.4 -5.1 ATP-dependent Clp protease proteolytic subunit (EC 3.4.21.92) compare
Pf6N2E2_5339 -2.3 -7.1 ubiquinol cytochrome C oxidoreductase, cytochrome C1 subunit compare
Pf6N2E2_3663 -2.3 -12.5 Glycosyl transferase compare
Pf6N2E2_4472 -2.3 -14.8 ABC-type multidrug transport system, permease component compare
Pf6N2E2_5527 -2.3 -1.6 Cold shock protein CspC compare
Pf6N2E2_5176 -2.3 -9.2 Acetolactate synthase small subunit (EC 2.2.1.6) compare
Pf6N2E2_4352 -2.3 -3.0 ATP-dependent DNA helicase RecG (EC 3.6.1.-) compare
Pf6N2E2_3264 -2.3 -2.1 Uncharacterized protein YrbK clustered with lipopolysaccharide transporters compare
Pf6N2E2_2574 -2.2 -2.4 Flagellar synthesis regulator FleN compare
Pf6N2E2_4638 -2.2 -2.1 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) compare
Pf6N2E2_5291 -2.2 -16.9 Fumarylacetoacetase (EC 3.7.1.2) compare
Pf6N2E2_3783 -2.1 -6.6 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
Pf6N2E2_3645 -2.0 -10.0 Type I secretion outer membrane protein, TolC precursor compare
Pf6N2E2_3170 -2.0 -7.2 2-isopropylmalate synthase (EC 2.3.3.13) compare
Pf6N2E2_5156 -1.9 -1.8 Two-component sensor CbrB: intrcellular carbon:nitrogen balance compare
Pf6N2E2_736 -1.9 -5.8 hypothetical protein compare
Pf6N2E2_3258 -1.9 -7.2 Uncharacterized ABC transporter, periplasmic component YrbD compare
Pf6N2E2_2510 -1.9 -5.2 Lipid carrier : UDP-N-acetylgalactosaminyltransferase (EC 2.4.1.-) / Alpha-1,3-N-acetylgalactosamine transferase PglA (EC 2.4.1.-); Putative glycosyltransferase compare
Pf6N2E2_3074 -1.9 -2.4 FIG00960973: hypothetical protein compare
Pf6N2E2_2465 -1.8 -7.9 Cys regulon transcriptional activator CysB compare
Pf6N2E2_3664 -1.8 -8.0 Carbamoyltransferase in large core OS assembly cluster compare
Pf6N2E2_3665 -1.8 -1.5 serine/threonine protein kinase compare
Pf6N2E2_2318 -1.8 -7.3 Type cbb3 cytochrome oxidase biogenesis protein CcoI; Copper-translocating P-type ATPase (EC 3.6.3.4) compare
Pf6N2E2_2507 -1.8 -8.4 Undecaprenyl-phosphate N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.-) compare
Pf6N2E2_2753 -1.7 -3.3 HtrA protease/chaperone protein compare
Pf6N2E2_2074 -1.7 -2.7 required for sulfate utilization, putative electron transport protein for sulfite reductase (from data) compare
Pf6N2E2_2320 -1.7 -3.0 Heavy-metal-associated domain (N-terminus) and membrane-bounded cytochrome biogenesis cycZ-like domain, possible membrane copper tolerance protein compare
Pf6N2E2_2261 -1.7 -9.0 VacJ-like lipoprotein precursor compare
Pf6N2E2_5679 -1.7 -5.2 hypothetical protein compare
Pf6N2E2_5316 -1.7 -1.9 Periplasmic thiol:disulfide oxidoreductase DsbB, required for DsbA reoxidation compare
Pf6N2E2_178 -1.6 -1.1 Phenylalanyl-tRNA synthetase beta chain (EC 6.1.1.20) compare
Pf6N2E2_4601 -1.6 -2.5 Hypothetical protein YggS, proline synthase co-transcribed bacterial homolog PROSC compare
Pf6N2E2_3257 -1.6 -5.8 Uncharacterized ABC transporter, auxiliary component YrbC compare
Pf6N2E2_4471 -1.6 -6.9 ABC-type multidrug transport system, permease component compare
Pf6N2E2_2447 -1.5 -8.4 Probable protease htpX homolog (EC 3.4.24.-) compare
Pf6N2E2_5160 -1.5 -1.7 C4-type zinc finger protein, DksA/TraR family compare
