Experiment set1S444 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  
GFF4748 -4.8 -3.3 Triosephosphate isomerase (EC 5.3.1.1) compare
GFF5158 -4.6 -7.7 Trehalose-6-phosphate phosphatase (EC 3.1.3.12) compare
GFF2627 -4.0 -3.9 Chorismate synthase (EC 4.2.3.5) compare
GFF3089 -3.9 -2.7 Amidophosphoribosyltransferase (EC 2.4.2.14) compare
GFF5896 -3.8 -6.3 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
GFF1756 -3.5 -2.4 hypothetical protein compare
GFF2515 -3.5 -3.4 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
GFF5267 -3.5 -3.4 Glucose-6-phosphate isomerase (EC 5.3.1.9) compare
GFF3889 -3.5 -2.4 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
GFF6512 -3.4 -2.3 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) @ 2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) compare
GFF6182 -3.3 -3.2 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
GFF2659 -3.2 -3.8 Electron transfer flavoprotein, alpha subunit compare
GFF244 -3.2 -4.9 Cys regulon transcriptional activator CysB compare
GFF3890 -3.2 -3.8 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
GFF6022 -3.2 -8.5 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) compare
GFF5512 -3.2 -2.2 N5-carboxyaminoimidazole ribonucleotide mutase (EC 5.4.99.18) compare
GFF2804 -3.1 -3.7 Membrane protein compare
GFF6042 -3.1 -3.0 Fatty acid desaturase (EC 1.14.19.1); Delta-9 fatty acid desaturase (EC 1.14.19.1) compare
GFF5261 -3.1 -8.5 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49) compare
GFF255 -3.1 -3.0 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (EC 2.3.1.117) compare
GFF4625 -3.1 -6.2 Undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.33) compare
GFF5307 -3.0 -4.6 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.241) compare
GFF944 -3.0 -3.5 Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
GFF3838 -2.9 -15.0 Phosphoenolpyruvate carboxylase (EC 4.1.1.31) compare
GFF5666 -2.9 -3.9 Prevent host death protein, Phd antitoxin compare
GFF4724 -2.8 -5.1 Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) compare
GFF5076 -2.8 -14.8 hypothetical protein compare
GFF302 -2.7 -1.8 Phosphoribosylamine--glycine ligase (EC 6.3.4.13) compare
GFF5513 -2.7 -2.6 N5-carboxyaminoimidazole ribonucleotide synthase (EC 6.3.4.18) compare
GFF372 -2.6 -8.5 PMID: 11481431 compare
GFF5325 -2.6 -2.5 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF20 -2.6 -2.2 hypothetical protein compare
GFF4626 -2.6 -7.1 dTDP-Rha:A-D-GlcNAc-diphosphoryl polyprenol, A-3-L-rhamnosyl transferase WbbL compare
GFF339 -2.5 -4.7 Exodeoxyribonuclease I (EC 3.1.11.1) compare
GFF408 -2.5 -2.3 Two-component system response regulator OmpR compare
GFF5118 -2.5 -4.1 gluconolactonase family protein compare
GFF4954 -2.4 -2.3 no description compare
GFF3888 -2.4 -6.0 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
GFF6513 -2.4 -6.8 Phosphogluconate dehydratase (EC 4.2.1.12) compare
GFF967 -2.4 -14.0 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF966 -2.4 -8.0 Probable two-component transmembrane sensor histidine kinase transcription regulator protein (EC 2.7.3.-) compare
GFF1206 -2.4 -8.7 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
GFF968 -2.4 -3.2 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF5317 -2.3 -2.2 Frataxin homolog CyaY, facilitates Fe-S cluster assembly, interacts with IscS compare
GFF1594 -2.3 -5.0 Antitoxin DinJ (binds YafQ toxin) compare
GFF4352 -2.3 -2.2 Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) compare
GFF2847 -2.2 -2.8 histone-like nucleoid-structuring protein H-NS compare
