Experiment set1S449 for Variovorax sp. SCN45

Compare to:

M9 with calcium pantothenate 10 mg/mL and thiamine HCl 50 mg/mL

200 most important genes:

  gene name fitness t score description  
GFF5158 -5.4 -6.4 Trehalose-6-phosphate phosphatase (EC 3.1.3.12) compare
GFF5261 -4.3 -7.2 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49) compare
GFF372 -4.1 -9.4 PMID: 11481431 compare
GFF946 -4.1 -4.5 Iron-sulfur cluster regulator IscR compare
GFF5118 -4.0 -3.8 gluconolactonase family protein compare
GFF2847 -3.9 -3.8 histone-like nucleoid-structuring protein H-NS compare
GFF6022 -3.8 -9.5 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) compare
GFF6876 -3.7 -14.9 Aminotransferase, DegT/DnrJ/EryC1/StrS family compare
GFF6512 -3.7 -2.5 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) @ 2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) compare
GFF5076 -3.6 -16.8 hypothetical protein compare
GFF5267 -3.6 -3.4 Glucose-6-phosphate isomerase (EC 5.3.1.9) compare
GFF3265 -3.5 -3.4 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
GFF4625 -3.5 -7.0 Undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.33) compare
GFF255 -3.4 -3.3 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (EC 2.3.1.117) compare
GFF2627 -3.4 -5.2 Chorismate synthase (EC 4.2.3.5) compare
GFF6042 -3.4 -3.3 Fatty acid desaturase (EC 1.14.19.1); Delta-9 fatty acid desaturase (EC 1.14.19.1) compare
GFF6878 -3.4 -17.3 hypothetical protein compare
GFF944 -3.4 -3.9 Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
GFF3890 -3.4 -4.6 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
GFF5513 -3.3 -2.3 N5-carboxyaminoimidazole ribonucleotide synthase (EC 6.3.4.18) compare
GFF5307 -3.3 -5.0 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.241) compare
GFF5325 -3.3 -2.2 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF4626 -3.2 -8.5 dTDP-Rha:A-D-GlcNAc-diphosphoryl polyprenol, A-3-L-rhamnosyl transferase WbbL compare
GFF4724 -3.2 -7.3 Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) compare
GFF5896 -3.2 -9.1 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
GFF5512 -3.2 -3.1 N5-carboxyaminoimidazole ribonucleotide mutase (EC 5.4.99.18) compare
GFF6875 -3.2 -8.3 hypothetical protein compare
GFF3089 -3.1 -3.0 Amidophosphoribosyltransferase (EC 2.4.2.14) compare
GFF244 -3.0 -6.4 Cys regulon transcriptional activator CysB compare
GFF6182 -3.0 -5.3 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
GFF3838 -2.9 -16.6 Phosphoenolpyruvate carboxylase (EC 4.1.1.31) compare
GFF966 -2.9 -9.3 Probable two-component transmembrane sensor histidine kinase transcription regulator protein (EC 2.7.3.-) compare
GFF302 -2.9 -2.0 Phosphoribosylamine--glycine ligase (EC 6.3.4.13) compare
GFF5666 -2.8 -4.6 Prevent host death protein, Phd antitoxin compare
GFF3889 -2.8 -3.2 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
GFF6513 -2.7 -6.4 Phosphogluconate dehydratase (EC 4.2.1.12) compare
GFF3600 -2.7 -1.8 Pantothenate kinase type III, CoaX-like (EC 2.7.1.33) compare
GFF3888 -2.6 -7.2 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
GFF7295 -2.5 -6.5 HPr kinase/phosphorylase compare
GFF1206 -2.4 -9.9 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
GFF2659 -2.4 -4.0 Electron transfer flavoprotein, alpha subunit compare
GFF239 -2.4 -2.7 DNA polymerase III chi subunit (EC 2.7.7.7) compare
GFF339 -2.4 -5.1 Exodeoxyribonuclease I (EC 3.1.11.1) compare
GFF5523 -2.4 -1.6 Orotidine 5'-phosphate decarboxylase (EC 4.1.1.23) compare
GFF967 -2.3 -15.1 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF2515 -2.3 -2.7 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
GFF1105 -2.3 -3.7 Helicase compare
