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Authors: Pallavi Subhraveti Ron Caspi Peter Midford Peter D Karp An online version of this diagram is available at BioCyc.org. Biosynthetic pathways are positioned in the left of the cytoplasm, degradative pathways on the right, and reactions not assigned to any pathway are in the far right of the cytoplasm. Transporters and membrane proteins are shown on the membrane. Ingrid Keseler Periplasmic (where appropriate) and extracellular reactions and proteins may also be shown. Pathways are colored according to their cellular function. Gcf_000231405Cyc: Desulfitobacterium metallireducens 853-15A Cellular Overview Connections between pathways are omitted for legibility. Anamika Kothari phosphate putrescine 4-amino-2-methyl-5- (S)-malate phosphate phosphate phosphate phosphate a dipeptide a dipeptide spermidine pyrimidinemethanol predicted ABC RS14745 RS03040 RS00670 RS06610 RS06485 RS14455 RS14410 RS14350 RS06030 RS11545 RS14185 RS08755 RS08725 RS04915 RS05570 RS13970 RS05330 RS05150 RS15325 RS13650 RS11205 RS13540 RS11155 RS04445 RS09360 RS08300 RS11000 RS15430 RS08165 RS12910 RS03205 RS02960 RS02720 RS02545 RS02410 RS12595 RS01965 RS07695 RS07605 RS01030 RS00905 RS12490 RS00555 RS00355 RS00180 RS07075 RS12130 RS12085 RS15225 RS09235 RS12040 RS15170 RS15215 RS15230 RS12120 RS10165 RS07090 RS00210 RS00485 RS07335 RS00885 RS12550 RS01195 RS01630 RS01850 RS07785 RS07815 RS07890 RS12700 lipase RS12815 RS03360 RS08130 RS08185 RS13065 RS11030 RS04175 RS13355 RS13450 RS13530 RS04680 RS04780 RS13675 RS08575 RS13855 RS05375 RS14010 RS12985 RS02470 RS06795 RS11975 RS08820 RS14375 RS14430 RS06395 RS14585 RS06645 RS09970 RS13520 RS06155 RS09025 RS15630 RS12025 RS10100 RS15135 RS10095 RS15080 RS11995 RS15070 RS06895 RS10075 RS10070 RS06875 RS06870 RS06865 RS06860 RS10060 RS10055 RS11920 RS06825 RS09115 RS14915 RS11900 RS09105 RS06800 RS09100 RS06790 RS14870 RS09085 RS10020 RS10015 RS09055 transporter RS10005 of phosphate RS09035 putrescine 4-amino-2-methyl-5- phosphate (S)-malate a dipeptide a dipeptide spermidine pyrimidinemethanol phosphate phosphate phosphate RS06745 phosphate RS10000 RS09020 RS09995 RS12240 RS06705 RS14740 RS12285 RS08995 RS14685 RS12310 RS06620 RS08980 RS14605 RS08965 RS06500 RS08945 RS14515 RS06465 RS06350 RS14470 RS08880 RS06345 RS14420 RS11650 RS14390 RS14415 RS06170 RS09825 RS06105 Cofactor, Prosthetic Group, Electron Carrier, and Vitamin Biosynthesis RS14360 3-oxo-2-(cis- a SpoIVB 1402 a double D-ribulose-1,5- 2'-pentenyl)- a cytidine a (3R,7Z)-3- an L-glutamyl- a supercoiled peptidase 4-hydroxybutanoyl- stranded DNA cob(II)yrinate a,c- bisphosphate cyclopentane-1- a type IV prepilin β-aspartyl dipeptide in 16S rRNA hydroxy-hexadec- biotin ATP [tRNA Gln ] duplex DNA Precursor superpathway of geranylgeranyl flavin biosynthesis I (bacteria and plants) superpathway of menaquinol-7 biosynthesis [2Fe-2S] iron-sulfur cluster biosynthesis NAD de novo biosynthesis pyridoxal 5'-phosphate biosynthesis I adenosylcobalamin 5-hydroxybenzimidazolyl hypoxanthine PRPP a carboxy- CoA biotin RS00420 biotin diamide biosynthesis I superpathway of tetrahydrofolate biosynthesis Metabolic Regulator (6Z,9Z,12Z,15Z,18Z)-3- a (4Z)-hexadec- (3-oxooctanoyl) 7-enoyl-[acp] RS14300 diphosphate biosynthesis II (via MEP) I (from aspartate) salvage from cobalamin adenosylcobamide biosynthesis Biosynthesis Secondary Metabolite a malonyl-[acp] cys adenylated-[ThiS Asp-tRNA(Asn) (early cobalt insertion) D-erythrose from adenosylcobinamide-GDP Macromolecule Modification a palmitoyl-[acp] a