GFF5509 -2.2 -3.0 Phosphoribosylaminoimidazole-succinocarboxamide synthase (EC 6.3.2.6) compare
GFF1475 -2.2 -2.1 no description compare
GFF7295 -2.2 -5.6 HPr kinase/phosphorylase compare
GFF3600 -2.2 -2.1 Pantothenate kinase type III, CoaX-like (EC 2.7.1.33) compare
GFF5523 -2.1 -1.4 Orotidine 5'-phosphate decarboxylase (EC 4.1.1.23) compare
GFF5065 -2.1 -1.4 Orotate phosphoribosyltransferase (EC 2.4.2.10) compare
GFF1324 -2.1 -2.4 Phosphoribosylformylglycinamidine synthase, synthetase subunit (EC 6.3.5.3) / Phosphoribosylformylglycinamidine synthase, glutamine amidotransferase subunit (EC 6.3.5.3) compare
GFF946 -2.0 -2.7 Iron-sulfur cluster regulator IscR compare
GFF5246 -2.0 -10.3 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
GFF1205 -2.0 -5.1 Oxidoreductase probably involved in sulfite reduction compare
GFF3264 -2.0 -3.4 Methionine biosynthesis protein MetW compare
GFF6876 -1.9 -11.8 Aminotransferase, DegT/DnrJ/EryC1/StrS family compare
GFF2463 -1.9 -1.8 Response regulator BaeR compare
GFF1156 -1.9 -2.8 Putative transmembrane protein compare
GFF1105 -1.9 -3.3 Helicase compare
GFF3265 -1.9 -2.4 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
GFF3352 -1.8 -1.6 Branched-chain amino acid ABC transporter, ATP-binding protein LivG (TC 3.A.1.4.1) compare
GFF1984 -1.8 -3.2 Phospholipid and glycerol acyltransferase (EC 2.3.1.51) compare
GFF4092 -1.8 -3.2 Copper tolerance protein compare
GFF2574 -1.8 -7.9 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
GFF168 -1.7 -6.3 MCP methyltransferase, CheR-type compare
GFF6263 -1.7 -1.1 Uncharacterized protein Atu0170, clustered with phosphonate utilization compare
GFF291 -1.7 -8.1 Tol-Pal system peptidoglycan-associated lipoprotein PAL compare
GFF239 -1.7 -1.8 DNA polymerase III chi subunit (EC 2.7.7.7) compare
GFF2073 -1.7 -3.7 Holliday junction ATP-dependent DNA helicase RuvA (EC 3.6.4.12) compare
GFF1106 -1.7 -2.9 UvrD/REP helicase compare
GFF6249 -1.7 -7.9 Transporter, monovalent cation:proton antiporter-2 (CPA2) family compare
GFF4482 -1.7 -3.8 Transcriptional regulator MraZ compare
GFF5627 -1.6 -5.5 [4Fe-4S] cluster assembly scaffold protein Mrp (=ApbC) compare
GFF5324 -1.6 -2.3 Shikimate kinase I (EC 2.7.1.71) compare
GFF6878 -1.6 -10.4 hypothetical protein compare
GFF409 -1.6 -4.9 Osmolarity sensory histidine kinase EnvZ compare
GFF2575 -1.6 -10.8 Quinolinate synthetase (EC 2.5.1.72) compare
GFF821 -1.6 -2.3 Acetoacetyl-CoA reductase (EC 1.1.1.36) compare
GFF7242 -1.6 -1.8 hypothetical protein compare
GFF7380 -1.6 -7.4 3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) compare
GFF3510 -1.6 -2.1 Multidrug efflux system, membrane fusion component => MexH of MexHI-OpmD system compare
GFF3455 -1.6 -3.7 Two component response regulator associated with urea and amide use compare
GFF6250 -1.6 -8.3 Glutamate--cysteine ligase-like protein YbdK compare
GFF3928 -1.6 -2.1 Histone acetyltransferase HPA2 and related acetyltransferases compare
GFF4847 -1.5 -2.1 Conjugative transfer protein TrbD compare
GFF270 -1.5 -10.7 2-methylcitrate dehydratase (2-methyl-trans-aconitate forming) (EC 4.2.1.117) compare
GFF6184 -1.5 -2.4 hypothetical protein compare
GFF575 -1.5 -7.7 Tol-Pal system protein TolQ compare
GFF6839 -1.5 -2.1 hypothetical protein compare
GFF4447 -1.4 -7.2 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphat e synthase I alpha (EC 2.5.1.54) compare
GFF7178 -1.4 -1.1 Glucose-1-phosphate thymidylyltransferase (EC 2.7.7.24) compare
GFF577 -1.4 -2.3 TolA protein compare
GFF3941 -1.4 -2.3 Phosphoribosylformylglycinamidine cyclo-ligase (EC 6.3.3.1) compare
GFF3854 -1.4 -2.8 FIG01269488: protein, clustered with ribosomal protein L32p compare
