Experiment set1S445 for Variovorax sp. SCN45

Compare to:

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

200 most important genes:

  gene name fitness t score description  
GFF6022 -5.0 -6.8 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) compare
GFF372 -4.7 -8.4 PMID: 11481431 compare
GFF5158 -4.6 -7.0 Trehalose-6-phosphate phosphatase (EC 3.1.3.12) compare
GFF5261 -4.5 -7.4 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49) compare
GFF5076 -4.3 -14.7 hypothetical protein compare
GFF944 -4.3 -3.0 Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
GFF6878 -4.2 -13.5 hypothetical protein compare
GFF5324 -4.2 -2.9 Shikimate kinase I (EC 2.7.1.71) compare
GFF3265 -4.2 -2.9 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
GFF3089 -4.1 -2.8 Amidophosphoribosyltransferase (EC 2.4.2.14) compare
GFF6876 -4.0 -12.9 Aminotransferase, DegT/DnrJ/EryC1/StrS family compare
GFF4626 -4.0 -7.2 dTDP-Rha:A-D-GlcNAc-diphosphoryl polyprenol, A-3-L-rhamnosyl transferase WbbL compare
GFF2627 -4.0 -4.7 Chorismate synthase (EC 4.2.3.5) compare
GFF3890 -3.9 -2.7 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
GFF2847 -3.9 -3.7 histone-like nucleoid-structuring protein H-NS compare
GFF6875 -3.9 -6.4 hypothetical protein compare
GFF5267 -3.8 -3.7 Glucose-6-phosphate isomerase (EC 5.3.1.9) compare
GFF3838 -3.8 -17.5 Phosphoenolpyruvate carboxylase (EC 4.1.1.31) compare
GFF6182 -3.7 -2.5 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
GFF6512 -3.6 -2.5 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) @ 2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) compare
GFF5896 -3.6 -7.6 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
GFF339 -3.6 -4.8 Exodeoxyribonuclease I (EC 3.1.11.1) compare
GFF4625 -3.4 -6.8 Undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.33) compare
GFF1205 -3.4 -7.5 Oxidoreductase probably involved in sulfite reduction compare
GFF255 -3.4 -3.2 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (EC 2.3.1.117) compare
GFF244 -3.3 -5.5 Cys regulon transcriptional activator CysB compare
GFF946 -3.3 -5.0 Iron-sulfur cluster regulator IscR compare
GFF5666 -3.3 -3.9 Prevent host death protein, Phd antitoxin compare
GFF966 -3.2 -8.3 Probable two-component transmembrane sensor histidine kinase transcription regulator protein (EC 2.7.3.-) compare
GFF2515 -3.2 -3.7 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
GFF3888 -3.1 -5.6 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
GFF239 -3.1 -2.9 DNA polymerase III chi subunit (EC 2.7.7.7) compare
GFF5512 -3.1 -3.0 N5-carboxyaminoimidazole ribonucleotide mutase (EC 5.4.99.18) compare
GFF1206 -3.1 -9.7 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
GFF5118 -3.0 -4.5 gluconolactonase family protein compare
GFF3889 -3.0 -2.9 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
GFF3651 -2.9 -2.8 PTS system, IIA component compare
GFF5513 -2.9 -2.8 N5-carboxyaminoimidazole ribonucleotide synthase (EC 6.3.4.18) compare
GFF408 -2.9 -2.7 Two-component system response regulator OmpR compare
GFF302 -2.9 -1.9 Phosphoribosylamine--glycine ligase (EC 6.3.4.13) compare
GFF968 -2.8 -3.8 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF6513 -2.8 -6.0 Phosphogluconate dehydratase (EC 4.2.1.12) compare
GFF5325 -2.8 -2.6 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF6042 -2.7 -4.5 Fatty acid desaturase (EC 1.14.19.1); Delta-9 fatty acid desaturase (EC 1.14.19.1) compare
GFF6694 -2.7 -3.6 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
GFF1756 -2.6 -2.5 hypothetical protein compare
GFF4724 -2.5 -6.4 Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) compare