GFF5065 -2.3 -1.6 Orotate phosphoribosyltransferase (EC 2.4.2.10) compare
GFF1324 -2.3 -2.7 Phosphoribosylformylglycinamidine synthase, synthetase subunit (EC 6.3.5.3) / Phosphoribosylformylglycinamidine synthase, glutamine amidotransferase subunit (EC 6.3.5.3) compare
GFF5324 -2.2 -2.6 Shikimate kinase I (EC 2.7.1.71) compare
GFF5246 -2.2 -11.6 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
GFF5509 -2.1 -4.2 Phosphoribosylaminoimidazole-succinocarboxamide synthase (EC 6.3.2.6) compare
GFF4462 -2.1 -2.6 Crossover junction endodeoxyribonuclease RuvC (EC 3.1.22.4) compare
GFF3941 -2.0 -2.7 Phosphoribosylformylglycinamidine cyclo-ligase (EC 6.3.3.1) compare
GFF821 -1.9 -2.9 Acetoacetyl-CoA reductase (EC 1.1.1.36) compare
GFF408 -1.9 -1.9 Two-component system response regulator OmpR compare
GFF1474 -1.9 -2.6 Transcriptional regulator, LysR family compare
GFF4748 -1.8 -2.2 Triosephosphate isomerase (EC 5.3.1.1) compare
GFF2575 -1.8 -11.3 Quinolinate synthetase (EC 2.5.1.72) compare
GFF7380 -1.7 -9.4 3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) compare
GFF1908 -1.7 -1.7 Short-chain dehydrogenases of various substrate specificities compare
GFF168 -1.7 -6.2 MCP methyltransferase, CheR-type compare
GFF269 -1.7 -4.6 2-methylaconitate isomerase compare
GFF2570 -1.7 -3.6 Rhodanese-related sulfurtransferase YibN compare
GFF5627 -1.6 -6.2 [4Fe-4S] cluster assembly scaffold protein Mrp (=ApbC) compare
GFF968 -1.6 -3.1 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF577 -1.6 -3.6 TolA protein compare
GFF2128 -1.6 -8.7 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF3264 -1.6 -4.4 Methionine biosynthesis protein MetW compare
GFF4447 -1.6 -7.6 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphat e synthase I alpha (EC 2.5.1.54) compare
GFF5604 -1.6 -7.1 D-xylose ABC transporter, permease protein XylH compare
GFF3705 -1.5 -1.5 Amidases related to nicotinamidase compare
GFF2804 -1.5 -3.0 Membrane protein compare
GFF270 -1.5 -11.0 2-methylcitrate dehydratase (2-methyl-trans-aconitate forming) (EC 4.2.1.117) compare
GFF1106 -1.5 -3.1 UvrD/REP helicase compare
GFF2819 -1.5 -3.7 Phosphoenolpyruvate synthase regulatory protein compare
GFF6700 -1.5 -3.4 Single-stranded-DNA-specific exonuclease RecJ compare
GFF291 -1.5 -7.9 Tol-Pal system peptidoglycan-associated lipoprotein PAL compare
GFF4790 -1.4 -4.8 Nudix-related transcriptional regulator NrtR compare
GFF1632 -1.4 -1.7 RNA polymerase ECF-type sigma factor compare
GFF243 -1.4 -4.7 Sirohydrochlorin cobaltochelatase CbiX(small) (EC 4.99.1.3) compare
GFF1205 -1.4 -5.9 Oxidoreductase probably involved in sulfite reduction compare
GFF5603 -1.4 -8.6 D-xylose ABC transporter, substrate-binding protein XylF compare
GFF409 -1.4 -5.0 Osmolarity sensory histidine kinase EnvZ compare
GFF5981 -1.4 -1.9 COGs COG3558 compare
GFF3394 -1.4 -1.3 Benzoate ABC transporter, ATP-binding protein 1 compare
GFF6249 -1.3 -5.6 Transporter, monovalent cation:proton antiporter-2 (CPA2) family compare
GFF575 -1.3 -7.5 Tol-Pal system protein TolQ compare
GFF6250 -1.3 -9.1 Glutamate--cysteine ligase-like protein YbdK compare
GFF5727 -1.3 -1.4 Methyl-accepting chemotaxis sensor/transducer protein compare
GFF624 -1.3 -2.5 hypothetical protein compare
GFF4106 -1.3 -1.8 ABC transporter, ATP-binding protein (cluster 3, basic aa/glutamine/opines) compare
GFF7063 -1.3 -1.4 Antibiotic biosynthesis monooxygenase compare
GFF3152 -1.3 -2.0 hypothetical protein compare
GFF2730 -1.3 -3.0 DNA topoisomerase IV subunit A (EC 5.99.1.3) compare
GFF2574 -1.3 -4.5 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
GFF5734 -1.3 -1.3 Methyl-accepting chemotaxis sensor/transducer protein compare
