Experiment set6IT064 for Pseudomonas fluorescens FW300-N1B4

Compare to:

N2E2wt with N1B4m denitrifying repA

200 most detrimental genes:

  gene name fitness t score description  
Pf1N1B4_3115 +2.9 19.3 RNA polymerase sigma factor RpoS compare
Pf1N1B4_1370 +2.1 2.5 Unsaturated fatty acid biosythesis repressor FabR, TetR family compare
Pf1N1B4_2150 +1.6 4.3 Xanthine phosphoribosyltransferase (EC 2.4.2.22) compare
Pf1N1B4_3802 +1.5 2.9 PlcB, ORFX, ORFP, ORFB, ORFA, ldh gene compare
Pf1N1B4_4417 +1.3 3.0 Transcriptional regulator compare
Pf1N1B4_3665 +1.3 3.7 Transcriptional regulator, TetR family compare
Pf1N1B4_5346 +1.2 4.3 hypothetical protein compare
Pf1N1B4_751 +1.2 1.3 hypothetical protein compare
Pf1N1B4_3713 +1.2 1.8 Nicotinate-nucleotide--dimethylbenzimidazole phosphoribosyltransferase (EC 2.4.2.21) compare
Pf1N1B4_4700 +1.2 2.9 FIG00956898: hypothetical protein compare
Pf1N1B4_2177 +1.2 0.9 FIG00953342: hypothetical protein compare
Pf1N1B4_919 +1.1 2.3 hypothetical protein compare
Pf1N1B4_5844 +1.1 4.2 Arginine/ornithine ABC transporter, periplasmic arginine/ornithine binding protein compare
Pf1N1B4_4043 +1.1 2.4 Type II and III secretion system family protein compare
Pf1N1B4_4322 +1.1 2.9 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
Pf1N1B4_2643 +1.1 2.7 Predicted zinc-binding protein compare
Pf1N1B4_5542 +1.1 1.6 hypothetical protein compare
Pf1N1B4_4487 +1.1 2.5 FIG00955631: hypothetical protein compare
Pf1N1B4_4134 +1.1 2.2 Na+ driven multidrug efflux pump compare
Pf1N1B4_5266 +1.1 1.3 hypothetical protein compare
Pf1N1B4_1474 +1.0 4.9 Glutamate-ammonia-ligase adenylyltransferase (EC 2.7.7.42) compare
Pf1N1B4_1730 +1.0 2.4 Fatty acid desaturase (EC 1.14.19.1); Delta-9 fatty acid desaturase (EC 1.14.19.1) compare
Pf1N1B4_5884 +1.0 1.8 UDP-glucose dehydrogenase (EC 1.1.1.22) compare
Pf1N1B4_188 +1.0 1.8 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
Pf1N1B4_3191 +1.0 2.4 FIG00953505: hypothetical protein compare
Pf1N1B4_4918 +1.0 2.3 Predicted enzyme of the cupin superfamily compare
Pf1N1B4_1504 +1.0 1.3 Acyl carrier protein compare
Pf1N1B4_6041 +1.0 1.4 Carbon storage regulator compare
Pf1N1B4_2269 +1.0 2.9 Purine nucleoside phosphorylase (EC 2.4.2.1) compare
Pf1N1B4_4803 +1.0 2.1 ABC-type polar amino acid transport system protein, substrate-binding protein compare
Pf1N1B4_2894 +0.9 2.5 FIG00956317: hypothetical protein compare
Pf1N1B4_10 +0.9 2.9 Aspartate-semialdehyde dehydrogenase (EC 1.2.1.11) compare
Pf1N1B4_3961 +0.9 2.7 transcriptional regulator, MerR family compare
Pf1N1B4_4516 +0.9 1.6 Pyridine nucleotide-disulphide oxidoreductase associated with reductive pyrimidine catabolism compare
Pf1N1B4_5682 +0.9 2.3 SOS-response repressor and protease LexA (EC 3.4.21.88) compare
Pf1N1B4_2228 +0.9 2.3 FIG001590: Putative conserved exported protein precursor compare
Pf1N1B4_372 +0.9 2.4 UDP-galactose-lipid carrier transferase (EC 2.-.-.-) compare
Pf1N1B4_5278 +0.9 1.3 hypothetical protein compare
