Experiment set3IT030 for Pseudomonas fluorescens FW300-N1B4

Compare to:

LB with Cholin acetate 10 mM

200 most important genes:

  gene name fitness t score description  
Pf1N1B4_1307 -2.7 -3.6 3-dehydroquinate dehydratase II (EC 4.2.1.10) compare
Pf1N1B4_2360 -2.1 -2.8 hypothetical protein compare
Pf1N1B4_3833 -2.0 -8.3 Major porin and structural outer membrane porin OprF compare
Pf1N1B4_3143 -2.0 -3.4 RecA protein compare
Pf1N1B4_4038 -2.0 -3.7 NADH-ubiquinone oxidoreductase chain E (EC 1.6.5.3) compare
Pf1N1B4_2106 -1.9 -3.3 Hydrogen peroxide-inducible genes activator compare
Pf1N1B4_866 -1.9 -2.4 Iron-sulfur cluster regulator IscR compare
Pf1N1B4_1675 -1.8 -3.3 Transcriptional regulator compare
Pf1N1B4_4029 -1.8 -3.3 NADH-ubiquinone oxidoreductase chain M (EC 1.6.5.3) compare
Pf1N1B4_4040 -1.7 -3.6 NADH-ubiquinone oxidoreductase chain B (EC 1.6.5.3) compare
Pf1N1B4_2674 -1.6 -2.2 hypothetical protein compare
Pf1N1B4_3742 -1.5 -2.3 Oxidoreductase, zinc-binding compare
Pf1N1B4_644 -1.5 -2.5 Cold shock protein CspC compare
Pf1N1B4_4765 -1.5 -2.4 2-ketogluconate kinase (EC 2.7.1.13) compare
Pf1N1B4_1094 -1.5 -3.0 FIG005080: Possible exported protein compare
Pf1N1B4_3546 -1.4 -1.9 P pilus assembly/Cpx signaling pathway, periplasmic inhibitor/zinc-resistance associated protein compare
Pf1N1B4_3785 -1.4 -2.1 FOG: Ankyrin repeat compare
Pf1N1B4_1691 -1.4 -2.0 hypothetical protein compare
Pf1N1B4_2851 -1.4 -2.0 hypothetical protein compare
Pf1N1B4_3998 -1.3 -4.3 putative exported protein compare
Pf1N1B4_616 -1.3 -2.8 Ornithine carbamoyltransferase (EC 2.1.3.3) compare
Pf1N1B4_5624 -1.3 -2.7 Lipase precursor (EC 3.1.1.3) compare
Pf1N1B4_3997 -1.3 -3.1 Uncharacterized protein YtfM precursor compare
Pf1N1B4_539 -1.3 -2.3 Transcriptional regulators compare
Pf1N1B4_4531 -1.3 -2.2 FIG01221261: hypothetical protein compare
Pf1N1B4_2039 -1.3 -2.4 hypothetical protein compare
Pf1N1B4_3325 -1.3 -1.6 Sigma factor RpoE negative regulatory protein RseB precursor compare
Pf1N1B4_1317 -1.2 -2.6 Sensor histidine kinase/response regulator compare
Pf1N1B4_769 -1.2 -5.6 Aerobic glycerol-3-phosphate dehydrogenase (EC 1.1.5.3) compare
Pf1N1B4_578 -1.2 -2.7 enoyl-CoA hydratase, R-specific compare
Pf1N1B4_5357 -1.2 -1.5 hypothetical protein compare
Pf1N1B4_219 -1.2 -2.6 Acyclic terpenes utilization regulator AtuR, TetR family compare
Pf1N1B4_2886 -1.2 -7.9 Paraquat-inducible protein B compare
Pf1N1B4_2621 -1.2 -1.9 PspA/IM30 family protein compare
Pf1N1B4_2874 -1.2 -2.1 Multimodular transpeptidase-transglycosylase (EC 2.4.1.129) (EC 3.4.-.-) compare
Pf1N1B4_1194 -1.2 -2.2 hypothetical protein compare
Pf1N1B4_1472 -1.2 -1.8 Lipopolysaccharide heptosyltransferase I (EC 2.4.1.-) compare
Pf1N1B4_615 -1.2 -2.3 Arginine deiminase (EC 3.5.3.6) compare
Pf1N1B4_3906 -1.2 -3.6 DNA topoisomerase I (EC 5.99.1.2) compare
Pf1N1B4_2209 -1.2 -7.3 Exopolyphosphatase (EC 3.6.1.11) compare
Pf1N1B4_2037 -1.2 -2.8 Phosphate transport ATP-binding protein PstB (TC 3.A.1.7.1) compare