GFF5057 -1.3 -10.5 Peptidoglycan D,D-transpeptidase MrdA (EC 3.4.16.4) compare
GFF71 -1.3 -3.1 Aminoglycoside 3''-nucleotidyltransferase (EC 2.7.7.-) => ANT(3'')-Ia (AadA family) compare
GFF89 -1.3 -1.4 hypothetical protein compare
GFF576 -1.2 -3.6 Tol biopolymer transport system, TolR protein compare
GFF1756 -1.2 -1.2 hypothetical protein compare
GFF3969 -1.2 -2.8 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1; Vanillate O-demethylase oxidoreductase (EC 1.14.13.-) compare
GFF5877 -1.2 -3.8 Probable proline rich signal peptide protein compare
GFF4530 -1.2 -6.7 MBL-fold metallo-hydrolase superfamily compare
GFF3660 -1.2 -7.4 integral membrane sensor signal transduction histidine kinase compare
GFF506 -1.2 -2.4 hypothetical protein compare
GFF2300 -1.2 -7.2 Cytochrome oxidase biogenesis protein Cox11-CtaG, copper delivery to Cox1 compare
GFF6246 -1.2 -4.5 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF1047 -1.1 -7.4 hypothetical protein compare
GFF5876 -1.1 -5.8 Nitrogen regulation protein NtrY (EC 2.7.3.-) compare
GFF5156 -1.1 -9.7 Alpha,alpha-trehalose-phosphate synthase [UDP-forming] (EC 2.4.1.15) compare
GFF1600 -1.1 -1.1 Branched-chain amino acid ABC transporter, permease protein LivH (TC 3.A.1.4.1) compare
GFF6174 -1.1 -0.9 Fluoride ion transporter CrcB compare
GFF1204 -1.1 -5.7 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) compare
GFF1594 -1.1 -3.1 Antitoxin DinJ (binds YafQ toxin) compare
GFF6087 -1.1 -6.0 Transcriptional regulator, AcrR family compare
GFF292 -1.1 -8.6 Tol-Pal system beta propeller repeat protein TolB compare
GFF268 -1.1 -5.7 Carboxyvinyl-carboxyphosphonate phosphorylmutase (EC 2.7.8.23) compare
GFF5491 -1.1 -4.3 Peptide deformylase (EC 3.5.1.88) compare
GFF487 -1.1 -6.2 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF7294 -1.0 -2.6 PTS IIA-like nitrogen-regulatory protein PtsN compare
GFF5605 -1.0 -4.2 D-xylose ABC transporter, ATP-binding protein XylG compare
GFF5411 -1.0 -7.7 CAMP phosphodiesterases class-II:Metallo-beta-lactamase superfamily compare
GFF2056 -1.0 -2.5 Septum-associated rare lipoprotein A compare
GFF15 -1.0 -1.6 no description compare
GFF7178 -1.0 -1.5 Glucose-1-phosphate thymidylyltransferase (EC 2.7.7.24) compare
GFF1984 -1.0 -2.4 Phospholipid and glycerol acyltransferase (EC 2.3.1.51) compare
GFF3455 -1.0 -3.0 Two component response regulator associated with urea and amide use compare
GFF4206 -1.0 -3.0 gamma-BHC dehydrochlorinase compare
GFF2297 -1.0 -7.6 Cytochrome c oxidase polypeptide II (EC 1.9.3.1) compare
GFF5266 -1.0 -6.0 Transaldolase (EC 2.2.1.2) compare
GFF185 -1.0 -1.6 hypothetical protein compare
GFF7264 -1.0 -1.9 Gluconolactonase (EC 3.1.1.17) compare
GFF3651 -1.0 -1.2 PTS system, IIA component compare
GFF2273 -1.0 -2.3 Transcriptional regulator, AcrR family compare
GFF3723 -1.0 -5.8 Cytochrome c5 compare
GFF2971 -1.0 -1.4 Transcriptional regulator, LysR family compare
GFF3418 -0.9 -3.5 ABC transporter, ATP-binding protein (cluster 1, maltose/g3p/polyamine/iron); ABC transporter, ATP-binding protein (cluster 10, nitrate/sulfonate/bicarbonate) compare
GFF2463 -0.9 -1.0 Response regulator BaeR compare
GFF1203 -0.9 -4.9 Sulfate adenylyltransferase subunit 2 (EC 2.7.7.4) compare
GFF3254 -0.9 -7.4 Phosphotransferase involved in threonylcarbamoyladenosine t(6)A37 formation in tRNA compare
GFF2298 -0.9 -8.2 Cytochrome c oxidase polypeptide I (EC 1.9.3.1) compare
GFF3790 -0.9 -2.8 Formyltetrahydrofolate deformylase (EC 3.5.1.10) compare
GFF2734 -0.9 -4.2 DNA topoisomerase IV subunit B (EC 5.99.1.3) compare
GFF5941 -0.9 -1.1 hypothetical protein compare
GFF7242 -0.9 -1.3 hypothetical protein compare
GFF733 -0.9 -1.4 no description compare
