Experiment set1IT032 for Pseudomonas fluorescens FW300-N1B4

Compare to:

Sodium D-Lactate carbon source

200 most important genes:

  gene name fitness t score description  
Pf1N1B4_15 -3.8 -4.5 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
Pf1N1B4_6 -3.7 -5.1 Phosphoribosylanthranilate isomerase (EC 5.3.1.24) compare
Pf1N1B4_2272 -3.7 -2.6 D-3-phosphoglycerate dehydrogenase (EC 1.1.1.95) compare
Pf1N1B4_1307 -3.7 -2.5 3-dehydroquinate dehydratase II (EC 4.2.1.10) compare
Pf1N1B4_5666 -3.6 -3.4 Oxidoreductase probably involved in sulfite reduction compare
Pf1N1B4_1872 -3.5 -6.8 Zinc ABC transporter, periplasmic-binding protein ZnuA compare
Pf1N1B4_2880 -3.4 -11.9 Ketol-acid reductoisomerase (EC 1.1.1.86) compare
Pf1N1B4_2879 -3.4 -7.8 Acetolactate synthase small subunit (EC 2.2.1.6) compare
Pf1N1B4_1831 -3.4 -11.6 Tryptophan synthase beta chain (EC 4.2.1.20) compare
Pf1N1B4_1624 -3.4 -7.8 1-(5-phosphoribosyl)-5-((5-phosphoribosylamino)methylideneamino)imidazole-4-carboxamide isomerase (EC 5.3.1.16) (from data) compare
Pf1N1B4_3812 -3.3 -8.3 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) / Adenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.10) compare
Pf1N1B4_1189 -3.3 -5.5 Predicted L-lactate dehydrogenase, hypothetical protein subunit YkgG compare
Pf1N1B4_3506 -3.3 -8.2 Cysteine synthase B (EC 2.5.1.47) compare
Pf1N1B4_1113 -3.3 -6.2 Predicted D-glucarate or D-galactorate regulator, GntR family compare
Pf1N1B4_1533 -3.3 -8.1 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
Pf1N1B4_1434 -3.2 -8.0 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf1N1B4_2682 -3.2 -3.1 Antiholin-like protein LrgA compare
Pf1N1B4_2545 -3.2 -13.6 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
Pf1N1B4_1534 -3.2 -18.4 Glutamate synthase [NADPH] large chain (EC 1.4.1.13) compare
Pf1N1B4_5665 -3.2 -6.0 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
Pf1N1B4_2303 -3.2 -14.8 Dihydroxy-acid dehydratase (EC 4.2.1.9) compare
Pf1N1B4_1408 -3.2 -5.2 ATP phosphoribosyltransferase regulatory subunit (EC 2.4.2.17) compare
Pf1N1B4_1188 -3.1 -10.5 Predicted L-lactate dehydrogenase, Iron-sulfur cluster-binding subunit YkgF conserved
Pf1N1B4_12 -3.1 -7.6 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
Pf1N1B4_1830 -3.1 -8.7 Tryptophan synthase alpha chain (EC 4.2.1.20) compare
Pf1N1B4_1190 -3.0 -10.1 Predicted D-lactate dehydrogenase, Fe-S protein, FAD/FMN-containing conserved
Pf1N1B4_742 -3.0 -8.1 Argininosuccinate synthase (EC 6.3.4.5) compare
Pf1N1B4_2338 -2.9 -7.8 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf1N1B4_1186 -2.9 -9.8 L-lactate permease conserved
Pf1N1B4_2384 -2.9 -9.8 5,10-methylenetetrahydrofolate reductase (EC 1.5.1.20) compare
