Experiment set1S447 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 -5.6 -6.7 Trehalose-6-phosphate phosphatase (EC 3.1.3.12) compare
GFF6876 -4.3 -12.0 Aminotransferase, DegT/DnrJ/EryC1/StrS family compare
GFF6022 -4.3 -8.2 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) compare
GFF5076 -4.2 -15.0 hypothetical protein compare
GFF4626 -4.2 -8.0 dTDP-Rha:A-D-GlcNAc-diphosphoryl polyprenol, A-3-L-rhamnosyl transferase WbbL compare
GFF5267 -4.1 -2.8 Glucose-6-phosphate isomerase (EC 5.3.1.9) compare
GFF372 -4.1 -9.4 PMID: 11481431 compare
GFF6878 -4.0 -14.6 hypothetical protein compare
GFF2627 -3.9 -5.3 Chorismate synthase (EC 4.2.3.5) compare
GFF577 -3.8 -4.5 TolA protein compare
GFF944 -3.7 -3.6 Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
GFF6875 -3.6 -6.9 hypothetical protein compare
GFF4625 -3.6 -6.9 Undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.33) compare
GFF6512 -3.5 -2.4 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) @ 2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) compare
GFF5261 -3.4 -10.0 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49) compare
GFF244 -3.3 -5.5 Cys regulon transcriptional activator CysB compare
GFF255 -3.3 -3.2 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (EC 2.3.1.117) compare
GFF5896 -3.3 -8.5 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
GFF6182 -3.2 -4.4 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
GFF3890 -3.1 -4.6 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
GFF6042 -3.0 -4.1 Fatty acid desaturase (EC 1.14.19.1); Delta-9 fatty acid desaturase (EC 1.14.19.1) compare
GFF3838 -2.9 -16.4 Phosphoenolpyruvate carboxylase (EC 4.1.1.31) compare
GFF5512 -2.9 -2.8 N5-carboxyaminoimidazole ribonucleotide mutase (EC 5.4.99.18) compare
GFF2847 -2.9 -3.4 histone-like nucleoid-structuring protein H-NS compare
GFF302 -2.8 -1.9 Phosphoribosylamine--glycine ligase (EC 6.3.4.13) compare
GFF5307 -2.8 -6.1 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.241) compare
GFF968 -2.8 -3.3 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF4724 -2.8 -7.0 Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) compare
GFF3089 -2.7 -3.1 Amidophosphoribosyltransferase (EC 2.4.2.14) compare
GFF408 -2.6 -2.5 Two-component system response regulator OmpR compare
GFF3889 -2.6 -3.1 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
GFF5513 -2.6 -3.1 N5-carboxyaminoimidazole ribonucleotide synthase (EC 6.3.4.18) compare
GFF966 -2.6 -8.9 Probable two-component transmembrane sensor histidine kinase transcription regulator protein (EC 2.7.3.-) compare
GFF5118 -2.5 -3.9 gluconolactonase family protein compare
GFF3600 -2.5 -1.7 Pantothenate kinase type III, CoaX-like (EC 2.7.1.33) compare
GFF1324 -2.5 -2.4 Phosphoribosylformylglycinamidine synthase, synthetase subunit (EC 6.3.5.3) / Phosphoribosylformylglycinamidine synthase, glutamine amidotransferase subunit (EC 6.3.5.3) compare
GFF5324 -2.5 -2.9 Shikimate kinase I (EC 2.7.1.71) compare
GFF4352 -2.5 -2.8 Long-chain-fatty-acid--CoA ligase (EC 6.2.1.3) compare
GFF5509 -2.4 -2.8 Phosphoribosylaminoimidazole-succinocarboxamide synthase (EC 6.3.2.6) compare
GFF6700 -2.4 -4.2 Single-stranded-DNA-specific exonuclease RecJ compare
GFF3928 -2.4 -2.7 Histone acetyltransferase HPA2 and related acetyltransferases compare
GFF5666 -2.4 -4.7 Prevent host death protein, Phd antitoxin compare
GFF5325 -2.4 -2.7 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF3264 -2.3 -6.0 Methionine biosynthesis protein MetW compare
GFF6694 -2.3 -3.8 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
GFF6513 -2.3 -6.9 Phosphogluconate dehydratase (EC 4.2.1.12) compare