Pf6N2E2_730 -1.4 -8.8 Respiratory nitrate reductase beta chain (EC 1.7.99.4) conserved
Pf6N2E2_732 -1.4 -6.3 Respiratory nitrate reductase gamma chain (EC 1.7.99.4) conserved
Pf6N2E2_5739 -1.4 -2.2 Cobalamin biosynthesis protein BluB @ 5,6-dimethylbenzimidazole synthase, flavin destructase family compare
Pf6N2E2_731 -1.4 -4.7 Respiratory nitrate reductase delta chain (EC 1.7.99.4) conserved
Pf6N2E2_432 -1.4 -7.2 Molybdenum ABC transporter, periplasmic molybdenum-binding protein ModA (TC 3.A.1.8.1) compare
Pf6N2E2_2384 -1.4 -4.2 CmpX compare
Pf6N2E2_5704 -1.4 -6.8 Transcriptional regulatory protein PhoP compare
Pf6N2E2_4351 -1.4 -8.6 Predicted signal transduction protein compare
Pf6N2E2_4416 -1.3 -2.3 Tyrosine recombinase XerC compare
Pf6N2E2_5394 -1.3 -4.2 Molybdenum cofactor biosynthesis protein MoaE compare
Pf6N2E2_4624 -1.3 -0.6 Phosphoribosyl-dephospho-CoA transferase (EC 2.7.7.-) compare
Pf6N2E2_5328 -1.3 -5.0 FIG00958649: hypothetical protein compare
Pf6N2E2_3477 -1.3 -2.5 2-Oxobutyrate oxidase, putative compare
Pf6N2E2_3460 -1.3 -1.2 Exodeoxyribonuclease V beta chain (EC 3.1.11.5) compare
Pf6N2E2_5703 -1.3 -5.6 outer membrane protein H1 compare
Pf6N2E2_2323 -1.3 -1.7 Fumarate and nitrate reduction regulatory protein compare
Pf6N2E2_3786 -1.2 -3.5 Twin-arginine translocation protein TatC compare
Pf6N2E2_2508 -1.2 -4.1 hypothetical protein compare
Pf6N2E2_3835 -1.2 -3.8 Carboxyl-terminal protease (EC 3.4.21.102) compare
Pf6N2E2_5392 -1.2 -3.3 Molybdenum cofactor biosynthesis protein MoaC compare
Pf6N2E2_3617 -1.2 -5.0 N-acetylmuramoyl-L-alanine amidase (EC 3.5.1.28) compare
Pf6N2E2_729 -1.2 -9.6 Respiratory nitrate reductase alpha chain (EC 1.7.99.4) conserved
Pf6N2E2_2506 -1.2 -9.5 nucleotide sugar epimerase/dehydratase WbpM compare
Pf6N2E2_3260 -1.2 -5.3 Uncharacterized ABC transporter, ATP-binding protein YrbF compare
Pf6N2E2_2518 -1.2 -1.9 Cyclohexadienyl dehydrogenase (EC 1.3.1.12)(EC 1.3.1.43) / 5-Enolpyruvylshikimate-3-phosphate synthase (EC 2.5.1.19) compare
Pf6N2E2_469 -1.2 -3.3 lipoprotein, putative compare
Pf6N2E2_579 -1.2 -1.5 FIG00962753: hypothetical protein compare
Pf6N2E2_1294 -1.2 -4.0 Carbon starvation protein A compare
Pf6N2E2_5223 -1.2 -4.7 Molybdopterin biosynthesis protein MoeB compare
Pf6N2E2_2827 -1.1 -2.0 hypothetical protein compare
Pf6N2E2_3303 -1.1 -3.1 Sensor histidine kinase PrrB (RegB) (EC 2.7.3.-) compare
Pf6N2E2_2424 -1.1 -2.6 Molybdopterin-guanine dinucleotide biosynthesis protein MobA compare
Pf6N2E2_431 -1.1 -5.5 Molybdenum transport system permease protein ModB (TC 3.A.1.8.1) compare
Pf6N2E2_3630 -1.0 -4.1 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf6N2E2_144 -1.0 -8.9 Uncharacterized protein YtfM precursor compare
Pf6N2E2_3204 -1.0 -2.9 Rho-specific inhibitor of transcription termination (YaeO) compare
Pf6N2E2_4611 -1.0 -1.8 Ferric siderophore transport system, periplasmic binding protein TonB compare
Pf6N2E2_3658 -1.0 -4.4 Lipid A core - O-antigen ligase and related enzymes compare
Pf6N2E2_700 -1.0 -3.4 Heme d1 biosynthesis protein NirL compare
Pf6N2E2_2422 -1.0 -6.5 Molybdopterin biosynthesis protein MoeA compare
Pf6N2E2_5647 -1.0 -4.3 Transcriptional regulator, TetR family compare