Pf1N1B4_2858 -2.9 -11.2 Two-component sensor CbrB: intrcellular carbon:nitrogen balance compare
Pf1N1B4_2547 -2.9 -3.3 Anthranilate synthase, amidotransferase component (EC 4.1.3.27) @ Para-aminobenzoate synthase, amidotransferase component (EC 2.6.1.85) compare
Pf1N1B4_1617 -2.8 -7.9 2,3-bisphosphoglycerate-independent phosphoglycerate mutase (EC 5.4.2.1) compare
Pf1N1B4_2337 -2.8 -5.3 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
Pf1N1B4_847 -2.8 -9.1 2-isopropylmalate synthase (EC 2.3.3.13) compare
Pf1N1B4_1067 -2.8 -5.7 ATP phosphoribosyltransferase (EC 2.4.2.17) (from data) compare
Pf1N1B4_4065 -2.8 -8.0 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
Pf1N1B4_2549 -2.7 -9.7 Indole-3-glycerol phosphate synthase (EC 4.1.1.48) compare
Pf1N1B4_652 -2.7 -8.8 Sensory box histidine kinase compare
Pf1N1B4_769 -2.7 -6.8 Aerobic glycerol-3-phosphate dehydrogenase (EC 1.1.5.3) compare
Pf1N1B4_2010 -2.6 -6.3 Pyruvate carboxyl transferase subunit A (EC 6.4.1.1) compare
Pf1N1B4_2009 -2.6 -5.5 LysR family transcriptional regulator PA5437 compare
Pf1N1B4_2878 -2.6 -8.5 Acetolactate synthase large subunit (EC 2.2.1.6) compare
Pf1N1B4_2548 -2.6 -7.1 Anthranilate phosphoribosyltransferase (EC 2.4.2.18) compare
Pf1N1B4_1315 -2.6 -8.8 IMP cyclohydrolase (EC 3.5.4.10) / Phosphoribosylaminoimidazolecarboxamide formyltransferase (EC 2.1.2.3) compare
Pf1N1B4_1869 -2.5 -7.2 Zinc ABC transporter, inner membrane permease protein ZnuB compare
Pf1N1B4_1870 -2.5 -3.4 Zinc ABC transporter, ATP-binding protein ZnuC compare
Pf1N1B4_1626 -2.5 -7.5 Imidazole glycerol phosphate synthase amidotransferase subunit (EC 2.4.2.-) compare
Pf1N1B4_1627 -2.5 -5.2 Imidazoleglycerol-phosphate dehydratase (EC 4.2.1.19) compare
Pf1N1B4_3697 -2.5 -8.5 Phosphoribosylglycinamide formyltransferase (EC 2.1.2.2) compare
Pf1N1B4_762 -2.5 -6.6 Ornithine carbamoyltransferase (EC 2.1.3.3) compare
Pf1N1B4_327 -2.5 -2.8 hypothetical protein compare
Pf1N1B4_2173 -2.5 -3.3 Diaminopimelate epimerase (EC 5.1.1.7) compare
Pf1N1B4_2683 -2.4 -5.8 LrgA-associated membrane protein LrgB conserved
Pf1N1B4_3917 -2.4 -5.1 NADPH-dependent glyceraldehyde-3-phosphate dehydrogenase (EC 1.2.1.13) compare
Pf1N1B4_1565 -2.4 -4.4 Phosphoribosyl-AMP cyclohydrolase (EC 3.5.4.19) compare
Pf1N1B4_350 -2.4 -7.2 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
Pf1N1B4_257 -2.3 -6.9 sensor histidine kinase/response regulator compare
Pf1N1B4_365 -2.3 -6.0 Cell division protein BolA compare
Pf1N1B4_1958 -2.2 -2.5 Tryptophan synthase beta chain like (EC 4.2.1.20) compare
Pf1N1B4_1187 -2.2 -6.6 Predicted L-lactate dehydrogenase, Fe-S oxidoreductase subunit YkgE conserved