GFF2302 -1.4 -7.7 Cytochrome c oxidase polypeptide III (EC 1.9.3.1) compare
GFF6875 -1.4 -5.4 hypothetical protein compare
GFF2262 -1.4 -2.2 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases compare
GFF2139 -1.4 -1.6 Ribose ABC transporter, ATP-binding protein RbsA (TC 3.A.1.2.1) compare
GFF243 -1.4 -3.4 Sirohydrochlorin cobaltochelatase CbiX(small) (EC 4.99.1.3) compare
GFF1203 -1.4 -6.1 Sulfate adenylyltransferase subunit 2 (EC 2.7.7.4) compare
GFF4788 -1.3 -1.8 Uncharacterized protein COG3236 compare
GFF5156 -1.3 -11.1 Alpha,alpha-trehalose-phosphate synthase [UDP-forming] (EC 2.4.1.15) compare
GFF4215 -1.3 -2.0 L-amino acid ABC transporter (Glu/Asp/His/...), permease protein 1 AapQ compare
GFF6439 -1.3 -2.3 Transcriptional regulator, LysR family compare
GFF6036 -1.3 -5.2 DNA translocase FtsK compare
GFF5742 -1.3 -1.8 Flagellar motor switch protein FliN compare
GFF4530 -1.3 -7.4 MBL-fold metallo-hydrolase superfamily compare
GFF6003 -1.3 -2.8 no description compare
GFF6290 -1.3 -10.2 RNA polymerase sigma-54 factor RpoN compare
GFF5057 -1.3 -10.4 Peptidoglycan D,D-transpeptidase MrdA (EC 3.4.16.4) compare
GFF576 -1.3 -2.8 Tol biopolymer transport system, TolR protein compare
GFF273 -1.3 -5.5 Transcriptional regulator, Xre family compare
GFF1113 -1.3 -1.6 ABC transporter, ATP-binding protein (cluster 1, maltose/g3p/polyamine/iron); ABC transporter, ATP-binding protein (cluster 10, nitrate/sulfonate/bicarbonate) compare
GFF2570 -1.3 -2.7 Rhodanese-related sulfurtransferase YibN compare
GFF2398 -1.3 -1.8 Uncharacterized MFS-type transporter compare
GFF7345 -1.3 -1.5 Periplasmic aromatic aldehyde oxidoreductase, iron-sulfur subunit YagT compare
GFF3736 -1.3 -1.1 UPF0102 protein YraN compare
GFF3651 -1.2 -1.3 PTS system, IIA component compare
GFF4218 -1.2 -2.6 no description compare
GFF5414 -1.2 -6.8 hypothetical protein compare
GFF5030 -1.2 -1.4 no description compare
GFF292 -1.2 -9.2 Tol-Pal system beta propeller repeat protein TolB compare
GFF3957 -1.2 -1.9 Ribosome small subunit biogenesis RbfA-release protein RsgA compare
GFF3723 -1.2 -7.4 Cytochrome c5 compare
GFF5323 -1.1 -8.4 Type IV pilus biogenesis protein PilQ compare
GFF143 -1.1 -2.0 Dethiobiotin synthase BioD (EC 6.3.3.3) compare
GFF2508 -1.1 -8.4 Leader peptidase (Prepilin peptidase) (EC 3.4.23.43) / N-methyltransferase (EC 2.1.1.-) compare
GFF5319 -1.1 -9.2 Type IV pilus biogenesis protein PilM compare
GFF6740 -1.1 -2.1 hypothetical protein compare
GFF2090 -1.1 -2.7 Holliday junction ATP-dependent DNA helicase RuvB (EC 3.6.4.12) compare
GFF5091 -1.1 -1.0 5-carboxymethyl-2-oxo-hex-3- ene-1,7-dioate decarboxylase (EC 4.1.1.68) compare
GFF2510 -1.1 -8.4 Type IV fimbrial assembly, ATPase PilB compare
GFF269 -1.1 -4.0 2-methylaconitate isomerase compare
GFF2300 -1.1 -5.8 Cytochrome oxidase biogenesis protein Cox11-CtaG, copper delivery to Cox1 compare
GFF3160 -1.1 -1.9 Transcriptional regulator YeiE, LysR family compare
GFF5320 -1.1 -6.3 Type IV pilus biogenesis protein PilN compare
GFF6087 -1.1 -5.3 Transcriptional regulator, AcrR family compare
GFF5941 -1.1 -1.2 hypothetical protein compare
GFF2027 -1.1 -5.9 2-hydroxychromene-2-carboxylate isomerase family protein compare
GFF2509 -1.1 -9.2 Type IV fimbrial assembly protein PilC compare
GFF5417 -1.1 -7.6 hypothetical protein compare
GFF5987 -1.1 -3.7 Response regulator BaeR compare
GFF773 -1.1 -1.2 hypothetical protein compare
GFF5601 -1.1 -2.3 Predicted hydrolase of the alpha/beta-hydrolase fold compare
GFF6246 -1.1 -3.8 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF497 -1.1 -5.2 Phytoene synthase (EC 2.5.1.32) compare