malonyl-[acp] oxotetracosapentaenoyl-CoA 4-enoyl-[acp] -CoA 16S rRNA D-glyceraldehyde chorismate L-cysteine Biosynthesis 3-oxoacyl-[acyl- ribulose- sulfur-carrier protein] /Glu-tRNA(Gln) uroporphyrinogen-III pyruvate GTP 4-phosphate cob(I)alamin ppGpp biosynthesis 3-oxoacyl-[acyl- acetyl-CoA C- (cytosine(1402)-N(4) type III restriction helicase: SpoIVB peptidase: RS06090 3-phosphate desulfurase asp 5-hydroxybenzimidazole NaMN carrier-protein] bisphosphate beta-aspartyl- 3-hydroxyacyl-[acyl- biotin--[acetyl-CoA- amidotransferase: GTP preQ biosynthesis tRNA processing Fatty Acid and Lipid Degradation carrier-protein] acetyl-CoA C- acyltransferase: prepilin peptidase: )-methyltransferase 4-hydroxybutyryl- protein res subunit: DESME_RS05865 DESME_RS09790 0 queuosine biosynthesis lipoprotein posttranslational Glycolysis an N 6 -L- reductase: carboxylase: peptidase: carrier-protein] carboxylase] ligase: DESME_RS04475 RS05930 bifunctional reductase: acyltransferase: cysteine DESME_RS08670 DESME_RS10065 RsmH: CoA dehydratase: DESME_RS01000 [+ 3 isozymes] pppGpp modification threonylcarbamoyladenine 37 a sulfurated [sulfur carrier] DESME_RS11275 DESME_RS06430 desulfurase: DESME_RS06355 dehydratase FabZ: DESME_RS00415 gatA 3,4-dihydroxy- a polycistronic fatty acid β-oxidation I DESME_RS11275 DESME_RS14040 [+ 2 isozymes] DESME_RS11855 DESME_RS04190 DESME_RS04485 2-butanone- isochorismate tRNA precursor preQ a [prolipoprotein]- glycolysis III (from glucose) in tRNA beta-ketoacyl-[acyl- DESME_RS04500 DESME_RS14775 GTP 0 beta-ketoacyl-[acyl- [+ 2 isozymes] RS06050 cysteine L-aspartate oxidase: L-cysteine glycolysis I (from glucose 6-phosphate) carrier-protein] a double uroporphyrinogen-III 4-phosphate synthase: GTP cyclohydrolase cob(II)alamin a (3Z)-alk-3- carrier-protein] hypoxanthine a single a SpoIVB synthase/GTP DESME_RS12875 desulfurase: DESME_RS02585 NADPH-dependent phosphoribosyltransferase: synthase II: a (2E,7Z)- stranded DNA an L-glutaminyl- peptidase RS14195 C-methyltransferase: I FolE: D-glucopyranose enoyl-CoA synthase II: an N 4 - crotonyl-CoA biotinyl-5'- Gln stranded DNA cyclohydrolase II: DESME_RS04500 nicotinate-nucleotide-- 7-cyano-7- D-glucopyranose DESME_RS04150 DESME_RS11260 a proteinogenic hexadeca-2,7- with 5'-terminal [tRNA ] DESME_RS08860 DESME_RS06330 4-phospho- bifunctional (p)ppGpp DESME_RS11260 a thiocarboxy- asp methylcytidine 1402 adenylate DESME_RS06970 dimethylbenzimidazole GTP cyclohydrolase deazaguanine 6-phosphate a (6Z)-3- AMP ala 3-oxo-2-(cis- a cleaved type amino acid dienoyl-[acp] phosphate D-erythronate cob(I)alamin phosphoribosyltransferase: synthetase/guanosine- acyl-carrier protein oxooctadec- [ThiS-Protein] 2'-pentenyl)- a peptide in 16S rRNA RS11565 1-deoxy-D-xylulose- guanosine 3'- I FolE: reductase QueF: (4Z,7Z,10Z,13Z,16Z)- acetyl-CoA IV prepilin adenosyltransferase: DESME_RS08330 3',5'-bis(diphosphate) 3'- prolipoprotein tRNA (N(6)-L- acetyl-CoA 6-enoyl-[acp] 3-phospho- cyclopentane-1- 5-phosphate diphosphate 5'- DESME_RS06330 DESME_RS07435 docosapentaenoyl-CoA 2-phosphoglycolate RS14165 precorrin-1 2,5-diamino-6- DESME_RS03740 pyrophosphohydrolase: diacylglyceryl threonylcarbamoyladenosine(37) a 3-oxooctadecanoyl- D-glycerate hexanoyl-CoA synthase: an S-sulfanyl- triphosphate 3'- acyl-carrier protein IMP (5-phospho-D- isochorismate2-succinyl-6- DESME_RS10330 [+ 2 isozymes] transferase: glucose-6- -C(2))- methylthiotransferase [acp] DESME_RS09820 [L-cysteine cob(I)yrinic acid ∆ 3 2 ribosylamino) hydroxy-2, 4- diphosphatase: a tRNA precursor DESME_RS06270 glucokinase: -cis-∆ -trans-enoyl- MtaB: DESME_RS12625 desulfurase] 2-iminosuccinate a,c-diamide a tRNA precursor phosphate RS14205 pyrimidin- cyclohexadiene- 5-hydroxybenzimidazole DESME_RS10330 with a 5' preQ DESME_RS06550 CoA isomerase: 7,8- adenosyltransferase: with a 5' 1 isomerase: 4(3H)-one 1-carboxylate ribotide phosphate extension and DESME_RS14045 RS15490 dihydroneopterin DESME_RS06200 extension and a pgi synthase: a long 3' trailer uroporphyrinogen-III 1-deoxy-D- 3'-triphosphate short 3' extension glucose-6- DESME_RS12865 7,8- a [prolipoprotein]- C-methyltransferase: xylulose 5- dihydroneopterin phosphate RS14170 DESME_RS08860 phosphate tRNA-guanine S-1,2-diacyl-sn- 2-succinyl-5- (3R)-3-hydroxy-2-oxo- 3'-triphosphate transglycosylase: isomerase: RS05625 an S-sulfanyl- quinolinate GTP ppGpp glyceryl-L-cysteine D-glucopyranose enolpyruvyl- 4 phosphooxybutanoate cob(II)alamin- DESME_RS10390 DESME_RS13660 6-hydroxy-3- [cysteine synthase NadA: 6-phosphate desulfurase]- DESME_RS02595 [corrinoid adenosylcobinamide- ribonuclease P a trans-2- cyclohexene- F6P RS05700 [disordered- adenosyltranferase] GDP protein component: enoyl-CoA 1-deoxy-D-xylulose- 2-succinyl-5-1-carboxylic- DESME_RS15275 form scaffold ribazoletransferase: a 2-methylsulfanyl-N 6 -L- RS11465 5-phosphate enolpyruvoyl-acid synthase: an unsulfurated precorrin-2 thiamine diphosphate ribonuclease PH: glucose-6- 37 reductoisomerase: 6-hydroxy-3-DESME_RS12870 protein] complex DESME_RS08340 nucleoside- met 5'-deoxyadenosine threonylcarbamoyladenine bifunctional 7,8- biosynthesis I (E.
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  • (12) United States Patent (10) Patent No.: US 9,689,046 B2 Mayall Et Al

    (12) United States Patent (10) Patent No.: US 9,689,046 B2 Mayall Et Al

    USOO9689046B2 (12) United States Patent (10) Patent No.: US 9,689,046 B2 Mayall et al. (45) Date of Patent: Jun. 27, 2017 (54) SYSTEM AND METHODS FOR THE FOREIGN PATENT DOCUMENTS DETECTION OF MULTIPLE CHEMICAL WO O125472 A1 4/2001 COMPOUNDS WO O169245 A2 9, 2001 (71) Applicants: Robert Matthew Mayall, Calgary (CA); Emily Candice Hicks, Calgary OTHER PUBLICATIONS (CA); Margaret Mary-Flora Bebeselea, A. et al., “Electrochemical Degradation and Determina Renaud-Young, Calgary (CA); David tion of 4-Nitrophenol Using Multiple Pulsed Amperometry at Christopher Lloyd, Calgary (CA); Lisa Graphite Based Electrodes', Chem. Bull. “Politehnica” Univ. Kara Oberding, Calgary (CA); Iain (Timisoara), vol. 53(67), 1-2, 2008. Fraser Scotney George, Calgary (CA) Ben-Yoav. H. et al., “A whole cell electrochemical biosensor for water genotoxicity bio-detection”. Electrochimica Acta, 2009, 54(25), 6113-6118. (72) Inventors: Robert Matthew Mayall, Calgary Biran, I. et al., “On-line monitoring of gene expression'. Microbi (CA); Emily Candice Hicks, Calgary ology (Reading, England), 1999, 145 (Pt 8), 2129-2133. (CA); Margaret Mary-Flora Da Silva, P.S. et al., “Electrochemical Behavior of Hydroquinone Renaud-Young, Calgary (CA); David and Catechol at a Silsesquioxane-Modified Carbon Paste Elec trode'. J. Braz. Chem. Soc., vol. 24, No. 4, 695-699, 2013. Christopher Lloyd, Calgary (CA); Lisa Enache, T. A. & Oliveira-Brett, A. M., "Phenol and Para-Substituted Kara Oberding, Calgary (CA); Iain Phenols Electrochemical Oxidation Pathways”, Journal of Fraser Scotney George, Calgary (CA) Electroanalytical Chemistry, 2011, 1-35. Etesami, M. et al., “Electrooxidation of hydroquinone on simply prepared Au-Pt bimetallic nanoparticles'. Science China, Chem (73) Assignee: FREDSENSE TECHNOLOGIES istry, vol.