GFF4623 -0.9 -3.5 Transcriptional regulator, AcrR family compare
GFF2306 -0.9 -5.7 Heme A synthase, cytochrome oxidase biogenesis protein Cox15-CtaA compare
GFF5333 -0.9 -2.1 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
GFF4270 -0.9 -2.0 Transcriptional regulator, AcrR family compare
GFF3779 -0.9 -2.3 hypothetical protein compare
GFF2164 -0.9 -4.1 Transcriptional regulator, IclR family compare
GFF4360 -0.9 -1.2 no description compare
GFF305 -0.8 -5.9 uncharacterized domain / RidA/YER057c/UK114 superfamily, group 5 compare
GFF6862 -0.8 -3.7 Two-component system sensor histidine kinase compare
GFF4792 -0.8 -2.2 PhnB protein compare
GFF5049 -0.8 -1.3 NAD-dependent protein deacetylase of SIR2 family compare
GFF4482 -0.8 -2.0 Transcriptional regulator MraZ compare
GFF5310 -0.8 -5.6 Cytochrome c4 compare
GFF5929 -0.8 -1.7 Mll2356 protein compare
GFF489 -0.8 -2.9 ATP-dependent Clp protease proteolytic subunit ClpP (EC 3.4.21.92) compare
GFF2073 -0.8 -2.2 Holliday junction ATP-dependent DNA helicase RuvA (EC 3.6.4.12) compare
GFF6695 -0.8 -5.3 Ubiquinol-cytochrome C reductase, cytochrome B subunit (EC 1.10.2.2) compare
GFF4903 -0.8 -0.9 no description compare
GFF273 -0.8 -3.9 Transcriptional regulator, Xre family compare
GFF4454 -0.8 -3.2 Exoribonuclease II (EC 3.1.13.1) compare
GFF2304 -0.8 -4.7 Cytochrome oxidase biogenesis protein Surf1, facilitates heme A insertion compare
GFF6036 -0.8 -3.7 DNA translocase FtsK compare
GFF3403 -0.8 -4.1 Benzoate catabolism regulator with shikimate kinase domain compare
GFF2302 -0.8 -4.8 Cytochrome c oxidase polypeptide III (EC 1.9.3.1) compare
GFF6696 -0.8 -4.1 Ubiquinol-cytochrome C reductase, cytochrome C1 subunit compare
GFF2090 -0.8 -2.4 Holliday junction ATP-dependent DNA helicase RuvB (EC 3.6.4.12) compare
GFF808 -0.8 -6.5 Polyhydroxyalkanoic acid synthase compare
GFF3825 -0.8 -3.1 Autolysin sensor kinase (EC 2.7.3.-) compare
GFF7016 -0.7 -1.4 FAD-dependent oxidoreductase compare
GFF917 -0.7 -2.2 hypothetical protein compare
GFF6008 -0.7 -1.3 Citrate synthase (si) (EC 2.3.3.1) compare
GFF169 -0.7 -5.1 Protein-glutamate methylesterase (EC 3.1.1.61) compare
GFF3406 -0.7 -5.0 Benzoyl-CoA oxygenase component A compare
GFF6161 -0.7 -1.1 Hydroxymethylpyrimidine ABC transporter, ATPase component compare
GFF6961 -0.7 -2.7 Cytochrome c oxidase (cbb3-type) subunit CcoP (EC 1.9.3.1) compare
GFF2987 -0.7 -2.9 CBS domain protein compare
GFF717 -0.7 -1.2 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF7328 -0.7 -1.4 no description compare
GFF6385 -0.7 -1.2 Mll4878 protein compare
GFF1625 -0.7 -1.0 Transcriptional regulator, LysR family compare
GFF2027 -0.7 -4.5 2-hydroxychromene-2-carboxylate isomerase family protein compare
GFF4301 -0.7 -1.7 Dehydrogenases with different specificities (related to short-chain alcohol dehydrogenases) compare
GFF3043 -0.7 -1.3 Response regulator BaeR compare
GFF1957 -0.7 -1.2 no description compare
GFF6429 -0.7 -2.3 Pyruvate:Oxaloacetate transcarboxylase domain protein compare
GFF5320 -0.7 -4.8 Type IV pilus biogenesis protein PilN compare
GFF1858 -0.7 -0.9 ABC transporter, ATP-binding protein (cluster 3, basic aa/glutamine/opines) compare
GFF1013 -0.7 -1.2 hypothetical protein compare
GFF4839 -0.7 -1.8 Transcriptional regulator PA2737, MerR family compare
GFF5122 -0.7 -1.0 AAA+ ATPase superfamily protein YifB/ComM, associated with DNA recombination compare
GFF5414 -0.7 -4.9 hypothetical protein compare
GFF3573 -0.7 -2.3 Efflux ABC transporter, ATP-binding protein compare


Specific Phenotypes

None in this experiment

For Variovorax sp. SCN45 in vitamin experiments

For vitamin calcium pantothenate across organisms