Experiment set1S446 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  
GFF5158 -4.9 -7.4 Trehalose-6-phosphate phosphatase (EC 3.1.3.12) compare
GFF6022 -4.5 -7.4 UTP--glucose-1-phosphate uridylyltransferase (EC 2.7.7.9) compare
GFF372 -4.3 -8.7 PMID: 11481431 compare
GFF5076 -4.2 -15.0 hypothetical protein compare
GFF5324 -4.1 -2.8 Shikimate kinase I (EC 2.7.1.71) compare
GFF6878 -4.1 -14.4 hypothetical protein compare
GFF2847 -3.9 -3.8 histone-like nucleoid-structuring protein H-NS compare
GFF6876 -3.9 -14.1 Aminotransferase, DegT/DnrJ/EryC1/StrS family compare
GFF4626 -3.8 -6.9 dTDP-Rha:A-D-GlcNAc-diphosphoryl polyprenol, A-3-L-rhamnosyl transferase WbbL compare
GFF3838 -3.8 -16.9 Phosphoenolpyruvate carboxylase (EC 4.1.1.31) compare
GFF244 -3.7 -5.1 Cys regulon transcriptional activator CysB compare
GFF3889 -3.7 -2.5 3-isopropylmalate dehydratase small subunit (EC 4.2.1.33) compare
GFF6875 -3.7 -6.1 hypothetical protein compare
GFF408 -3.6 -2.5 Two-component system response regulator OmpR compare
GFF2627 -3.6 -4.9 Chorismate synthase (EC 4.2.3.5) compare
GFF5307 -3.5 -4.2 Lipid A biosynthesis lauroyl acyltransferase (EC 2.3.1.241) compare
GFF5261 -3.4 -9.6 Glucose-6-phosphate 1-dehydrogenase (EC 1.1.1.49) compare
GFF5896 -3.4 -8.4 Anthranilate synthase, aminase component (EC 4.1.3.27) compare
GFF3890 -3.3 -4.5 3-isopropylmalate dehydratase large subunit (EC 4.2.1.33) compare
GFF3888 -3.2 -4.9 3-isopropylmalate dehydrogenase (EC 1.1.1.85) compare
GFF6182 -3.2 -4.4 Chorismate mutase I (EC 5.4.99.5) / Prephenate dehydratase (EC 4.2.1.51) compare
GFF944 -3.2 -3.7 Aromatic-amino-acid aminotransferase (EC 2.6.1.57) compare
GFF5118 -3.2 -4.3 gluconolactonase family protein compare
GFF4625 -3.2 -7.3 Undecaprenyl-phosphate alpha-N-acetylglucosaminyl 1-phosphate transferase (EC 2.7.8.33) compare
GFF6513 -3.2 -7.8 Phosphogluconate dehydratase (EC 4.2.1.12) compare
GFF2329 -3.2 -3.0 Phosphoglycerate mutase (EC 5.4.2.11) compare
GFF255 -3.1 -3.6 2,3,4,5-tetrahydropyridine-2,6-dicarboxylate N-succinyltransferase (EC 2.3.1.117) compare
GFF966 -3.1 -8.3 Probable two-component transmembrane sensor histidine kinase transcription regulator protein (EC 2.7.3.-) compare
GFF7345 -3.0 -2.4 Periplasmic aromatic aldehyde oxidoreductase, iron-sulfur subunit YagT compare
GFF1205 -3.0 -5.0 Oxidoreductase probably involved in sulfite reduction compare
GFF2481 -2.9 -1.8 Urease accessory protein UreF compare
GFF3265 -2.9 -3.4 Homoserine O-acetyltransferase (EC 2.3.1.31) compare
GFF5513 -2.9 -2.8 N5-carboxyaminoimidazole ribonucleotide synthase (EC 6.3.4.18) compare
GFF302 -2.9 -2.0 Phosphoribosylamine--glycine ligase (EC 6.3.4.13) compare
GFF5512 -2.8 -2.7 N5-carboxyaminoimidazole ribonucleotide mutase (EC 5.4.99.18) compare
GFF6042 -2.8 -4.5 Fatty acid desaturase (EC 1.14.19.1); Delta-9 fatty acid desaturase (EC 1.14.19.1) compare
GFF4724 -2.8 -6.0 Uroporphyrinogen-III methyltransferase (EC 2.1.1.107) compare