Pf6N2E2_1296 -1.0 -4.6 DNA-binding response regulator, LuxR family compare
Pf6N2E2_1490 -1.0 -2.1 hypothetical protein compare
Pf6N2E2_702 -1.0 -6.8 Heme d1 biosynthesis protein NirF compare
Pf6N2E2_1981 -1.0 -2.6 FIG051360: Periplasmic protein TonB, links inner and outer membranes compare
Pf6N2E2_4204 -1.0 -1.2 rRNA small subunit 7-methylguanosine (m7G) methyltransferase GidB compare
Pf6N2E2_156 -1.0 -2.6 Carbon storage regulator compare
Pf6N2E2_5242 -1.0 -1.8 Malate:quinone oxidoreductase (EC 1.1.5.4) compare
Pf6N2E2_705 -0.9 -6.2 Cytochrome cd1 nitrite reductase (EC:1.7.2.1) compare
Pf6N2E2_697 -0.9 -6.3 Heme d1 biosynthesis protein NirJ compare
Pf6N2E2_3940 -0.9 -6.5 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf6N2E2_1124 -0.9 -2.4 Ferric siderophore transport system, periplasmic binding protein TonB compare
Pf6N2E2_5103 -0.9 -1.5 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
Pf6N2E2_3834 -0.9 -5.6 Lipoprotein NlpD compare
Pf6N2E2_4362 -0.9 -1.7 DNA-directed RNA polymerase omega subunit (EC 2.7.7.6) compare
Pf6N2E2_5574 -0.9 -6.2 Glycerol kinase (EC 2.7.1.30) compare
Pf6N2E2_1776 -0.9 -2.2 Chemotaxis protein CheD compare
Pf6N2E2_3039 -0.9 -4.5 Protein-L-isoaspartate O-methyltransferase (EC 2.1.1.77) compare
Pf6N2E2_2324 -0.9 -2.6 Adenine phosphoribosyltransferase (EC 2.4.2.7) compare
Pf6N2E2_2822 -0.9 -3.2 Transcription repressor of multidrug efflux pump acrAB operon, TetR (AcrR) family compare
Pf6N2E2_2513 -0.9 -2.2 UDP-glucose dehydrogenase (EC 1.1.1.22) compare
Pf6N2E2_4162 -0.9 -2.4 DNA polymerase I (EC 2.7.7.7) compare
Pf6N2E2_721 -0.9 -5.2 FIG139552: Putative protease compare
Pf6N2E2_3942 -0.9 -5.2 FIG001592: Phosphocarrier protein kinase/phosphorylase, nitrogen regulation associated compare
Pf6N2E2_4392 -0.9 -1.8 Translation initiation inhibitor compare
Pf6N2E2_1694 -0.9 -1.6 FMN reductase (EC 1.5.1.29) compare
Pf6N2E2_2274 -0.9 -3.3 Soluble pyridine nucleotide transhydrogenase (EC 1.6.1.1) compare
Pf6N2E2_5239 -0.9 -6.5 Putative sulfate permease compare
Pf6N2E2_2201 -0.9 -3.1 Transmembrane regulator protein PrtR compare
Pf6N2E2_5780 -0.9 -4.8 Periplasmic protease compare
Pf6N2E2_5962 -0.9 -5.0 Molybdenum cofactor biosynthesis protein MoaA compare
Pf6N2E2_701 -0.8 -3.5 Heme d1 biosynthesis protein NirD / Heme d1 biosynthesis protein NirL compare
Pf6N2E2_145 -0.8 -5.2 putative exported protein compare
Pf6N2E2_703 -0.8 -3.7 Cytochrome c55X precursor NirC compare
Pf6N2E2_725 -0.8 -3.6 Nitrate/nitrite response regulator protein compare
Pf6N2E2_3300 -0.8 -2.6 Predicted D-glucarate or D-galactorate regulator, GntR family compare
Pf6N2E2_2176 -0.8 -1.8 Amidases related to nicotinamidase compare
Pf6N2E2_2125 -0.8 -2.1 hypothetical protein compare
Pf6N2E2_698 -0.8 -2.1 Heme d1 biosynthesis protein NirH compare
Pf6N2E2_1450 -0.8 -1.3 FIG00960438: hypothetical protein compare
Pf6N2E2_4708 -0.8 -1.7 hypothetical protein compare
Pf6N2E2_3373 -0.8 -1.6 Outer membrane lipoprotein SmpA, a component of the essential YaeT outer-membrane protein assembly complex compare
Pf6N2E2_1877 -0.8 -3.1 putative transmembrane efflux protein. compare
Pf6N2E2_2423 -0.7 -3.6 Molybdenum cofactor biosynthesis protein MoaB compare