GFF967 -2.5 -15.5 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF1156 -2.5 -3.6 Putative transmembrane protein compare
GFF5307 -2.5 -5.6 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.241) compare
GFF7295 -2.5 -6.4 HPr kinase/phosphorylase compare
GFF3600 -2.4 -2.3 Pantothenate kinase type III, CoaX-like (EC 2.7.1.33) compare
GFF5246 -2.3 -12.1 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
GFF2804 -2.3 -4.1 Membrane protein compare
GFF5523 -2.3 -1.6 Orotidine 5'-phosphate decarboxylase (EC 4.1.1.23) compare
GFF5627 -2.3 -8.2 [4Fe-4S] cluster assembly scaffold protein Mrp (=ApbC) compare
GFF5065 -2.3 -1.5 Orotate phosphoribosyltransferase (EC 2.4.2.10) compare
GFF5509 -2.2 -3.7 Phosphoribosylaminoimidazole-succinocarboxamide synthase (EC 6.3.2.6) compare
GFF1324 -2.2 -2.6 Phosphoribosylformylglycinamidine synthase, synthetase subunit (EC 6.3.5.3) / Phosphoribosylformylglycinamidine synthase, glutamine amidotransferase subunit (EC 6.3.5.3) compare
GFF4991 -2.2 -2.1 Polyhydroxyalkanoate granule-associated protein PhaF compare
GFF3264 -2.2 -4.8 Methionine biosynthesis protein MetW compare
GFF2659 -2.2 -3.8 Electron transfer flavoprotein, alpha subunit compare
GFF6358 -2.1 -1.7 T6SS protein serine/threonine phosphatase PppA compare
GFF1105 -2.1 -3.6 Helicase compare
GFF5333 -2.0 -2.5 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
GFF2575 -2.0 -13.2 Quinolinate synthetase (EC 2.5.1.72) compare
GFF3928 -1.9 -2.6 Histone acetyltransferase HPA2 and related acetyltransferases compare
GFF3941 -1.9 -2.6 Phosphoribosylformylglycinamidine cyclo-ligase (EC 6.3.3.1) compare
GFF409 -1.9 -5.7 Osmolarity sensory histidine kinase EnvZ compare
GFF577 -1.9 -2.5 TolA protein compare
GFF291 -1.9 -8.9 Tol-Pal system peptidoglycan-associated lipoprotein PAL compare
GFF2128 -1.7 -8.4 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF576 -1.7 -4.5 Tol biopolymer transport system, TolR protein compare
GFF2574 -1.7 -6.6 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
GFF5317 -1.6 -1.9 Frataxin homolog CyaY, facilitates Fe-S cluster assembly, interacts with IscS compare
GFF5605 -1.6 -6.0 D-xylose ABC transporter, ATP-binding protein XylG compare
GFF5604 -1.6 -8.3 D-xylose ABC transporter, permease protein XylH compare
GFF575 -1.5 -8.5 Tol-Pal system protein TolQ compare
GFF7300 -1.5 -1.2 Biopolymer transport protein ExbD/TolR compare
GFF1203 -1.5 -6.2 Sulfate adenylyltransferase subunit 2 (EC 2.7.7.4) compare
GFF243 -1.5 -4.7 Sirohydrochlorin cobaltochelatase CbiX(small) (EC 4.99.1.3) compare
GFF2949 -1.5 -1.5 no description compare
GFF5057 -1.5 -12.1 Peptidoglycan D,D-transpeptidase MrdA (EC 3.4.16.4) compare
GFF5603 -1.5 -8.3 D-xylose ABC transporter, substrate-binding protein XylF compare
GFF4447 -1.5 -6.9 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphat e synthase I alpha (EC 2.5.1.54) compare
GFF4462 -1.5 -2.2 Crossover junction endodeoxyribonuclease RuvC (EC 3.1.22.4) compare
GFF4482 -1.4 -2.6 Transcriptional regulator MraZ compare
GFF3402 -1.4 -2.3 no description compare
GFF4216 -1.4 -1.5 ABC transporter, permease protein (cluster 3, basic aa/glutamine/opines) compare
GFF168 -1.4 -5.0 MCP methyltransferase, CheR-type compare
GFF7380 -1.4 -8.5 3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) compare
GFF3723 -1.4 -8.3 Cytochrome c5 compare
GFF6250 -1.4 -8.6 Glutamate--cysteine ligase-like protein YbdK compare
GFF292 -1.4 -10.1 Tol-Pal system beta propeller repeat protein TolB compare
GFF5876 -1.4 -6.9 Nitrogen regulation protein NtrY (EC 2.7.3.-) compare
GFF2251 -1.4 -3.0 no description compare
GFF270 -1.3 -10.0 2-methylcitrate dehydratase (2-methyl-trans-aconitate forming) (EC 4.2.1.117) compare