Pf1N1B4_1389 +0.9 1.8 Lysine decarboxylase family compare
Pf1N1B4_198 +0.9 1.6 FIG137877: Hypothetical protein in pyoverdin gene cluster compare
Pf1N1B4_1439 +0.9 3.2 FIG00953138: hypothetical protein compare
Pf1N1B4_4418 +0.9 1.3 hypothetical protein compare
Pf1N1B4_740 +0.9 1.7 Leucyl-tRNA synthetase compare
Pf1N1B4_255 +0.9 3.7 Free methionine-(R)-sulfoxide reductase, contains GAF domain compare
Pf1N1B4_5799 +0.9 2.0 Benzoate 1,2-dioxygenase beta subunit (EC 1.14.12.10) compare
Pf1N1B4_5293 +0.9 2.7 hypothetical protein compare
Pf1N1B4_2502 +0.9 3.5 Coenzyme PQQ synthesis protein B compare
Pf1N1B4_2021 +0.9 1.8 hypothetical protein compare
Pf1N1B4_5628 +0.9 3.5 Oligopeptide transport system permease protein OppC (TC 3.A.1.5.1) compare
Pf1N1B4_4661 +0.9 1.6 Cell division inhibitor SULA compare
Pf1N1B4_5835 +0.9 2.9 3-ketoacyl-CoA thiolase (EC 2.3.1.16) @ Acetyl-CoA acetyltransferase (EC 2.3.1.9) compare
Pf1N1B4_1472 +0.9 1.0 Lipopolysaccharide heptosyltransferase I (EC 2.4.1.-) compare
Pf1N1B4_4554 +0.9 2.7 3-oxoacyl-[acyl-carrier protein] reductase (EC 1.1.1.100) compare
Pf1N1B4_5706 +0.9 3.1 Fumarylacetoacetate hydrolase family protein compare
Pf1N1B4_5604 +0.9 2.5 Permeases of the major facilitator superfamily compare
Pf1N1B4_3415 +0.8 2.1 Transcriptional regulator, TetR family compare
Pf1N1B4_479 +0.8 1.7 Butyryl-CoA dehydrogenase (EC 1.3.99.2) compare
Pf1N1B4_3808 +0.8 3.0 hydrolase, haloacid dehalogenase-like family compare
Pf1N1B4_240 +0.8 1.2 Transcriptional regulators compare
Pf1N1B4_4869 +0.8 1.9 Isoquinoline 1-oxidoreductase beta subunit (EC 1.3.99.16) compare
Pf1N1B4_4806 +0.8 1.9 Argininosuccinate lyase (EC 4.3.2.1) compare
Pf1N1B4_4035 +0.8 1.4 NADH-ubiquinone oxidoreductase chain G (EC 1.6.5.3) compare
Pf1N1B4_6030 +0.8 3.2 Ribose ABC transport system, high affinity permease RbsD (TC 3.A.1.2.1) compare
Pf1N1B4_4831 +0.8 1.4 Outer membrane protein assembly factor YaeT precursor compare
Pf1N1B4_2190 +0.8 3.9 Regulator of sigma D compare
Pf1N1B4_5769 +0.8 1.0 Heme d1 biosynthesis protein NirL compare
Pf1N1B4_1671 +0.8 2.4 FIG00954962: hypothetical protein compare
Pf1N1B4_5833 +0.8 1.0 Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit A (EC 2.8.3.5) compare
Pf1N1B4_5531 +0.8 2.8 hypothetical protein compare
Pf1N1B4_4929 +0.8 2.6 Opine oxidase subunit B compare
Pf1N1B4_5509 +0.8 1.0 hypothetical protein compare
Pf1N1B4_4822 +0.8 1.8 Paraquat-inducible protein A compare
Pf1N1B4_5786 +0.8 3.0 putative membrane protein compare
Pf1N1B4_5710 +0.8 2.0 Transcriptional regulator, TetR family compare
Pf1N1B4_3405 +0.8 2.5 Signal transduction histidine kinase compare
Pf1N1B4_1055 +0.8 1.4 Phosphate acetyltransferase (EC 2.3.1.8) compare
Pf1N1B4_4293 +0.8 1.3 hypothetical protein compare
Pf1N1B4_5370 +0.8 1.1 hypothetical protein compare
Pf1N1B4_5837 +0.8 2.4 Transcriptional regulator, LysR family compare
Pf1N1B4_5527 +0.8 2.6 hypothetical protein compare
Pf1N1B4_101 +0.8 1.2 hypothetical protein compare