GFF2090 -2.3 -4.3 Holliday junction ATP-dependent DNA helicase RuvB (EC 3.6.4.12) compare
GFF239 -2.3 -2.8 DNA polymerase III chi subunit (EC 2.7.7.7) compare
GFF5523 -2.2 -1.5 Orotidine 5'-phosphate decarboxylase (EC 4.1.1.23) compare
GFF5065 -2.2 -1.5 Orotate phosphoribosyltransferase (EC 2.4.2.10) compare
GFF967 -2.2 -14.3 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) compare
GFF2804 -2.2 -3.8 Membrane protein compare
GFF3941 -2.1 -2.5 Phosphoribosylformylglycinamidine cyclo-ligase (EC 6.3.3.1) compare
GFF2659 -2.1 -2.8 Electron transfer flavoprotein, alpha subunit compare
GFF3888 -2.1 -6.5 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
GFF7178 -2.0 -2.2 Glucose-1-phosphate thymidylyltransferase (EC 2.7.7.24) compare
GFF5813 -2.0 -2.5 Heavy metal sensor histidine kinase compare
GFF2973 -2.0 -1.7 Transcriptional regulator compare
GFF946 -1.9 -4.5 Iron-sulfur cluster regulator IscR compare
GFF168 -1.9 -6.5 MCP methyltransferase, CheR-type compare
GFF2273 -1.8 -4.8 Transcriptional regulator, AcrR family compare
GFF3401 -1.8 -1.3 P-hydroxylaminobenzoate lyase compare
GFF6168 -1.7 -1.7 Na(+) H(+) antiporter subunit G compare
GFF2515 -1.7 -2.8 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
GFF409 -1.6 -5.1 Osmolarity sensory histidine kinase EnvZ compare
GFF4954 -1.6 -1.6 no description compare
GFF3265 -1.6 -2.2 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
GFF1013 -1.6 -2.2 hypothetical protein compare
GFF269 -1.4 -4.5 2-methylaconitate isomerase compare
GFF5927 -1.4 -1.7 3-oxoacyl-[ACP] synthase compare
GFF1206 -1.4 -6.5 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
GFF2575 -1.4 -9.5 Quinolinate synthetase (EC 2.5.1.72) compare
GFF7380 -1.4 -7.2 3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) compare
GFF6250 -1.4 -7.8 Glutamate--cysteine ligase-like protein YbdK compare
GFF5727 -1.4 -1.4 Methyl-accepting chemotaxis sensor/transducer protein compare
GFF624 -1.4 -1.9 hypothetical protein compare
GFF4462 -1.4 -1.9 Crossover junction endodeoxyribonuclease RuvC (EC 3.1.22.4) compare
GFF3584 -1.4 -1.6 hypothetical protein compare
GFF2574 -1.4 -5.6 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
GFF339 -1.4 -3.2 Exodeoxyribonuclease I (EC 3.1.11.1) compare
GFF4748 -1.4 -1.7 Triosephosphate isomerase (EC 5.3.1.1) compare
GFF5491 -1.4 -4.8 Peptide deformylase (EC 3.5.1.88) compare
GFF5412 -1.4 -7.2 no description compare
GFF6290 -1.3 -10.8 RNA polymerase sigma-54 factor RpoN compare
GFF576 -1.3 -2.8 Tol biopolymer transport system, TolR protein compare
GFF3715 -1.3 -2.6 Probable malonic semialdehyde reductase RutE (EC 1.1.1.298) compare
GFF5246 -1.3 -7.1 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
GFF7393 -1.3 -2.5 Mobile element protein compare
GFF2307 -1.3 -6.3 Heme O synthase, protoheme IX farnesyltransferase, COX10-CtaB compare
GFF2300 -1.3 -6.2 Cytochrome oxidase biogenesis protein Cox11-CtaG, copper delivery to Cox1 compare
GFF5057 -1.3 -10.2 Peptidoglycan D,D-transpeptidase MrdA (EC 3.4.16.4) compare
GFF6246 -1.3 -4.4 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF5156 -1.3 -10.5 Alpha,alpha-trehalose-phosphate synthase [UDP-forming] (EC 2.4.1.15) compare
GFF243 -1.3 -3.7 Sirohydrochlorin cobaltochelatase CbiX(small) (EC 4.99.1.3) compare
GFF3369 -1.3 -1.8 1,4-dihydroxy-2-naphthoyl-CoA hydrolase (EC 3.1.2.28) in menaquinone biosynthesis compare
GFF2236 -1.3 -1.2 hypothetical protein compare
GFF291 -1.3 -6.9 Tol-Pal system peptidoglycan-associated lipoprotein PAL compare
GFF6989 -1.2 -1.7 Flagellar basal-body rod modification protein FlgD compare
GFF5317 -1.2 -1.4 Frataxin homolog CyaY, facilitates Fe-S cluster assembly, interacts with IscS compare