GFF3254 -1.3 -10.1 Phosphotransferase involved in threonylcarbamoyladenosine t(6)A37 formation in tRNA compare
GFF6249 -1.3 -5.7 Transporter, monovalent cation:proton antiporter-2 (CPA2) family compare
GFF2273 -1.3 -3.0 Transcriptional regulator, AcrR family compare
GFF5727 -1.3 -2.1 Methyl-accepting chemotaxis sensor/transducer protein compare
GFF2307 -1.3 -7.3 Heme O synthase, protoheme IX farnesyltransferase, COX10-CtaB compare
GFF5322 -1.3 -8.3 Type IV pilus biogenesis protein PilP compare
GFF2300 -1.3 -8.3 Cytochrome oxidase biogenesis protein Cox11-CtaG, copper delivery to Cox1 compare
GFF6591 -1.3 -4.6 Transcriptional regulator, GntR family compare
GFF6696 -1.3 -7.2 Ubiquinol-cytochrome C reductase, cytochrome C1 subunit compare
GFF1594 -1.3 -3.9 Antitoxin DinJ (binds YafQ toxin) compare
GFF6290 -1.3 -10.4 RNA polymerase sigma-54 factor RpoN compare
GFF821 -1.3 -1.9 Acetoacetyl-CoA reductase (EC 1.1.1.36) compare
GFF2573 -1.2 -6.4 Glycerol-3-phosphate dehydrogenase [NAD(P)+] (EC 1.1.1.94) compare
GFF4606 -1.2 -1.4 3-ketoacyl-CoA thiolase [fadN-fadA-fadE operon] (EC 2.3.1.16) compare
GFF5320 -1.2 -6.9 Type IV pilus biogenesis protein PilN compare
GFF5491 -1.2 -4.5 Peptide deformylase (EC 3.5.1.88) compare
GFF5156 -1.2 -10.5 Alpha,alpha-trehalose-phosphate synthase [UDP-forming] (EC 2.4.1.15) compare
GFF273 -1.2 -6.3 Transcriptional regulator, Xre family compare
GFF5323 -1.2 -9.1 Type IV pilus biogenesis protein PilQ compare
GFF3406 -1.2 -7.4 Benzoyl-CoA oxygenase component A compare
GFF489 -1.2 -3.4 ATP-dependent Clp protease proteolytic subunit ClpP (EC 3.4.21.92) compare
GFF5415 -1.2 -6.2 Type IV fimbrial biogenesis protein PilV compare
GFF2306 -1.2 -6.9 Heme A synthase, cytochrome oxidase biogenesis protein Cox15-CtaA compare
GFF2304 -1.2 -8.3 Cytochrome oxidase biogenesis protein Surf1, facilitates heme A insertion compare
GFF6996 -1.2 -1.5 Flagellar hook-basal body complex protein FliE compare
GFF6695 -1.2 -6.9 Ubiquinol-cytochrome C reductase, cytochrome B subunit (EC 1.10.2.2) compare
GFF2298 -1.2 -10.0 Cytochrome c oxidase polypeptide I (EC 1.9.3.1) compare
GFF1106 -1.2 -2.4 UvrD/REP helicase compare
GFF5321 -1.2 -8.5 Type IV pilus biogenesis protein PilO compare
GFF5743 -1.1 -1.9 Flagellar motor switch protein FliM compare
GFF2302 -1.1 -6.4 Cytochrome c oxidase polypeptide III (EC 1.9.3.1) compare
GFF2164 -1.1 -5.3 Transcriptional regulator, IclR family compare
GFF993 -1.1 -8.5 Type IV pilus biogenesis protein PilF compare
GFF3403 -1.1 -5.7 Benzoate catabolism regulator with shikimate kinase domain compare
GFF3204 -1.1 -2.1 no description compare
GFF5414 -1.1 -7.2 hypothetical protein compare
GFF7178 -1.1 -2.0 Glucose-1-phosphate thymidylyltransferase (EC 2.7.7.24) compare
GFF269 -1.1 -3.7 2-methylaconitate isomerase compare
GFF6862 -1.1 -4.6 Two-component system sensor histidine kinase compare
GFF5490 -1.1 -8.8 Uncharacterized protein with LysM domain, COG1652 compare
GFF1202 -1.1 -5.5 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) compare
GFF1856 -1.1 -2.6 FIG00636408: hypothetical protein compare
GFF6094 -1.1 -2.0 1,2-phenylacetyl-CoA epoxidase, subunit B (EC 1.14.13.149) compare
GFF33 -1.1 -7.8 Type IV pilus biogenesis protein PilZ compare
GFF2297 -1.1 -8.1 Cytochrome c oxidase polypeptide II (EC 1.9.3.1) compare
GFF1782 -1.1 -3.8 integral membrane sensor signal transduction histidine kinase compare
GFF1204 -1.1 -4.4 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) compare
GFF3660 -1.1 -5.7 integral membrane sensor signal transduction histidine kinase compare
