Pathways Knowlegdes

Necessitatibus eius consequatur ex aliquid fuga eum quidem sint consectetur velit

Pathway DOIs Note
esculetin modification

Accession ID: BioCyc:META_PWY-7058
  • 10.1002/cbic.200800515
  • 10.1016/j.biochi.2008.01.013
  • 10.1016/j.phytochem.2010.09.001
  • 10.1016/s0014-5793(98)01257-5
  • 10.1016/s0176-1617(85)80225-x
  • 10.1093/jxb/ern117
  • 10.1271/bbb.70.1269
 Blagbrough IS, Bayoumi SA, Rowan MG, Beeching JR. Cassava: an appraisal of its phytochemistry and its biotechnological prospects. Phytochemistry. 2010 Dec;71(17-18):1940–51. doi: 10.1016/j.phytochem.2010.09.001. PMID: 20943239.; Bayoumi SA, Rowan MG, Beeching JR, Blagbrough IS. Investigation of biosynthetic pathways to hydroxycoumarins during post-harvest physiological deterioration in Cassava roots by using stable isotope labelling. Chembiochem. 2008 Dec 15;9(18):3013–22. doi: 10.1002/cbic.200800515. PMID: 19035613.; Griesser M, Vitzthum F, Fink B, Bellido ML, Raasch C, Munoz-Blanco J, Schwab W. Multi-substrate flavonol O-glucosyltransferases from strawberry (Fragaria x ananassa) achene and receptacle. J Exp Bot. 2008;59(10):2611–25. PMID: 18487633; PMCID: PMC2486459.; Weis M, Lim EK, Bruce NC, Bowles DJ. Engineering and kinetic characterisation of two glucosyltransferases from Arabidopsis thaliana. Biochimie. 2008 May;90(5):830–4. doi: 10.1016/j.biochi.2008.01.013. PMID: 18295607.; KIM BG, LEE Y, HUR H, LIM Y, AHN J. Production of ThreeO-Methhylated Esculetins withEscherichia coliExpressingO-Methyltransferase from Poplar. Bioscience, Biotechnology, and Biochemistry. 2006 May 23;70(5):1269–72. doi: 10.1271/bbb.70.1269.; Fraissinet-Tachet L, Baltz R, Chong J, Kauffmann S, Fritig B, Saindrenan P. Two tobacco genes induced by infection, elicitor and salicylic acid encode glucosyltransferases acting on phenylpropanoids and benzoic acid derivatives, including salicylic acid. FEBS Lett. 1998 Oct 23;437(3):319–23. doi: 10.1016/s0014-5793(98)01257-5. PMID: 9824316.; Werner C, Matile P. Accumulation of coumarylglucosides in vacuoles of barley mesophyll protoplasts. J Plant Physiol. 1985 Mar;118(3):237–49. doi: 10.1016/s0176-1617(85)80225-x. PMID: 23196008.
linustatin bioactivation