Pf1N1B4_2283 -2.2 -2.6 Adenosine (5')-pentaphospho-(5'')-adenosine pyrophosphohydrolase (EC 3.6.1.-) compare
Pf1N1B4_2112 -2.1 -12.7 Bona fide RidA/YjgF/TdcF/RutC subgroup compare
Pf1N1B4_2011 -2.1 -8.1 Pyruvate carboxyl transferase subunit B (EC 6.4.1.1) compare
Pf1N1B4_2282 -2.1 -8.9 Phosphoserine phosphatase (EC 3.1.3.3) compare
Pf1N1B4_1052 -2.1 -2.8 FKBP-type peptidyl-prolyl cis-trans isomerase SlyD (EC 5.2.1.8) compare
Pf1N1B4_5266 -2.1 -2.0 hypothetical protein compare
Pf1N1B4_2486 -2.0 -3.0 hypothetical protein compare
Pf1N1B4_1906 -2.0 -3.7 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
Pf1N1B4_1568 -2.0 -3.3 Twin-arginine translocation protein TatB compare
Pf1N1B4_2526 -1.9 -13.0 Bis(5'-nucleosyl)-tetraphosphatase, symmetrical (EC 3.6.1.41) compare
Pf1N1B4_1 -1.9 -4.1 Colicin V production protein compare
Pf1N1B4_3879 -1.9 -12.4 Cytochrome c oxidase subunit CcoN (EC 1.9.3.1) compare
Pf1N1B4_5242 -1.9 -1.8 hypothetical protein compare
Pf1N1B4_644 -1.9 -2.4 Cold shock protein CspC compare
Pf1N1B4_1057 -1.9 -3.4 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) / Adenylylsulfate kinase (EC 2.7.1.25) compare
Pf1N1B4_3878 -1.9 -7.5 Cytochrome c oxidase subunit CcoO (EC 1.9.3.1) compare
Pf1N1B4_1653 -1.9 -7.2 Branched-chain amino acid transport protein AzlC compare
Pf1N1B4_3876 -1.8 -7.6 Cytochrome c oxidase subunit CcoP (EC 1.9.3.1) compare
Pf1N1B4_3413 -1.8 -2.3 Transcriptional regulator, LysR family compare
Pf1N1B4_3081 -1.8 -14.5 [Protein-PII] uridylyltransferase (EC 2.7.7.59) compare
Pf1N1B4_3368 -1.8 -2.3 Allophanate hydrolase 2 subunit 2 (EC 3.5.1.54) compare
Pf1N1B4_1159 -1.7 -3.4 tRNA pseudouridine synthase B (EC 4.2.1.70) compare
Pf1N1B4_3927 -1.7 -2.2 hypothetical protein compare
Pf1N1B4_961 -1.7 -11.7 Ubiquinol--cytochrome c reductase, cytochrome B subunit (EC 1.10.2.2) compare
Pf1N1B4_962 -1.6 -8.5 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
Pf1N1B4_2859 -1.6 -10.2 Two-component sensor CbrA: intrcellular carbon:nitrogen balance compare
Pf1N1B4_1569 -1.6 -10.0 Twin-arginine translocation protein TatC compare
Pf1N1B4_3869 -1.6 -10.1 Heavy-metal-associated domain (N-terminus) and membrane-bounded cytochrome biogenesis cycZ-like domain, possible membrane copper tolerance protein compare
Pf1N1B4_3870 -1.6 -12.1 Type cbb3 cytochrome oxidase biogenesis protein CcoS, involved in heme b insertion compare
Pf1N1B4_1668 -1.6 -5.0 3'(2'),5'-bisphosphate nucleotidase (EC 3.1.3.7) compare
Pf1N1B4_3880 -1.6 -9.5 hypothetical protein compare
Pf1N1B4_3325 -1.6 -2.3 Sigma factor RpoE negative regulatory protein RseB precursor compare
Pf1N1B4_1625 -1.6 -3.7 FIG00956267: hypothetical protein compare