Pf1N1B4_5402 +0.8 1.7 hypothetical protein compare
Pf1N1B4_1105 +0.8 1.1 4-carboxymuconolactone decarboxylase (EC 4.1.1.44) compare
Pf1N1B4_4627 +0.8 1.9 FIG00957600: hypothetical protein compare
Pf1N1B4_5084 +0.8 1.8 Capsular polysaccharide synthesis enzyme CpsD, exopolysaccharide synthesis compare
Pf1N1B4_5897 +0.8 1.8 FIG00963512: hypothetical protein compare
Pf1N1B4_2048 +0.7 1.1 hypothetical protein compare
Pf1N1B4_4393 +0.7 2.1 Ferredoxin reductase compare
Pf1N1B4_1185 +0.7 3.4 Lactate-responsive regulator LldR in Enterobacteria, GntR family compare
Pf1N1B4_4817 +0.7 3.8 Fe2+-dicitrate sensor, membrane component compare
Pf1N1B4_5463 +0.7 1.3 hypothetical protein compare
Pf1N1B4_218 +0.7 3.5 Periplasmic binding protein compare
Pf1N1B4_4783 +0.7 3.4 Transcriptional regulator, AraC family compare
Pf1N1B4_138 +0.7 1.2 Putative dipeptidase, pyoverdin biosynthesis PvdM compare
Pf1N1B4_2891 +0.7 1.8 Ribosomal-protein-S18p-alanine acetyltransferase (EC 2.3.1.-) compare
Pf1N1B4_6035 +0.7 2.2 D-ribose ABC transporter, substrate-binding component RbsB (from data) compare
Pf1N1B4_724 +0.7 2.1 DNA-binding response regulator ColR compare
Pf1N1B4_2026 +0.7 1.9 Transcriptional regulator compare
Pf1N1B4_2866 +0.7 1.8 Periplasmic hemin-binding protein compare
Pf1N1B4_5295 +0.7 1.9 hypothetical protein compare
Pf1N1B4_120 +0.7 2.7 Channel-forming transporter/cytolysins activator of TpsB family compare
Pf1N1B4_5386 +0.7 1.8 hypothetical protein compare
Pf1N1B4_89 +0.7 2.9 Uncharacterized GST-like protein yncG compare
Pf1N1B4_2727 +0.7 2.0 Polyribonucleotide nucleotidyltransferase (polynucleotide phosphorylase) compare
Pf1N1B4_4621 +0.7 2.3 L-arabonate dehydratase (EC 4.2.1.25) compare
Pf1N1B4_2974 +0.7 2.4 Phosphate regulon transcriptional regulatory protein PhoB (SphR) compare
Pf1N1B4_4594 +0.7 1.0 Oligopeptide ABC transporter, periplasmic oligopeptide-binding protein OppA (TC 3.A.1.5.1) compare
Pf1N1B4_3782 +0.7 2.0 1,2-dihydroxy-3-keto-5-methylthiopentene dioxygenase (EC 1.13.11.54) compare
Pf1N1B4_802 +0.7 2.2 Membrane carboxypeptidase (penicillin-binding protein) compare
Pf1N1B4_3272 +0.7 1.8 hypothetical protein compare
Pf1N1B4_5979 +0.7 1.2 Ureidoglycolate/malate/sulfolactate dehydrogenase family (EC 1.1.1.-) compare
Pf1N1B4_5112 +0.7 1.5 sucrose ABC transporter, substrate-binding component (from data) compare
Pf1N1B4_3278 +0.7 1.6 putative exported protein compare
Pf1N1B4_3911 +0.7 1.9 Predicted transcriptional regulator for fatty acid degradation FadQ, TetR family compare
Pf1N1B4_2510 +0.7 1.5 hypothetical protein compare
Pf1N1B4_287 +0.7 4.0 Possible periplasmic thiredoxin compare
Pf1N1B4_5584 +0.7 1.6 Protocatechuate 3,4-dioxygenase beta chain (EC 1.13.11.3) compare
Pf1N1B4_4882 +0.7 2.7 Transcriptional regulator MexT compare
Pf1N1B4_5831 +0.7 2.3 SAM-dependent methyltransferases compare
Pf1N1B4_5600 +0.7 2.6 Putrescine ABC transporter putrescine-binding protein PotF (TC 3.A.1.11.2) compare