GFF2306 -1.2 -6.6 Heme A synthase, cytochrome oxidase biogenesis protein Cox15-CtaA compare
GFF2730 -1.2 -2.8 DNA topoisomerase IV subunit A (EC 5.99.1.3) compare
GFF4319 -1.2 -2.2 Oxidoreductase, short-chain dehydrogenase/reductase family compare
GFF2073 -1.2 -3.6 Holliday junction ATP-dependent DNA helicase RuvA (EC 3.6.4.12) compare
GFF5424 -1.2 -1.2 Membrane protein TerC, possibly involved in tellurium resistance compare
GFF6249 -1.2 -6.0 Transporter, monovalent cation:proton antiporter-2 (CPA2) family compare
GFF2128 -1.2 -5.8 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF1594 -1.2 -2.9 Antitoxin DinJ (binds YafQ toxin) compare
GFF7295 -1.2 -4.4 HPr kinase/phosphorylase compare
GFF7264 -1.2 -1.9 Gluconolactonase (EC 3.1.1.17) compare
GFF2688 -1.2 -1.1 Glutamine ABC transporter, substrate-binding protein GlnH compare
GFF270 -1.2 -8.5 2-methylcitrate dehydratase (2-methyl-trans-aconitate forming) (EC 4.2.1.117) compare
GFF2987 -1.2 -4.2 CBS domain protein compare
GFF3438 -1.2 -1.7 Amidohydrolase family protein compare
GFF5414 -1.1 -7.3 hypothetical protein compare
GFF5627 -1.1 -5.4 [4Fe-4S] cluster assembly scaffold protein Mrp (=ApbC) compare
GFF5266 -1.1 -6.8 Transaldolase (EC 2.2.1.2) compare
GFF292 -1.1 -8.5 Tol-Pal system beta propeller repeat protein TolB compare
GFF1060 -1.1 -2.0 Hydroxymethylpyrimidine ABC transporter, transmembrane component compare
GFF4530 -1.1 -6.6 MBL-fold metallo-hydrolase superfamily compare
GFF3723 -1.1 -6.2 Cytochrome c5 compare
GFF1661 -1.1 -1.7 no description compare
GFF2508 -1.1 -8.1 Leader peptidase (Prepilin peptidase) (EC 3.4.23.43) / N-methyltransferase (EC 2.1.1.-) compare
GFF4298 -1.1 -1.3 2-hydroxycyclohexanecarboxyl-CoA dehydrogenase compare
GFF5320 -1.1 -6.7 Type IV pilus biogenesis protein PilN compare
GFF272 -1.1 -1.7 thioesterase superfamily protein compare
GFF6695 -1.1 -6.7 Ubiquinol-cytochrome C reductase, cytochrome B subunit (EC 1.10.2.2) compare
GFF127 -1.0 -1.5 Orotate phosphoribosyltransferase (EC 2.4.2.10) compare
GFF1113 -1.0 -1.2 ABC transporter, ATP-binding protein (cluster 1, maltose/g3p/polyamine/iron); ABC transporter, ATP-binding protein (cluster 10, nitrate/sulfonate/bicarbonate) compare
GFF3448 -1.0 -2.7 Oxidoreductase, short-chain dehydrogenase/reductase family compare
GFF5415 -1.0 -5.1 Type IV fimbrial biogenesis protein PilV compare
GFF6713 -1.0 -1.9 ABC transporter, ATP-binding protein (cluster 5, nickel/peptides/opines) compare
GFF1658 -1.0 -1.5 Transcriptional regulator, LysR family compare
GFF273 -1.0 -5.5 Transcriptional regulator, Xre family compare
GFF2304 -1.0 -6.9 Cytochrome oxidase biogenesis protein Surf1, facilitates heme A insertion compare
GFF784 -1.0 -1.2 KEGG: RNA polymerase sigma-70 factor, ECF subfamily compare
GFF821 -1.0 -1.9 Acetoacetyl-CoA reductase (EC 1.1.1.36) compare
GFF6378 -1.0 -1.3 Nicotinamidase (EC 3.5.1.19) compare
GFF1896 -1.0 -1.8 Two-component transcriptional response regulator, LuxR family compare
GFF1072 -1.0 -1.2 no description compare
GFF2298 -1.0 -8.7 Cytochrome c oxidase polypeptide I (EC 1.9.3.1) compare
GFF1756 -1.0 -1.3 hypothetical protein compare
GFF1789 -1.0 -2.2 Hydroxymethylpyrimidine ABC transporter, transmembrane component compare
GFF6696 -1.0 -6.2 Ubiquinol-cytochrome C reductase, cytochrome C1 subunit compare
GFF5323 -1.0 -7.3 Type IV pilus biogenesis protein PilQ compare
GFF3146 -1.0 -1.5 no description compare
GFF3158 -1.0 -1.1 Sulfite dehydrogenase (quinone), iron-sulfur subunit SoeB (EC 1.8.5.6) compare
GFF2056 -1.0 -2.7 Septum-associated rare lipoprotein A compare
GFF1529 -1.0 -1.3 Transcriptional regulator, AcrR family compare