Pf1N1B4_1590 -1.6 -4.9 Histidine utilization repressor compare
Pf1N1B4_960 -1.6 -8.8 ubiquinol cytochrome C oxidoreductase, cytochrome C1 subunit compare
Pf1N1B4_4866 -1.5 -2.3 hypothetical protein compare
Pf1N1B4_7 -1.4 -4.6 tRNA pseudouridine synthase A (EC 4.2.1.70) compare
Pf1N1B4_3871 -1.4 -10.0 Type cbb3 cytochrome oxidase biogenesis protein CcoI; Copper-translocating P-type ATPase (EC 3.6.3.4) compare
Pf1N1B4_3647 -1.4 -8.7 Cytochrome c heme lyase subunit CcmH compare
Pf1N1B4_2280 -1.4 -7.0 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
Pf1N1B4_5340 -1.4 -1.9 hypothetical protein compare
Pf1N1B4_1878 -1.4 -7.7 Cytochrome c4 compare
Pf1N1B4_2176 -1.4 -2.8 Frataxin homolog CyaY, facilitates iron supply for heme A synthesis or Fe-S cluster assembly compare
Pf1N1B4_4419 -1.4 -2.1 Organosulfonate utilization protein SsuF compare
Pf1N1B4_1317 -1.4 -2.7 Sensor histidine kinase/response regulator compare
Pf1N1B4_5014 -1.3 -2.4 Glutathione reductase (EC 1.8.1.7) compare
Pf1N1B4_1180 -1.3 -1.8 Outer membrane lipoprotein SmpA, a component of the essential YaeT outer-membrane protein assembly complex compare
Pf1N1B4_2144 -1.3 -6.4 D-amino acid dehydrogenase small subunit (EC 1.4.99.1) compare
Pf1N1B4_5255 -1.3 -2.1 hypothetical protein compare
Pf1N1B4_6045 -1.3 -2.3 CigR (Putative inner membrane protein) compare
Pf1N1B4_2334 -1.3 -3.1 Radical SAM family enzyme, similar to coproporphyrinogen III oxidase, oxygen-independent, clustered with nucleoside-triphosphatase RdgB compare
Pf1N1B4_501 -1.3 -2.2 Flp pilus assembly protein RcpC/CpaB compare
Pf1N1B4_1566 -1.3 -4.1 phosphoribosyl-ATP pyrophosphatase (EC 3.6.1.31) (from data) compare
Pf1N1B4_4103 -1.2 -1.4 Flagellar synthesis regulator FleN compare
Pf1N1B4_578 -1.2 -2.0 enoyl-CoA hydratase, R-specific compare
Pf1N1B4_1612 -1.2 -1.8 FIG00955429: hypothetical protein compare
Pf1N1B4_617 -1.2 -1.5 Carbamate kinase (EC 2.7.2.2) compare
Pf1N1B4_3872 -1.2 -6.6 Putative analog of CcoH, COG3198 compare
Pf1N1B4_1535 -1.2 -2.6 hypothetical protein compare
Pf1N1B4_4107 -1.2 -1.8 Probable glutathione S-transferase (EC 2.5.1.18), YfcF homolog compare
Pf1N1B4_3849 -1.2 -3.0 Transcriptional regulator, GntR family compare
Pf1N1B4_3518 -1.2 -2.5 Glycerol-3-phosphate dehydrogenase [NAD(P)+] (EC 1.1.1.94) compare
Pf1N1B4_2195 -1.2 -2.8 Small-conductance mechanosensitive channel compare
Pf1N1B4_201 -1.2 -1.7 ABC transporter in pyoverdin gene cluster, ATP-binding component compare
Pf1N1B4_3541 -1.2 -3.1 FIG027190: Putative transmembrane protein compare
Pf1N1B4_2366 -1.2 -2.7 Phosphoribosyl-dephospho-CoA transferase (EC 2.7.7.-) compare
Pf1N1B4_4299 -1.1 -2.6 sensor histidine kinase compare