GFF339 -2.7 -5.1 Exodeoxyribonuclease I (EC 3.1.11.1) compare
GFF5325 -2.7 -2.6 3-dehydroquinate synthase (EC 4.2.3.4) compare
GFF3089 -2.6 -3.1 Amidophosphoribosyltransferase (EC 2.4.2.14) compare
GFF5267 -2.6 -4.2 Glucose-6-phosphate isomerase (EC 5.3.1.9) compare
GFF3941 -2.5 -1.7 Phosphoribosylformylglycinamidine cyclo-ligase (EC 6.3.3.1) compare
GFF2515 -2.5 -3.3 Glutamate 5-kinase (EC 2.7.2.11) / RNA-binding C-terminal domain PUA compare
GFF6512 -2.5 -2.3 4-hydroxy-2-oxoglutarate aldolase (EC 4.1.3.16) @ 2-dehydro-3-deoxyphosphogluconate aldolase (EC 4.1.2.14) compare
GFF6986 -2.4 -1.6 hypothetical protein compare
GFF5666 -2.4 -4.5 Prevent host death protein, Phd antitoxin compare
GFF1105 -2.4 -3.6 Helicase compare
GFF3600 -2.4 -2.3 Pantothenate kinase type III, CoaX-like (EC 2.7.1.33) compare
GFF946 -2.3 -3.9 Iron-sulfur cluster regulator IscR compare
GFF1324 -2.3 -2.2 Phosphoribosylformylglycinamidine synthase, synthetase subunit (EC 6.3.5.3) / Phosphoribosylformylglycinamidine synthase, glutamine amidotransferase subunit (EC 6.3.5.3) compare
GFF967 -2.2 -14.2 Pyruvate dehydrogenase E1 component (EC 1.2.4.1) 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
GFF2139 -2.1 -2.2 Ribose ABC transporter, ATP-binding protein RbsA (TC 3.A.1.2.1) compare
GFF1984 -2.1 -2.9 Phospholipid and glycerol acyltransferase (EC 2.3.1.51) compare
GFF1756 -2.1 -2.0 hypothetical protein compare
GFF1206 -2.1 -8.0 Sulfite reductase [NADPH] hemoprotein beta-component (EC 1.8.1.2) compare
GFF5246 -2.1 -10.0 Threonine dehydratase biosynthetic (EC 4.3.1.19) compare
GFF3651 -2.1 -2.4 PTS system, IIA component compare
GFF3264 -2.1 -4.3 Methionine biosynthesis protein MetW compare
GFF243 -2.0 -4.5 Sirohydrochlorin cobaltochelatase CbiX(small) (EC 4.99.1.3) compare
GFF7295 -2.0 -6.0 HPr kinase/phosphorylase compare
GFF5509 -2.0 -3.3 Phosphoribosylaminoimidazole-succinocarboxamide synthase (EC 6.3.2.6) compare
GFF2804 -2.0 -3.9 Membrane protein compare
GFF239 -1.9 -2.0 DNA polymerase III chi subunit (EC 2.7.7.7) compare
GFF7380 -1.8 -8.5 3-hydroxyisobutyryl-CoA hydrolase (EC 3.1.2.4) compare
GFF2570 -1.8 -2.3 Rhodanese-related sulfurtransferase YibN compare
GFF2574 -1.8 -8.3 Quinolinate phosphoribosyltransferase [decarboxylating] (EC 2.4.2.19) compare
GFF598 -1.8 -2.5 no description compare
GFF4447 -1.7 -7.6 2-keto-3-deoxy-D-arabino-heptulosonate-7-phosphat e synthase I alpha (EC 2.5.1.54) compare
GFF2659 -1.7 -2.1 Electron transfer flavoprotein, alpha subunit compare
GFF168 -1.7 -5.5 MCP methyltransferase, CheR-type compare
GFF1594 -1.7 -4.9 Antitoxin DinJ (binds YafQ toxin) compare
GFF1106 -1.7 -3.1 UvrD/REP helicase compare
GFF577 -1.7 -3.3 TolA protein compare
GFF7255 -1.7 -2.2 BUG/TctC family periplasmic protein compare
GFF4462 -1.7 -2.3 Crossover junction endodeoxyribonuclease RuvC (EC 3.1.22.4) compare
GFF3928 -1.6 -2.4 Histone acetyltransferase HPA2 and related acetyltransferases compare