GFF2432 -1.0 -1.4 Fe2+-dicitrate sensor, membrane component compare
GFF2819 -1.0 -2.1 Phosphoenolpyruvate synthase regulatory protein compare
GFF497 -1.0 -4.6 Phytoene synthase (EC 2.5.1.32) compare
GFF3835 -1.0 -1.9 ADP-ribosylglycohydrolase family protein compare
GFF5322 -1.0 -5.9 Type IV pilus biogenesis protein PilP compare
GFF5075 -1.0 -1.6 Two-component system sensor histidine kinase Dtpsy_0212 compare
GFF305 -1.0 -6.1 uncharacterized domain / RidA/YER057c/UK114 superfamily, group 5 compare
GFF2429 -1.0 -2.0 putative membrane protein compare
GFF6003 -0.9 -1.8 no description compare
GFF6087 -0.9 -4.3 Transcriptional regulator, AcrR family compare
GFF2297 -0.9 -6.6 Cytochrome c oxidase polypeptide II (EC 1.9.3.1) compare
GFF5416 -0.9 -6.7 Type IV fimbrial biogenesis protein PilW compare
GFF6293 -0.9 -3.1 Periplasmic thiol:disulfide interchange protein DsbA compare
GFF2510 -0.9 -7.4 Type IV fimbrial assembly, ATPase PilB compare
GFF5319 -0.9 -7.6 Type IV pilus biogenesis protein PilM compare
GFF2151 -0.9 -5.9 twitching motility protein PilG compare
GFF6122 -0.9 -2.3 ABC-type antimicrobial peptide transport system, permease component compare
GFF2734 -0.9 -4.3 DNA topoisomerase IV subunit B (EC 5.99.1.3) compare
GFF7242 -0.9 -1.3 hypothetical protein compare
GFF4432 -0.9 -6.1 Two-component system response regulator protein compare
GFF1105 -0.9 -1.9 Helicase compare
GFF6857 -0.9 -1.1 hypothetical protein compare
GFF5097 -0.9 -1.4 5-carboxymethyl-2-hydroxymuconate delta-isomerase (EC 5.3.3.10) compare
GFF2509 -0.9 -7.6 Type IV fimbrial assembly protein PilC compare
GFF1355 -0.9 -1.8 Transcriptional regulator, LysR family compare
GFF4142 -0.9 -2.0 no description compare
GFF3481 -0.9 -1.5 ABC transporter, ATP-binding protein 1 (cluster 4, leucine/isoleucine/valine/benzoate) compare
GFF4482 -0.9 -1.4 Transcriptional regulator MraZ compare
GFF7294 -0.9 -1.8 PTS IIA-like nitrogen-regulatory protein PtsN compare
GFF1028 -0.9 -2.6 FIG027190: Putative transmembrane protein compare
GFF7010 -0.9 -1.6 no description compare
GFF5418 -0.9 -8.2 Type IV fimbrial biogenesis protein PilY1 compare
GFF4333 -0.9 -2.6 Transcriptional regulator, LysR family compare
GFF2164 -0.9 -3.8 Transcriptional regulator, IclR family compare
GFF993 -0.9 -6.2 Type IV pilus biogenesis protein PilF compare
GFF5688 -0.9 -1.7 Transcriptional regulator, LysR family compare
GFF3406 -0.9 -6.1 Benzoyl-CoA oxygenase component A compare
GFF4107 -0.9 -1.3 ABC transporter, permease protein (cluster 3, basic aa/glutamine/opines) compare
GFF2027 -0.9 -5.3 2-hydroxychromene-2-carboxylate isomerase family protein compare
GFF6373 -0.9 -1.5 T6SS component TssA (ImpA) compare
GFF6591 -0.9 -3.7 Transcriptional regulator, GntR family compare
GFF5321 -0.9 -6.3 Type IV pilus biogenesis protein PilO compare
GFF1670 -0.9 -1.8 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
GFF1835 -0.8 -1.7 Indolepyruvate oxidoreductase subunit IorB II (EC 1.2.7.8) compare
GFF3825 -0.8 -2.8 Autolysin sensor kinase (EC 2.7.3.-) compare
GFF5490 -0.8 -7.1 Uncharacterized protein with LysM domain, COG1652 compare
GFF4447 -0.8 -3.7 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphat e synthase I alpha (EC 2.5.1.54) compare
GFF4788 -0.8 -1.8 Uncharacterized protein COG3236 compare
GFF6107 -0.8 -2.3 Zinc transporter, ZIP family compare
GFF2562 -0.8 -0.8 UPF0391 membrane protein RGE_28580 compare
GFF5706 -0.8 -1.9 no description compare
GFF3511 -0.8 -2.8 no description compare


Specific Phenotypes

None in this experiment

For Variovorax sp. SCN45 in vitamin experiments

For vitamin calcium pantothenate across organisms