Pf1N1B4_5864 -1.1 -2.0 Glycolate dehydrogenase (EC 1.1.99.14), iron-sulfur subunit GlcF compare
Pf1N1B4_5370 -1.1 -1.6 hypothetical protein compare
Pf1N1B4_2177 -1.1 -1.2 FIG00953342: hypothetical protein compare
Pf1N1B4_3911 -1.1 -3.2 Predicted transcriptional regulator for fatty acid degradation FadQ, TetR family compare
Pf1N1B4_358 -1.1 -5.1 Oxidoreductase, short chain dehydrogenase/reductase family compare
Pf1N1B4_702 -1.1 -3.1 Transcriptional regulator PobR, AraC family compare
Pf1N1B4_2228 -1.1 -2.9 FIG001590: Putative conserved exported protein precursor compare
Pf1N1B4_5334 -1.1 -2.1 hypothetical protein compare
Pf1N1B4_2874 -1.1 -1.8 Multimodular transpeptidase-transglycosylase (EC 2.4.1.129) (EC 3.4.-.-) compare
Pf1N1B4_3468 -1.1 -1.6 Negative regulator of flagellin synthesis FlgM compare
Pf1N1B4_3153 -1.1 -1.8 hypothetical protein compare
Pf1N1B4_5503 -1.0 -3.7 hypothetical protein compare
Pf1N1B4_2184 -1.0 -4.6 Autolysis response regulater LytR compare
Pf1N1B4_2225 -1.0 -6.6 5-formyltetrahydrofolate cyclo-ligase (EC 6.3.3.2) compare
Pf1N1B4_3367 -1.0 -3.2 Allophanate hydrolase 2 subunit 1 (EC 3.5.1.54) compare
Pf1N1B4_5239 -1.0 -1.9 hypothetical protein compare
Pf1N1B4_22 -1.0 -4.0 Transcriptional regulator, TetR family compare
Pf1N1B4_3328 -1.0 -1.4 Rhodanese-like domain protein compare
Pf1N1B4_1780 -1.0 -1.9 FIG00961586: hypothetical protein compare
Pf1N1B4_3499 -1.0 -1.7 hypothetical protein compare
Pf1N1B4_5187 -1.0 -1.6 5S RNA compare
Pf1N1B4_366 -1.0 -4.7 FIG00954136: hypothetical protein compare
Pf1N1B4_5575 -1.0 -1.6 hypothetical protein compare
Pf1N1B4_2870 -1.0 -1.9 Regulator of competence-specific genes compare
Pf1N1B4_4273 -1.0 -3.4 Predicted transcriptional regulator of the myo-inositol catabolic operon compare
Pf1N1B4_348 -1.0 -2.8 Cyclohexadienyl dehydrogenase (EC 1.3.1.12)(EC 1.3.1.43) / 5-Enolpyruvylshikimate-3-phosphate synthase (EC 2.5.1.19) compare
Pf1N1B4_5659 -1.0 -6.2 NfuA Fe-S protein maturation compare
Pf1N1B4_4041 -1.0 -2.5 NADH ubiquinone oxidoreductase chain A (EC 1.6.5.3) compare
Pf1N1B4_718 -1.0 -4.3 outer membrane component of uptake system, probably for ferrous iron (from data) compare
Pf1N1B4_2706 -1.0 -2.1 FIG00954871: hypothetical protein compare
Pf1N1B4_1545 -1.0 -5.7 NADP-dependent malic enzyme (EC 1.1.1.40) compare
Pf1N1B4_5512 -0.9 -1.5 hypothetical protein compare
Pf1N1B4_2924 -0.9 -2.1 FIG00955589: hypothetical protein compare
Pf1N1B4_1975 -0.9 -2.1 Transcriptional regulator, AsnC family compare
Pf1N1B4_3709 -0.9 -2.8 Adenosylcobinamide-phosphate synthase (EC 6.3.1.10) compare
Pf1N1B4_2364 -0.9 -3.1 Malonate decarboxylase beta subunit compare
Pf1N1B4_3993 -0.9 -2.9 Isovaleryl-CoA dehydrogenase (EC 1.3.8.4) compare