GFF2575 -1.6 -9.6 Quinolinate synthetase (EC 2.5.1.72) compare
GFF6246 -1.6 -5.2 Ribulose-phosphate 3-epimerase (EC 5.1.3.1) compare
GFF3177 -1.6 -1.8 hypothetical protein compare
GFF1742 -1.6 -1.4 hypothetical protein compare
GFF3402 -1.6 -4.7 no description compare
GFF5333 -1.5 -2.6 Glutamate synthase [NADPH] small chain (EC 1.4.1.13) compare
GFF291 -1.5 -6.6 Tol-Pal system peptidoglycan-associated lipoprotein PAL compare
GFF2073 -1.5 -4.8 Holliday junction ATP-dependent DNA helicase RuvA (EC 3.6.4.12) compare
GFF5919 -1.5 -1.1 KEGG: type VI secretion system secreted protein Hcp compare
GFF473 -1.5 -4.4 Cytochrome c551/c552 compare
GFF2128 -1.5 -6.9 Enoyl-CoA hydratase (EC 4.2.1.17) compare
GFF270 -1.5 -10.5 2-methylcitrate dehydratase (2-methyl-trans-aconitate forming) (EC 4.2.1.117) compare
GFF6250 -1.4 -7.5 Glutamate--cysteine ligase-like protein YbdK compare
GFF1204 -1.4 -5.5 Phosphoadenylyl-sulfate reductase [thioredoxin] (EC 1.8.4.8) compare
GFF5720 -1.4 -2.0 Flagellar basal-body rod protein FlgG compare
GFF6249 -1.4 -7.5 Transporter, monovalent cation:proton antiporter-2 (CPA2) family compare
GFF2300 -1.4 -7.4 Cytochrome oxidase biogenesis protein Cox11-CtaG, copper delivery to Cox1 compare
GFF5941 -1.3 -1.4 hypothetical protein compare
GFF1203 -1.3 -5.2 Sulfate adenylyltransferase subunit 2 (EC 2.7.7.4) compare
GFF6290 -1.3 -11.0 RNA polymerase sigma-54 factor RpoN compare
GFF5604 -1.3 -7.6 D-xylose ABC transporter, permease protein XylH compare
GFF5603 -1.3 -8.1 D-xylose ABC transporter, substrate-binding protein XylF compare
GFF3425 -1.3 -2.4 no description compare
GFF575 -1.3 -7.2 Tol-Pal system protein TolQ compare
GFF5057 -1.3 -10.2 Peptidoglycan D,D-transpeptidase MrdA (EC 3.4.16.4) compare
GFF821 -1.3 -2.2 Acetoacetyl-CoA reductase (EC 1.1.1.36) compare
GFF292 -1.3 -9.6 Tol-Pal system beta propeller repeat protein TolB compare
GFF5415 -1.3 -5.7 Type IV fimbrial biogenesis protein PilV compare
GFF5627 -1.3 -5.0 [4Fe-4S] cluster assembly scaffold protein Mrp (=ApbC) compare
GFF3826 -1.2 -7.3 Response regulator receiver:LytTr DNA-binding region compare
GFF6696 -1.2 -7.1 Ubiquinol-cytochrome C reductase, cytochrome C1 subunit compare
GFF2298 -1.2 -10.3 Cytochrome c oxidase polypeptide I (EC 1.9.3.1) compare
GFF5156 -1.2 -10.1 Alpha,alpha-trehalose-phosphate synthase [UDP-forming] (EC 2.4.1.15) compare
GFF5321 -1.2 -9.3 Type IV pilus biogenesis protein PilO compare
GFF6700 -1.2 -2.9 Single-stranded-DNA-specific exonuclease RecJ compare
GFF273 -1.2 -6.1 Transcriptional regulator, Xre family compare
GFF5323 -1.2 -9.0 Type IV pilus biogenesis protein PilQ compare
GFF56 -1.2 -2.9 hypothetical protein compare
GFF2508 -1.1 -9.0 Leader peptidase (Prepilin peptidase) (EC 3.4.23.43) / N-methyltransferase (EC 2.1.1.-) compare
GFF305 -1.1 -6.8 uncharacterized domain / RidA/YER057c/UK114 superfamily, group 5 compare
GFF1013 -1.1 -1.8 hypothetical protein compare