Pf1N1B4_5866 +0.7 1.8 ThiJ/PfpI family protein compare
Pf1N1B4_3742 +0.7 1.1 Oxidoreductase, zinc-binding compare
Pf1N1B4_4479 +0.7 1.9 Branched-chain alpha-keto acid dehydrogenase, E1 component, beta subunit (EC 1.2.4.4) compare
Pf1N1B4_6007 +0.7 2.0 Queuosine Biosynthesis QueC ATPase compare
Pf1N1B4_1819 +0.7 1.8 NAD(P) transhydrogenase alpha subunit (EC 1.6.1.2) compare
Pf1N1B4_1056 +0.7 2.2 FIG018329: 1-acyl-sn-glycerol-3-phosphate acyltransferase compare
Pf1N1B4_1613 +0.7 0.8 tRNA (cytidine(34)-2'-O)-methyltransferase (EC 2.1.1.207) compare
Pf1N1B4_765 +0.7 1.4 Cys-tRNA(Pro) deacylase YbaK compare
Pf1N1B4_4932 +0.7 2.3 Tartrate dehydrogenase (EC 1.1.1.93) / Tartrate decarboxylase (EC 4.1.1.73) / D-malic enzyme (EC 1.1.1.83) compare
Pf1N1B4_458 +0.7 2.6 Similar to phosphoglycolate phosphatase, clustered with ribosomal large subunit pseudouridine synthase C compare
Pf1N1B4_2465 +0.7 1.2 Two-component response regulator CreB compare
Pf1N1B4_5689 +0.7 1.7 Lactoylglutathione lyase compare
Pf1N1B4_1348 +0.7 1.0 Urease accessory protein UreD compare
Pf1N1B4_5724 +0.7 1.0 High-affinity iron permease compare
Pf1N1B4_5762 +0.7 1.9 Nitric oxide reductase activation protein NorE compare
Pf1N1B4_3143 +0.7 1.9 RecA protein compare
Pf1N1B4_1399 +0.7 2.4 FIG003573: hypothetical protein compare
Pf1N1B4_430 +0.7 1.0 hypothetical protein compare
Pf1N1B4_3265 +0.7 2.3 Permease of the drug/metabolite transporter (DMT) superfamily compare
Pf1N1B4_996 +0.7 1.4 Oxidoreductase, short chain dehydrogenase/reductase family compare
Pf1N1B4_5854 +0.6 2.4 FIG00960144: hypothetical protein compare
Pf1N1B4_2568 +0.6 1.2 Translation elongation factor Tu compare
Pf1N1B4_5127 +0.6 2.4 ABC-type protease/lipase transport system, ATPase and permease components compare
Pf1N1B4_320 +0.6 1.6 3-oxoacyl-[acyl-carrier-protein] synthase, KASII (EC 2.3.1.179) compare
Pf1N1B4_4758 +0.6 2.3 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
Pf1N1B4_3750 +0.6 1.8 Potassium efflux system KefA protein / Small-conductance mechanosensitive channel compare
Pf1N1B4_1884 +0.6 3.0 Sensory box histidine kinase compare
Pf1N1B4_5802 +0.6 2.2 benABC operon transcriptional activator BenR compare
Pf1N1B4_493 +0.6 1.4 hypothetical protein compare
Pf1N1B4_3501 +0.6 3.1 BarA sensory histidine kinase (= VarS = GacS) compare
Pf1N1B4_2713 +0.6 1.3 FIG00955339: hypothetical protein compare
Pf1N1B4_4096 +0.6 2.0 Nucleoside-diphosphate-sugar epimerases compare
Pf1N1B4_5904 +0.6 1.6 FIG00955320: hypothetical protein compare
Pf1N1B4_1986 +0.6 2.1 Carbonic anhydrase, gamma class (EC 4.2.1.1) compare
Pf1N1B4_3982 +0.6 1.7 FIG00953347: hypothetical protein compare
Pf1N1B4_4011 +0.6 2.8 Glycerol-3-phosphate ABC transporter, permease protein UgpE (TC 3.A.1.1.3) compare
Pf1N1B4_5375 +0.6 2.2 putative DNA methyltransferase compare
Pf1N1B4_3561 +0.6 2.7 Xanthine transporter,putative compare
Pf1N1B4_5107 +0.6 1.7 Putative collagenase compare
Pf1N1B4_5018 +0.6 1.3 FIG00962345: hypothetical protein compare