GFF5416 -1.1 -8.4 Type IV fimbrial biogenesis protein PilW compare
GFF2073 -1.1 -3.5 Holliday junction ATP-dependent DNA helicase RuvA (EC 3.6.4.12) compare
GFF5417 -1.0 -7.6 hypothetical protein compare
GFF4530 -1.0 -6.6 MBL-fold metallo-hydrolase superfamily compare
GFF5289 -1.0 -1.8 hypothetical protein compare
GFF5419 -1.0 -8.2 Type IV pilus biogenesis protein PilE compare
GFF2341 -1.0 -1.3 ABC transporter, ATP-binding protein (cluster 5, nickel/peptides/opines) compare
GFF2151 -1.0 -6.7 twitching motility protein PilG compare
GFF487 -1.0 -6.6 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF4839 -1.0 -2.2 Transcriptional regulator PA2737, MerR family compare
GFF3068 -1.0 -6.5 FIG00538108: hypothetical protein compare
GFF6161 -1.0 -1.2 Hydroxymethylpyrimidine ABC transporter, ATPase component compare
GFF5319 -1.0 -8.8 Type IV pilus biogenesis protein PilM compare
GFF2819 -1.0 -2.2 Phosphoenolpyruvate synthase regulatory protein compare
GFF4432 -1.0 -6.8 Two-component system response regulator protein compare
GFF2508 -1.0 -7.7 Leader peptidase (Prepilin peptidase) (EC 3.4.23.43) / N-methyltransferase (EC 2.1.1.-) compare
GFF4485 -1.0 -7.9 FIG00715336: hypothetical protein compare
GFF5927 -1.0 -2.0 3-oxoacyl-[ACP] synthase compare
GFF2379 -1.0 -8.2 Serine/threonine protein kinase compare
GFF2510 -1.0 -8.0 Type IV fimbrial assembly, ATPase PilB compare
GFF2509 -1.0 -8.8 Type IV fimbrial assembly protein PilC compare
GFF5418 -1.0 -9.2 Type IV fimbrial biogenesis protein PilY1 compare
GFF5310 -1.0 -6.3 Cytochrome c4 compare
GFF5153 -1.0 -5.0 Putative ROK-family transcriptional regulator compare
GFF2734 -1.0 -4.5 DNA topoisomerase IV subunit B (EC 5.99.1.3) compare
GFF5412 -1.0 -6.1 no description compare
GFF6700 -1.0 -2.5 Single-stranded-DNA-specific exonuclease RecJ compare
GFF117 -1.0 -3.3 no description compare
GFF3952 -0.9 -2.5 LSU ribosomal protein L19p compare
GFF4298 -0.9 -1.3 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase compare
GFF1487 -0.9 -2.4 Tetrapartite efflux system component, FusD-like compare
GFF4954 -0.9 -1.4 no description compare
GFF1429 -0.9 -1.5 no description compare
GFF7335 -0.9 -1.2 no description compare
GFF5266 -0.9 -6.1 Transaldolase (EC 2.2.1.2) compare
GFF5369 -0.9 -1.6 Large-conductance mechanosensitive channel compare
GFF3177 -0.9 -1.4 hypothetical protein compare
GFF2570 -0.9 -1.8 Rhodanese-related sulfurtransferase YibN compare
GFF1778 -0.9 -3.1 Transcriptional regulator, HxlR family compare
GFF7242 -0.9 -1.4 hypothetical protein compare
GFF5411 -0.9 -6.6 CAMP phosphodiesterases class-II:Metallo-beta-lactamase superfamily compare
GFF1957 -0.9 -1.4 no description compare
GFF2519 -0.9 -6.7 FIG016425: Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) compare
GFF3438 -0.9 -1.9 Amidohydrolase family protein compare
GFF1670 -0.9 -1.9 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
GFF2699 -0.9 -1.5 4Fe-4S ferredoxin, iron-sulfur binding compare
GFF3986 -0.9 -2.0 Oxidoreductase, short-chain dehydrogenase/reductase family compare
GFF3450 -0.8 -2.6 Transcriptional regulator, LacI family compare
GFF1155 -0.8 -3.7 Putative transmembrane protein compare
GFF3514 -0.8 -2.3 no description compare
GFF2708 -0.8 -2.0 no description compare
GFF4108 -0.8 -1.9 ABC transporter, permease protein (cluster 3, basic aa/glutamine/opines) compare
GFF290 -0.8 -4.5 Cell division coordinator CpoB compare
GFF99 -0.8 -1.5 KEGG: RNA polymerase sigma-70 factor, ECF subfamily compare
GFF6988 -0.8 -1.5 Flagellar hook protein FlgE compare


Specific Phenotypes

None in this experiment

For Variovorax sp. SCN45 in vitamin experiments

For vitamin calcium pantothenate across organisms