GFF5419 -1.1 -8.7 Type IV pilus biogenesis protein PilE compare
GFF409 -1.1 -4.3 Osmolarity sensory histidine kinase EnvZ compare
GFF5727 -1.1 -1.9 Methyl-accepting chemotaxis sensor/transducer protein compare
GFF6694 -1.1 -1.9 Ubiquinol-cytochrome C reductase iron-sulfur subunit (EC 1.10.2.2) compare
GFF6695 -1.1 -6.3 Ubiquinol-cytochrome C reductase, cytochrome B subunit (EC 1.10.2.2) compare
GFF7346 -1.1 -3.4 Periplasmic aromatic aldehyde oxidoreductase, FAD binding subunit YagS compare
GFF3723 -1.1 -7.0 Cytochrome c5 compare
GFF4839 -1.1 -2.3 Transcriptional regulator PA2737, MerR family compare
GFF2302 -1.1 -6.0 Cytochrome c oxidase polypeptide III (EC 1.9.3.1) compare
GFF2304 -1.1 -6.3 Cytochrome oxidase biogenesis protein Surf1, facilitates heme A insertion compare
GFF2307 -1.1 -5.8 Heme O synthase, protoheme IX farnesyltransferase, COX10-CtaB compare
GFF6012 -1.1 -1.1 Tricarboxylate transport protein TctC compare
GFF5490 -1.1 -8.7 Uncharacterized protein with LysM domain, COG1652 compare
GFF4432 -1.1 -7.3 Two-component system response regulator protein compare
GFF5153 -1.1 -5.3 Putative ROK-family transcriptional regulator compare
GFF7335 -1.1 -1.2 no description compare
GFF5320 -1.1 -6.5 Type IV pilus biogenesis protein PilN compare
GFF3254 -1.1 -8.1 Phosphotransferase involved in threonylcarbamoyladenosine t(6)A37 formation in tRNA compare
GFF5322 -1.1 -6.4 Type IV pilus biogenesis protein PilP compare
GFF5266 -1.0 -6.8 Transaldolase (EC 2.2.1.2) compare
GFF3068 -1.0 -5.1 FIG00538108: hypothetical protein compare
GFF5310 -1.0 -6.6 Cytochrome c4 compare
GFF5319 -1.0 -8.7 Type IV pilus biogenesis protein PilM compare
GFF6161 -1.0 -1.6 Hydroxymethylpyrimidine ABC transporter, ATPase component compare
GFF2297 -1.0 -7.8 Cytochrome c oxidase polypeptide II (EC 1.9.3.1) compare
GFF4456 -1.0 -3.9 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
GFF2509 -1.0 -8.8 Type IV fimbrial assembly protein PilC compare
GFF4485 -1.0 -8.0 FIG00715336: hypothetical protein compare
GFF7189 -1.0 -2.6 dioxygenase, TauD/TfdA family compare
GFF33 -1.0 -7.1 Type IV pilus biogenesis protein PilZ compare
GFF5417 -1.0 -7.1 hypothetical protein compare
GFF489 -1.0 -3.4 ATP-dependent Clp protease proteolytic subunit ClpP (EC 3.4.21.92) compare
GFF1202 -1.0 -4.4 Sulfate adenylyltransferase subunit 1 (EC 2.7.7.4) compare
GFF6036 -1.0 -4.5 DNA translocase FtsK compare
GFF2306 -1.0 -5.8 Heme A synthase, cytochrome oxidase biogenesis protein Cox15-CtaA compare
GFF2482 -1.0 -1.2 Urease accessory protein UreE compare
GFF1535 -1.0 -1.6 Shikimate 5-dehydrogenase I alpha (EC 1.1.1.25) compare
GFF290 -1.0 -5.7 Cell division coordinator CpoB compare
GFF968 -1.0 -2.1 Dihydrolipoamide acetyltransferase component of pyruvate dehydrogenase complex (EC 2.3.1.12) compare
GFF487 -1.0 -5.2 ATP-dependent protease La (EC 3.4.21.53) Type I compare
GFF2853 -1.0 -2.5 DNA-binding protein HU-beta compare