Pf1N1B4_1906 -1.1 -3.1 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
Pf1N1B4_3408 -1.1 -2.1 Transcriptional regulator, AraC family compare
Pf1N1B4_2940 -1.1 -2.7 hypothetical protein compare
Pf1N1B4_1619 -1.1 -6.7 Carboxyl-terminal protease (EC 3.4.21.102) compare
Pf1N1B4_652 -1.1 -6.8 Sensory box histidine kinase compare
Pf1N1B4_5370 -1.1 -1.8 hypothetical protein compare
Pf1N1B4_4028 -1.1 -2.7 NADH-ubiquinone oxidoreductase chain N (EC 1.6.5.3) compare
Pf1N1B4_2060 -1.1 -1.4 hypothetical protein compare
Pf1N1B4_2885 -1.1 -4.4 Paraquat-inducible protein A compare
Pf1N1B4_2458 -1.1 -2.6 Sarcosine oxidase gamma subunit (EC 1.5.3.1) compare
Pf1N1B4_6036 -1.1 -2.0 FIG00953132: hypothetical protein compare
Pf1N1B4_2534 -1.1 -2.3 DnaJ-like protein DjlA compare
Pf1N1B4_1612 -1.1 -2.3 FIG00955429: hypothetical protein compare
Pf1N1B4_1679 -1.1 -1.1 Membrane-fusion protein compare
Pf1N1B4_3812 -1.0 -5.8 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) / Adenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.10) compare
Pf1N1B4_2823 -1.0 -1.5 COG1496: Uncharacterized conserved protein compare
Pf1N1B4_2177 -1.0 -1.4 FIG00953342: hypothetical protein compare
Pf1N1B4_1568 -1.0 -2.8 Twin-arginine translocation protein TatB compare
Pf1N1B4_1617 -1.0 -5.2 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (EC 5.4.2.1) compare
Pf1N1B4_4818 -1.0 -1.9 RNA polymerase sigma-70 factor, ECF subfamily compare
Pf1N1B4_1870 -1.0 -2.2 Zinc ABC transporter, ATP-binding protein ZnuC compare
Pf1N1B4_5880 -1.0 -2.0 AttH component of AttEFGH ABC transport system compare
Pf1N1B4_2807 -1.0 -1.9 FKBP-type peptidyl-prolyl cis-trans isomerase SlpA (EC 5.2.1.8) compare
Pf1N1B4_2731 -1.0 -2.4 Uncharacterized protein conserved in bacteria compare
Pf1N1B4_437 -1.0 -4.6 hypothetical protein compare
Pf1N1B4_2642 -1.0 -2.0 Methionine ABC transporter ATP-binding protein compare
Pf1N1B4_4603 -1.0 -1.9 hypothetical protein compare
Pf1N1B4_4035 -1.0 -1.9 NADH-ubiquinone oxidoreductase chain G (EC 1.6.5.3) compare
Pf1N1B4_4039 -1.0 -4.2 NADH-ubiquinone oxidoreductase chain C (EC 1.6.5.3) / NADH-ubiquinone oxidoreductase chain D (EC 1.6.5.3) compare
Pf1N1B4_5371 -1.0 -1.4 hypothetical protein compare
Pf1N1B4_3782 -1.0 -1.9 1,2-dihydroxy-3-keto-5-methylthiopentene dioxygenase (EC 1.13.11.54) compare
Pf1N1B4_4596 -0.9 -2.2 Hydroxyacylglutathione hydrolase (EC 3.1.2.6) compare
Pf1N1B4_4585 -0.9 -2.1 Putative Isoquinoline 1-oxidoreductase subunit, Mll3835 protein compare
Pf1N1B4_4041 -0.9 -2.6 NADH ubiquinone oxidoreductase chain A (EC 1.6.5.3) compare
Pf1N1B4_1837 -0.9 -1.4 Osmotically inducible protein C compare
Pf1N1B4_231 -0.9 -3.0 Sensor histidine kinase compare
Pf1N1B4_350 -0.9 -4.3 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
Pf1N1B4_4482 -0.9 -2.3 FIG146518: Zn-dependent hydrolases, including glyoxylases compare
Pf1N1B4_2526 -0.9 -7.2 Bis(5'-nucleosyl)-tetraphosphatase, symmetrical (EC 3.6.1.41) compare