Pf1N1B4_1652 -0.9 -5.0 transcriptional regulator, LysR family compare
Pf1N1B4_4897 -0.9 -1.7 Transcriptional regulator, LysR family compare
Pf1N1B4_2297 -0.9 -3.1 FIG00954147: hypothetical protein compare
Pf1N1B4_419 -0.9 -1.6 Transcriptional regulator, TetR family compare
Pf1N1B4_4603 -0.9 -1.4 hypothetical protein compare
Pf1N1B4_219 -0.9 -2.9 Acyclic terpenes utilization regulator AtuR, TetR family compare
Pf1N1B4_6037 -0.9 -2.3 L-asparaginase (EC 3.5.1.1) compare
Pf1N1B4_4748 -0.9 -2.6 transporter, putative compare
Pf1N1B4_275 -0.9 -1.6 Organic hydroperoxide resistance transcriptional regulator compare
Pf1N1B4_3873 -0.9 -6.3 Type cbb3 cytochrome oxidase biogenesis protein CcoG, involved in Cu oxidation compare
Pf1N1B4_2352 -0.9 -3.8 Glutathione synthetase (EC 6.3.2.3) compare
Pf1N1B4_2029 -0.9 -1.9 FIG00953722: hypothetical protein compare
Pf1N1B4_2733 -0.9 -1.6 DNA polymerase III alpha subunit (EC 2.7.7.7) compare
Pf1N1B4_3356 -0.9 -1.3 Cyclic nucleotide-binding protein compare
Pf1N1B4_3494 -0.9 -1.5 Flavoprotein WrbA compare
Pf1N1B4_5005 -0.9 -2.0 LysR family transcriptional regulator STM2281 compare
Pf1N1B4_4982 -0.9 -1.5 Transcriptional regulator, AraC family compare
Pf1N1B4_3006 -0.9 -3.8 tRNA-guanine transglycosylase (EC 2.4.2.29) compare
Pf1N1B4_3729 -0.9 -1.5 Quaternary ammonium compound-resistance protein SugE compare
Pf1N1B4_1389 -0.9 -2.0 Lysine decarboxylase family compare
Pf1N1B4_3825 -0.9 -2.4 FIG00959101: hypothetical protein compare
Pf1N1B4_673 -0.9 -2.2 MoxR-like ATPases compare
Pf1N1B4_4177 -0.9 -1.6 transcriptional regulator, Crp/Fnr family compare
Pf1N1B4_2269 -0.9 -1.5 Purine nucleoside phosphorylase (EC 2.4.2.1) compare
Pf1N1B4_2695 -0.9 -1.8 Rare lipoprotein A precursor compare
Pf1N1B4_364 -0.8 -2.7 Rhodanese domain protein UPF0176 compare
Pf1N1B4_262 -0.8 -7.1 Probable protease htpX homolog (EC 3.4.24.-) compare
Pf1N1B4_5137 -0.8 -3.9 Carboxynorspermidine decarboxylase, putative (EC 4.1.1.-) compare
Pf1N1B4_2940 -0.8 -2.8 hypothetical protein compare
Pf1N1B4_2674 -0.8 -1.3 hypothetical protein compare
Pf1N1B4_4857 -0.8 -2.8 Chemotaxis protein methyltransferase CheR (EC 2.1.1.80) compare
Pf1N1B4_2456 -0.8 -2.1 Sarcosine oxidase delta subunit (EC 1.5.3.1) compare
Pf1N1B4_4477 -0.8 -2.1 Dihydrolipoamide dehydrogenase of branched-chain alpha-keto acid dehydrogenase (EC 1.8.1.4) compare
Pf1N1B4_2527 -0.8 -5.2 ApaG protein compare
Pf1N1B4_3935 -0.8 -2.3 Major facilitator family transporter compare


Specific Phenotypes

For 9 genes in this experiment

For carbon source Sodium D-Lactate in Pseudomonas fluorescens FW300-N1B4

For carbon source Sodium D-Lactate across organisms