Pf6N2E2_2397 -0.7 -2.3 Two-component system response regulator QseB compare
Pf6N2E2_5001 -0.7 -0.9 D-alanyl-D-alanine carboxypeptidase (EC 3.4.16.4) compare
Pf6N2E2_4454 -0.7 -3.5 Exopolyphosphatase (EC 3.6.1.11) compare
Pf6N2E2_4585 -0.7 -5.4 Cell division protein FtsX compare
Pf6N2E2_4071 -0.7 -2.5 Phosphate transport system regulatory protein PhoU compare
Pf6N2E2_1860 -0.7 -2.7 Ferredoxin, 2Fe-2S compare
Pf6N2E2_4813 -0.7 -6.0 Probable two-component sensor, near polyamine transporter compare
Pf6N2E2_722 -0.7 -4.2 FIG139928: Putative protease compare
Pf6N2E2_3282 -0.7 -1.8 FIG005080: Possible exported protein compare
Pf6N2E2_2938 -0.7 -3.1 Outer membrane lipoprotein compare
Pf6N2E2_302 -0.7 -2.7 Siroheme synthase / Precorrin-2 oxidase (EC 1.3.1.76) / Sirohydrochlorin ferrochelatase (EC 4.99.1.4) / Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) compare
Pf6N2E2_3221 -0.7 -2.2 FIG00352444: hypothetical protein compare
Pf6N2E2_5252 -0.7 -1.0 FIG00956396: hypothetical protein compare
Pf6N2E2_6022 -0.7 -1.9 StbE replicon stabilization toxin compare
Pf6N2E2_3847 -0.7 -2.4 FIG001341: Probable Fe(2+)-trafficking protein YggX compare
Pf6N2E2_6071 -0.7 -3.0 FIG139991: Putative thiamine pyrophosphate-requiring enzyme compare
Pf6N2E2_1676 -0.7 -1.5 conserved protein associated with acetyl-CoA C-acyltransferase compare
Pf6N2E2_5902 -0.7 -2.1 hypothetical protein compare
Pf6N2E2_5210 -0.7 -2.1 Possible carboxymuconolactone decarboxylase family protein (EC 4.1.1.44) compare
Pf6N2E2_2746 -0.7 -2.9 Outer membrane protein NlpB, lipoprotein component of the protein assembly complex (forms a complex with YaeT, YfiO, and YfgL); Lipoprotein-34 precursor compare
Pf6N2E2_3982 -0.7 -2.0 Tryptophan synthase beta chain like (EC 4.2.1.20) compare
Pf6N2E2_1169 -0.7 -2.1 TnpR protein compare
Pf6N2E2_3487 -0.7 -4.5 Lead, cadmium, zinc and mercury transporting ATPase (EC 3.6.3.3) (EC 3.6.3.5); Copper-translocating P-type ATPase (EC 3.6.3.4) compare
Pf6N2E2_5500 -0.7 -2.3 MoxR-like ATPases compare
Pf6N2E2_704 -0.7 -2.6 Cytochrome c551/c552 compare
Pf6N2E2_4160 -0.7 -0.9 Cytochrome c5 compare
Pf6N2E2_5531 -0.7 -1.8 hypothetical protein compare
Pf6N2E2_5428 -0.7 -2.7 DNA recombination and repair protein RecO compare
Pf6N2E2_2285 -0.7 -1.2 FIG00954079: hypothetical protein compare
Pf6N2E2_6090 -0.7 -1.1 Transcriptional regulator containing an amidase domain and an AraC-type DNA-binding HTH domain compare
Pf6N2E2_3062 -0.7 -2.9 Membrane-associated zinc metalloprotease compare
Pf6N2E2_3655 -0.7 -4.2 Hypothetical protein FIG015671 in large core OS assembly cluster compare
Pf6N2E2_2264 -0.7 -2.1 NADPH dependent preQ0 reductase (EC 1.7.1.13) compare
Pf6N2E2_4059 -0.6 -0.9 DNA-binding protein HU-alpha compare
Pf6N2E2_4751 -0.6 -2.1 response regulator compare
Pf6N2E2_3833 -0.6 -3.7 hypothetical protein compare
Pf6N2E2_3122 -0.6 -1.7 Chemotaxis signal transduction protein compare
Pf6N2E2_2967 -0.6 -1.3 Cold shock protein CspA compare
Pf6N2E2_5734 -0.6 -4.5 NLP/P60 family protein compare


Specific Phenotypes

For 5 genes in this experiment

For anaerobic Sodium pyruvate in Pseudomonas fluorescens FW300-N2E2

For anaerobic Sodium pyruvate across organisms