Pf1N1B4_3153 -0.9 -1.8 hypothetical protein compare
Pf1N1B4_3458 -0.9 -2.2 hypothetical protein compare
Pf1N1B4_5659 -0.9 -6.4 NfuA Fe-S protein maturation compare
Pf1N1B4_4030 -0.9 -2.2 NADH-ubiquinone oxidoreductase chain L (EC 1.6.5.3) compare
Pf1N1B4_5912 -0.9 -2.8 Tryptophan synthase beta chain like (EC 4.2.1.20) compare
Pf1N1B4_3222 -0.9 -1.5 Ferredoxin compare
Pf1N1B4_2493 -0.9 -2.0 Acyl-CoA dehydrogenase (EC 1.3.8.7) compare
Pf1N1B4_2884 -0.9 -2.9 Paraquat-inducible protein A compare
Pf1N1B4_1558 -0.9 -2.1 Transcriptional regulator PhaD compare
Pf1N1B4_3093 -0.9 -0.9 Outer membrane protein H precursor compare
Pf1N1B4_3549 -0.9 -1.8 YciL protein compare
Pf1N1B4_5306 -0.9 -2.1 hypothetical protein compare
Pf1N1B4_4177 -0.9 -1.5 transcriptional regulator, Crp/Fnr family compare
Pf1N1B4_4759 -0.9 -1.5 Proteinase inhibitor I11, ecotin precursor compare
Pf1N1B4_5542 -0.9 -1.8 hypothetical protein compare
Pf1N1B4_4109 -0.9 -2.4 Cytochrome c2 compare
Pf1N1B4_5029 -0.9 -1.7 Molybdenum ABC transporter, periplasmic molybdenum-binding protein ModA (TC 3.A.1.8.1) compare
Pf1N1B4_3700 -0.9 -1.8 Putative permease often clustered with de novo purine synthesis compare
Pf1N1B4_3074 -0.9 -1.9 HesA/MoeB/ThiF family protein related to EC-YgdL compare
Pf1N1B4_2005 -0.8 -1.6 ATP-dependent DNA helicase UvrD/PcrA compare
Pf1N1B4_1504 -0.8 -1.6 Acyl carrier protein compare
Pf1N1B4_5283 -0.8 -2.1 hypothetical protein compare
Pf1N1B4_4957 -0.8 -1.7 Transcriptional regulator, TetR family compare
Pf1N1B4_977 -0.8 -2.5 Molybdenum cofactor biosynthesis protein MoaC compare
Pf1N1B4_3729 -0.8 -1.6 Quaternary ammonium compound-resistance protein SugE compare
Pf1N1B4_348 -0.8 -2.6 Cyclohexadienyl dehydrogenase (EC 1.3.1.12)(EC 1.3.1.43) / 5-Enolpyruvylshikimate-3-phosphate synthase (EC 2.5.1.19) compare
Pf1N1B4_890 -0.8 -1.8 DNA recombination and repair protein RecO compare
Pf1N1B4_1234 -0.8 -2.3 Exodeoxyribonuclease V alpha chain (EC 3.1.11.5) compare
Pf1N1B4_2949 -0.8 -1.9 FIG00956396: hypothetical protein compare
Pf1N1B4_629 -0.8 -1.4 Queuosine Biosynthesis QueE Radical SAM compare
Pf1N1B4_4051 -0.8 -2.5 Isocitrate dehydrogenase [NADP] (EC 1.1.1.42); Monomeric isocitrate dehydrogenase [NADP] (EC 1.1.1.42) compare
Pf1N1B4_440 -0.8 -2.5 hypothetical protein compare
Pf1N1B4_4700 -0.8 -1.2 FIG00956898: hypothetical protein compare
Pf1N1B4_3983 -0.8 -2.0 cI compare
Pf1N1B4_2006 -0.8 -2.4 hypothetical protein compare
Pf1N1B4_3730 -0.8 -2.1 Sodium-dependent transporter compare
Pf1N1B4_4343 -0.8 -1.7 hypothetical protein compare
Pf1N1B4_76 -0.8 -1.9 ATP binding protein compare
Pf1N1B4_3241 -0.8 -1.0 hypothetical protein compare
Pf1N1B4_5453 -0.8 -2.2 hypothetical protein compare
Pf1N1B4_3504 -0.8 -2.2 Two-component sensor histidine kinase PfeS, enterobactin compare
Pf1N1B4_5224 -0.8 -2.2 tRNA-Arg-CCT compare
Pf1N1B4_1462 -0.8 -6.1 Oligosaccharide repeat unit polymerase Wzy; O-antigen ligase compare
Pf1N1B4_5995 -0.8 -1.2 Transporter, MFS superfamily compare