Pf1N1B4_2731 +0.6 1.5 Uncharacterized protein conserved in bacteria compare
Pf1N1B4_580 +0.6 2.0 FIG00953813: hypothetical protein compare
Pf1N1B4_4059 +0.6 1.6 Thioredoxin reductase (EC 1.8.1.9) compare
Pf1N1B4_2029 +0.6 0.8 FIG00953722: hypothetical protein compare
Pf1N1B4_4158 +0.6 3.2 FIG00955149: hypothetical protein compare
Pf1N1B4_581 +0.6 1.9 membrane protein, putative compare
Pf1N1B4_1683 +0.6 1.1 Alpha-ketoglutarate-dependent taurine dioxygenase (EC 1.14.11.17) compare
Pf1N1B4_1140 +0.6 2.3 Iron-uptake factor PiuC compare
Pf1N1B4_2281 +0.6 1.5 Predicted integral membrane protein compare
Pf1N1B4_2169 +0.6 1.2 FIG00953808: hypothetical protein compare
Pf1N1B4_3667 +0.6 2.9 Nucleoside ABC transporter, periplasmic nucleoside-binding protein compare
Pf1N1B4_2090 +0.6 2.1 FIG00959590: hypothetical protein compare
Pf1N1B4_80 +0.6 2.7 Protein-L-isoaspartate O-methyltransferase (EC 2.1.1.77) compare
Pf1N1B4_96 +0.6 2.3 Selenophosphate-dependent tRNA 2-selenouridine synthase compare
Pf1N1B4_5532 +0.6 2.3 hypothetical protein compare
Pf1N1B4_907 +0.6 1.9 Probable glutathione s-transferase protein (EC 2.5.1.18) compare
Pf1N1B4_4107 +0.6 0.9 Probable glutathione S-transferase (EC 2.5.1.18), YfcF homolog compare
Pf1N1B4_5811 +0.6 1.7 FIG00958502: hypothetical protein compare
Pf1N1B4_2204 +0.6 2.7 Sigma cross-reacting protein 27A compare
Pf1N1B4_5294 +0.6 1.2 hypothetical protein compare
Pf1N1B4_4392 +0.6 1.8 MocE compare
Pf1N1B4_3312 +0.6 1.8 Tricarboxylate transport protein TctB compare
Pf1N1B4_1289 +0.6 2.4 3-demethylubiquinone-9 3-methyltransferase (EC 2.1.1.64) compare
Pf1N1B4_3413 +0.6 0.6 Transcriptional regulator, LysR family compare
Pf1N1B4_4478 +0.6 0.9 Dihydrolipoamide acyltransferase component of branched-chain alpha-keto acid dehydrogenase complex (EC 2.3.1.168) compare
Pf1N1B4_2847 +0.6 1.7 Methyltransferase (EC 2.1.1.-) compare
Pf1N1B4_5700 +0.6 2.1 Putative tRNA-m1A22 methylase compare
Pf1N1B4_5685 +0.6 1.8 Permease of the drug/metabolite transporter (DMT) superfamily compare
Pf1N1B4_4341 +0.6 1.5 hypothetical protein compare
Pf1N1B4_1210 +0.6 2.2 membrane protein, putative compare
Pf1N1B4_1279 +0.6 1.4 Flp pilus assembly protein TadB compare
Pf1N1B4_3978 +0.6 2.2 Catalase (EC 1.11.1.6) compare
Pf1N1B4_2741 +0.6 1.1 Hydrolase in polyol utilization gene cluster, haloacid dehalogenase-like family compare
Pf1N1B4_3624 +0.6 2.0 Flagellar biosynthesis protein FlhF compare
Pf1N1B4_2436 +0.6 1.7 FIG00953563: hypothetical protein compare
Pf1N1B4_4402 +0.6 1.7 SoxH protein, homolog compare
Pf1N1B4_3290 +0.6 0.7 Alternative cytochrome c oxidase polypeptide CoxP (EC 1.9.3.1) compare
Pf1N1B4_2534 +0.6 0.5 DnaJ-like protein DjlA compare
Pf1N1B4_4448 +0.6 1.7 COGs COG2343 compare
Pf1N1B4_168 +0.6 2.3 Arylsulfatase regulator (Fe-S oxidoreductase) compare


Specific Phenotypes

None in this experiment

For Pseudomonas fluorescens FW300-N1B4 in anaerobic experiments

For anaerobic Sodium pyruvate across organisms