GFF576 -1.0 -2.3 Tol biopolymer transport system, TolR protein compare
GFF5424 -1.0 -1.1 Membrane protein TerC, possibly involved in tellurium resistance compare
GFF5416 -1.0 -7.3 Type IV fimbrial biogenesis protein PilW compare
GFF5412 -1.0 -5.3 no description compare
GFF993 -1.0 -7.4 Type IV pilus biogenesis protein PilF compare
GFF5414 -1.0 -5.7 hypothetical protein compare
GFF2510 -1.0 -7.5 Type IV fimbrial assembly, ATPase PilB compare
GFF5418 -1.0 -8.9 Type IV fimbrial biogenesis protein PilY1 compare
GFF5491 -1.0 -3.0 Peptide deformylase (EC 3.5.1.88) compare
GFF1740 -1.0 -2.0 Transcriptional regulator, LysR family compare
GFF2379 -0.9 -7.8 Serine/threonine protein kinase compare
GFF3377 -0.9 -0.7 Enoyl-CoA hydratase (EC 4.2.1.17) @ Enoyl-CoA hydratase EchA5 (EC 4.2.1.17) compare
GFF269 -0.9 -4.1 2-methylaconitate isomerase compare
GFF7178 -0.9 -1.7 Glucose-1-phosphate thymidylyltransferase (EC 2.7.7.24) compare
GFF2164 -0.9 -4.3 Transcriptional regulator, IclR family compare
GFF2573 -0.9 -5.3 Glycerol-3-phosphate dehydrogenase [NAD(P)+] (EC 1.1.1.94) compare
GFF4530 -0.9 -5.2 MBL-fold metallo-hydrolase superfamily compare
GFF2151 -0.9 -5.4 twitching motility protein PilG compare
GFF4346 -0.9 -1.3 no description compare
GFF6328 -0.9 -1.0 LPS-assembly lipoprotein LptE compare
GFF6885 -0.9 -1.2 hypothetical protein compare
GFF5605 -0.9 -2.3 D-xylose ABC transporter, ATP-binding protein XylG compare
GFF3969 -0.9 -1.8 Flavodoxin reductases (ferredoxin-NADPH reductases) family 1; Vanillate O-demethylase oxidoreductase (EC 1.14.13.-) compare
GFF2262 -0.9 -1.6 cAMP-binding proteins - catabolite gene activator and regulatory subunit of cAMP-dependent protein kinases compare
GFF773 -0.9 -1.4 hypothetical protein compare
GFF1782 -0.9 -3.3 integral membrane sensor signal transduction histidine kinase compare
GFF2894 -0.9 -1.9 Transcriptional regulator, GntR family compare
GFF2614 -0.9 -2.1 no description compare
GFF2192 -0.9 -1.7 FIG00932626: hypothetical protein compare
GFF1060 -0.9 -1.3 Hydroxymethylpyrimidine ABC transporter, transmembrane component compare
GFF1264 -0.9 -2.2 Transcriptional regulator, Xre family compare
GFF1778 -0.9 -2.1 Transcriptional regulator, HxlR family compare
GFF5876 -0.9 -4.8 Nitrogen regulation protein NtrY (EC 2.7.3.-) compare
GFF6075 -0.8 -5.5 Type II secretory pathway, ATPase PulE/Tfp pilus assembly pathway, ATPase PilB compare
GFF2027 -0.8 -4.8 2-hydroxychromene-2-carboxylate isomerase family protein compare
GFF3226 -0.8 -2.4 no description compare
GFF4790 -0.8 -3.7 Nudix-related transcriptional regulator NrtR compare
GFF2183 -0.8 -5.7 Outer membrane component of TAM transport system compare
GFF819 -0.8 -1.5 Uncharacterized protein CC_2099 compare
GFF5339 -0.8 -1.9 Phospholipid ABC transporter-binding protein MlaB compare


Specific Phenotypes

None in this experiment

For Variovorax sp. SCN45 in vitamin experiments

For vitamin calcium pantothenate across organisms