Pf1N1B4_1335 -0.8 -3.9 Copper metallochaperone, bacterial analog of Cox17 protein compare
Pf1N1B4_5863 -0.8 -1.8 Glycolate dehydrogenase (EC 1.1.99.14), FAD-binding subunit GlcE compare
Pf1N1B4_3367 -0.8 -2.7 Allophanate hydrolase 2 subunit 1 (EC 3.5.1.54) compare
Pf1N1B4_5904 -0.8 -1.3 FIG00955320: hypothetical protein compare
Pf1N1B4_630 -0.8 -3.1 TPR repeat containing exported protein; Putative periplasmic protein contains a protein prenylyltransferase domain compare
Pf1N1B4_188 -0.8 -1.4 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
Pf1N1B4_2228 -0.8 -2.0 FIG001590: Putative conserved exported protein precursor compare
Pf1N1B4_4296 -0.8 -2.4 Histidine transporter, periplasmic histidine-binding protein compare
Pf1N1B4_4219 -0.8 -1.8 FIG01074225: hypothetical protein compare
Pf1N1B4_2923 -0.8 -3.4 Lipid A 3-O-deacylase compare
Pf1N1B4_3350 -0.8 -1.6 FIG00954807: hypothetical protein compare
Pf1N1B4_2004 -0.8 -1.0 putative membrane protein compare
Pf1N1B4_1057 -0.7 -1.3 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) / Adenylylsulfate kinase (EC 2.7.1.25) compare
Pf1N1B4_4448 -0.7 -1.7 COGs COG2343 compare
Pf1N1B4_2856 -0.7 -2.4 Poly(A) polymerase (EC 2.7.7.19) compare
Pf1N1B4_4540 -0.7 -1.5 Uncharacterized protein ImpJ/VasE compare
Pf1N1B4_5695 -0.7 -1.5 Aldehyde dehydrogenase A (EC 1.2.1.22) compare
Pf1N1B4_3907 -0.7 -1.7 FIG00953287: hypothetical protein compare
Pf1N1B4_6042 -0.7 -2.2 Probable transmembrane protein compare
Pf1N1B4_336 -0.7 -5.7 Teichoic acid export ATP-binding protein TagH (EC 3.6.3.40) compare
Pf1N1B4_6004 -0.7 -2.4 tgtA5 cluster protein 1 compare
Pf1N1B4_3456 -0.7 -2.6 ATP-binding protein PhnN; Guanylate kinase (EC 2.7.4.8) compare
Pf1N1B4_3703 -0.7 -1.6 NLP/P60 family protein compare
Pf1N1B4_5629 -0.7 -3.2 Oligopeptide transport system permease protein OppB (TC 3.A.1.5.1) compare
Pf1N1B4_2917 -0.7 -4.0 FIG140336: TPR domain protein compare
Pf1N1B4_4386 -0.7 -1.4 Inositol transport system sugar-binding protein compare
Pf1N1B4_1511 -0.7 -1.5 FIG027190: Putative transmembrane protein compare
Pf1N1B4_962 -0.7 -4.5 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
Pf1N1B4_2114 -0.7 -3.3 DNA-directed RNA polymerase omega subunit (EC 2.7.7.6) compare
Pf1N1B4_2939 -0.7 -2.9 Malate:quinone oxidoreductase (EC 1.1.5.4) compare
Pf1N1B4_1331 -0.7 -1.8 Cobalt-precorrin-6y C5-methyltransferase (EC 2.1.1.-) / Cobalt-precorrin-6y C15-methyltransferase [decarboxylating] (EC 2.1.1.-) compare
Pf1N1B4_5753 -0.7 -1.2 putative membrane protein compare
Pf1N1B4_1869 -0.7 -3.8 Zinc ABC transporter, inner membrane permease protein ZnuB compare
Pf1N1B4_1055 -0.7 -2.0 Phosphate acetyltransferase (EC 2.3.1.8) compare
Pf1N1B4_2199 -0.7 -2.5 FIG00953537: hypothetical protein compare
Pf1N1B4_5095 -0.7 -0.8 hypothetical protein compare
Pf1N1B4_5576 -0.7 -1.6 hypothetical protein compare
Pf1N1B4_5365 -0.7 -1.4 hypothetical protein compare
Pf1N1B4_1008 -0.7 -1.0 FIG006045: Sigma factor, ECF subfamily compare