GFF3826 -1.1 -5.8 Response regulator receiver:LytTr DNA-binding region compare
GFF6972 -1.1 -1.6 no description compare
GFF5605 -1.0 -2.7 D-xylose ABC transporter, ATP-binding protein XylG compare
GFF5490 -1.0 -8.3 Uncharacterized protein with LysM domain, COG1652 compare
GFF33 -1.0 -7.5 Type IV pilus biogenesis protein PilZ compare
GFF5310 -1.0 -5.9 Cytochrome c4 compare
GFF4432 -1.0 -6.7 Two-component system response regulator protein compare
GFF7289 -1.0 -1.0 5'-methylthioadenosine nucleosidase (EC 3.2.2.16) @ S-adenosylhomocysteine nucleosidase (EC 3.2.2.9) compare
GFF2307 -1.0 -5.6 Heme O synthase, protoheme IX farnesyltransferase, COX10-CtaB compare
GFF1202 -1.0 -4.9 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) compare
GFF5322 -1.0 -6.8 Type IV pilus biogenesis protein PilP compare
GFF2298 -1.0 -8.6 Cytochrome c oxidase polypeptide I (EC 1.9.3.1) compare
GFF2273 -1.0 -2.1 Transcriptional regulator, AcrR family compare
GFF993 -1.0 -7.4 Type IV pilus biogenesis protein PilF compare
GFF5266 -1.0 -5.9 Transaldolase (EC 2.2.1.2) compare
GFF5333 -1.0 -2.2 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
GFF2326 -1.0 -1.9 Transcriptional regulator, LysR family compare
GFF5412 -1.0 -4.8 no description compare
GFF6695 -1.0 -6.4 Ubiquinol-cytochrome C reductase, cytochrome B subunit (EC 1.10.2.2) compare
GFF570 -1.0 -2.2 3,4-dihydroxy-2-butanone 4-phosphate synthase (EC 4.1.99.12) / GTP cyclohydrolase II (EC 3.5.4.25) compare
GFF5418 -1.0 -9.2 Type IV fimbrial biogenesis protein PilY1 compare
GFF7077 -1.0 -1.8 no description compare
GFF5321 -1.0 -6.8 Type IV pilus biogenesis protein PilO compare
GFF815 -1.0 -1.9 COGs COG3777 compare
GFF2128 -1.0 -5.4 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF4485 -1.0 -7.4 FIG00715336: hypothetical protein compare
GFF6990 -1.0 -1.2 hypothetical protein compare
GFF3660 -1.0 -6.1 integral membrane sensor signal transduction histidine kinase compare
GFF5416 -1.0 -7.2 Type IV fimbrial biogenesis protein PilW compare
GFF1246 -1.0 -2.8 FIG001341: Probable Fe(2+)-trafficking protein YggX compare
GFF2379 -1.0 -7.7 Serine/threonine protein kinase compare
GFF5386 -0.9 -1.6 hypothetical protein compare
GFF629 -0.9 -1.6 hypothetical protein compare
GFF5877 -0.9 -2.8 Probable proline rich signal peptide protein compare
GFF2519 -0.9 -6.9 FIG016425: Soluble lytic murein transglycosylase and related regulatory proteins (some contain LysM/invasin domains) compare
GFF7248 -0.9 -1.6 no description compare
GFF2151 -0.9 -5.1 twitching motility protein PilG compare
GFF7010 -0.9 -2.2 no description compare
GFF5876 -0.9 -4.8 Nitrogen regulation protein NtrY (EC 2.7.3.-) compare
GFF4950 -0.9 -2.0 ABC transporter, permease protein (cluster 2, ribose/xylose/arabinose/galactose) compare
GFF5419 -0.9 -7.3 Type IV pilus biogenesis protein PilE compare
GFF5815 -0.9 -1.6 Uncharacterized MFS-type transporter compare
GFF1686 -0.9 -1.8 Uncharacterized protein Bsu YraM compare
GFF4662 -0.9 -1.4 no description compare
GFF3068 -0.9 -5.5 FIG00538108: hypothetical protein compare
GFF4187 -0.9 -1.3 hypothetical protein compare
GFF5927 -0.9 -1.4 3-oxoacyl-[ACP] synthase compare
GFF3974 -0.9 -1.4 Oxidoreductase, short-chain dehydrogenase/reductase family compare
GFF1896 -0.9 -1.6 Two-component transcriptional response regulator, LuxR family compare
GFF5600 -0.9 -2.0 no description compare
GFF3406 -0.9 -5.4 Benzoyl-CoA oxygenase component A compare


Specific Phenotypes

None in this experiment

For Variovorax sp. SCN45 in vitamin experiments

For vitamin calcium pantothenate across organisms