Pf1N1B4_3328 -0.7 -0.9 Rhodanese-like domain protein compare
Pf1N1B4_1315 -0.7 -4.0 IMP cyclohydrolase (EC 3.5.4.10) / Phosphoribosylaminoimidazolecarboxamide formyltransferase (EC 2.1.2.3) compare
Pf1N1B4_2869 -0.7 -2.5 lipoprotein, putative compare
Pf1N1B4_2214 -0.7 -1.8 Transcriptional regulator, GntR family compare
Pf1N1B4_824 -0.7 -2.1 POSSIBLE MEMBRANE PROTEIN compare
Pf1N1B4_4962 -0.7 -1.9 C4-dicarboxylate transport protein compare
Pf1N1B4_4459 -0.7 -1.3 Thermostable hemolysin delta-VPH compare
Pf1N1B4_5018 -0.7 -1.3 FIG00962345: hypothetical protein compare
Pf1N1B4_1370 -0.7 -1.2 Unsaturated fatty acid biosythesis repressor FabR, TetR family compare
Pf1N1B4_5408 -0.7 -2.3 hypothetical protein compare
Pf1N1B4_3972 -0.7 -1.9 ABC-type spermidine/putrescine transport system, permease component II compare
Pf1N1B4_3709 -0.7 -2.1 Adenosylcobinamide-phosphate synthase (EC 6.3.1.10) compare
Pf1N1B4_2912 -0.7 -1.4 GTP-binding and nucleic acid-binding protein YchF compare
Pf1N1B4_412 -0.7 -1.2 L-arabinose 1-dehydrogenase / D-galactose 1-dehydrogenase (EC 1.1.1.46; EC 1.1.1.48) (from data) compare
Pf1N1B4_5827 -0.7 -1.9 Na(+) H(+) antiporter subunit G compare
Pf1N1B4_2401 -0.7 -1.2 Lipoprotein, putative compare
Pf1N1B4_1806 -0.7 -2.0 FIG00953743: hypothetical protein compare
Pf1N1B4_259 -0.7 -1.7 Glutathione peroxidase family protein compare
Pf1N1B4_5378 -0.7 -1.9 Phage protein compare
Pf1N1B4_237 -0.7 -1.8 Molybdopterin-guanine dinucleotide biosynthesis protein MobA compare
Pf1N1B4_3950 -0.7 -1.6 Phosphonate ABC transporter phosphate-binding periplasmic component (TC 3.A.1.9.1) compare
Pf1N1B4_3211 -0.6 -2.2 Putative signal peptide protein compare
Pf1N1B4_5834 -0.6 -1.2 Succinyl-CoA:3-ketoacid-coenzyme A transferase subunit B (EC 2.8.3.5) compare
Pf1N1B4_4955 -0.6 -3.2 Methyltransferase compare
Pf1N1B4_2369 -0.6 -1.4 Malonate transporter, MadM subunit compare
Pf1N1B4_1626 -0.6 -3.3 Imidazole glycerol phosphate synthase amidotransferase subunit (EC 2.4.2.-) compare
Pf1N1B4_5588 -0.6 -1.5 Transcriptional regulator for ferulate or vanillate catabolism compare
Pf1N1B4_5747 -0.6 -1.6 Molybdopterin biosynthesis protein MoeA compare
Pf1N1B4_2612 -0.6 -2.1 Putative transport protein compare
Pf1N1B4_3364 -0.6 -1.5 Cyn operon transcriptional activator compare
Pf1N1B4_567 -0.6 -1.5 Histone acetyltransferase HPA2 and related acetyltransferases compare
Pf1N1B4_124 -0.6 -1.4 Mechanosensitive ion channel compare
Pf1N1B4_4960 -0.6 -1.5 Protein containing transglutaminase-like domain, putative cysteine protease compare
Pf1N1B4_339 -0.6 -1.3 UDP-glucose 4-epimerase (EC 5.1.3.2) compare
Pf1N1B4_243 -0.6 -3.0 Ammonium transporter compare
Pf1N1B4_3399 -0.6 -2.1 RNA polymerase sigma-70 factor, ECF subfamily compare
Pf1N1B4_2474 -0.6 -2.3 RNA polymerase sigma-70 factor, ECF subfamily compare


Specific Phenotypes

None in this experiment

For Pseudomonas fluorescens FW300-N1B4 in stress experiments

For stress Cholin acetate across organisms