Accession ID: BioCyc:META_PWY-7091
  • 10.1002/(sici)1097-0134(199703)27:3<438::aid-prot11>3.0.co;2-m
  • 10.1016/0003-9861(85)90513-2
  • 10.1016/j.phytochem.2003.10.016
  • 10.1016/j.phytochem.2008.08.020
  • 10.1016/j.phytochem.2009.03.020
  • 10.1016/j.phytochem.2011.02.023
  • 10.1016/s0031-9422(97)00425-1
  • 10.1016/s0041-0101(99)00128-2
  • 10.1074/jbc.271.10.5884
  • 10.1104/pp.83.3.557
  • 10.1104/pp.86.3.711
 Zagrobelny M, Møller BL. Cyanogenic glucosides in the biological warfare between plants and insects: the Burnet moth-Birdsfoot trefoil model system. Phytochemistry. 2011 Sep;72(13):1585–92. doi: 10.1016/j.phytochem.2011.02.023. PMID: 21429539.; Kongsawadworakul P, Viboonjun U, Romruensukharom P, Chantuma P, Ruderman S, Chrestin H. The leaf, inner bark and latex cyanide potential of Hevea brasiliensis: evidence for involvement of cyanogenic glucosides in rubber yield. Phytochemistry. 2009 Apr;70(6):730–9. doi: 10.1016/j.phytochem.2009.03.020. PMID: 19409582.; Piotrowski M. Primary or secondary? Versatile nitrilases in plant metabolism. Phytochemistry. 2008 Nov;69(15):2655–67. doi: 10.1016/j.phytochem.2008.08.020. PMID: 18842274.; Zagrobelny M, Bak S, Rasmussen AV, Jørgensen B, Naumann CM, Lindberg Møller B. Cyanogenic glucosides and plant-insect interactions. Phytochemistry. 2004 Feb;65(3):293–306. doi: 10.1016/j.phytochem.2003.10.016. PMID: 14751300.; Vetter J. Plant cyanogenic glycosides. Toxicon. 2000 Jan;38(1):11–36. doi: 10.1016/s0041-0101(99)00128-2. PMID: 10669009.; Jones DA. Why are so many food plants cyanogenic? Phytochemistry. 1998 Jan;47(2):155–62. doi: 10.1016/s0031-9422(97)00425-1. PMID: 9431670.; Hasslacher M, Kratky C, Griengl H, Schwab H, Kohlwein SD. Hydroxynitrile lyase from Hevea brasiliensis: Molecular characterization and mechanism of enzyme catalysis. Proteins. 1997 Mar;27(3):438–49. doi: 10.1002/(sici)1097-0134(199703)27:3<438::aid-prot11>3.3.co;2-r.; Hasslacher M, Schall M, Hayn M, Griengl H, Kohlwein SD, Schwab H. Molecular cloning of the full-length cDNA of (S)-hydroxynitrile lyase from Hevea brasiliensis. Functional expression in Escherichia coli and Saccharomyces cerevisiae and identification of an active site residue. J Biol Chem. 1996 Mar 08;271(10):5884–91. doi: 10.1074/jbc.271.10.5884. PMID: 8621461.; Selmar D, Lieberei R, Biehl B. Mobilization and utilization of cyanogenic glycosides: the linustatin pathway. Plant Physiol. 1988 Mar;86(3):711–6. PMID: 16665975; PMCID: PMC1054557.; Selmar D, Lieberei R, Biehl B, Voigt J. Hevea Linamarase-A Nonspecific beta-Glycosidase. Plant Physiol. 1987 Mar;83(3):557–63. PMID: 16665288; PMCID: PMC1056404.; Fan TW-, Conn EE. Isolation and characterization of two cyanogenic ß-glucosidases from flax seeds. Archives of Biochemistry and Biophysics. 1985 Dec;243(2):361–73. doi: 10.1016/0003-9861(85)90513-2.
lotaustralin degradation

Accession ID: BioCyc:META_PWY-6002
  • 10.1104/pp.107.109512
 Morant AV, Bjarnholt N, Kragh ME, Kjaergaard CH, Jørgensen K, Paquette SM, Piotrowski M, Imberty A, Olsen CE, Møller BL, Bak S. The beta-glucosidases responsible for bioactivation of hydroxynitrile glucosides in Lotus japonicus. Plant Physiol. 2008 Jul;147(3):1072–91. PMID: 18467457; PMCID: PMC2442532.
dalcochinin biosynthesis

Accession ID: BioCyc:META_PWY-5821		 -
sorbitol biosynthesis II

Accession ID: BioCyc:META_PWY-5530
  • 10.1385/abab:118:1-3:321
 Jonas R, Silveira MM. Sorbitol can be produced not only chemically but also biotechnologically. Appl Biochem Biotechnol. 2004 Jul;118(1-3):321–36. doi: 10.1385/abab:118:1-3:321. PMID: 15304760.
glucose and glucose-1-phosphate degradation

Accession ID: BioCyc:ECO_GLUCOSE1PMETAB-PWY		 -
sorbitol biosynthesis II

Accession ID: BioCyc:ARA_PWY-5530		 -
glucose and glucose-1-phosphate degradation

Accession ID: BioCyc:SHIGELLA_GLUCOSE1PMETAB-PWY		 -
glucose and glucose-1-phosphate degradation

Accession ID: BioCyc:MTBCDC1551_GLUCOSE1PMETAB-PWY		 -
glucose and glucose-1-phosphate degradation

Accession ID: BioCyc:AGRO_GLUCOSE1PMETAB-PWY		 -
glucose and glucose-1-phosphate degradation

Accession ID: BioCyc:BSUB_GLUCOSE1PMETAB-PWY-1		 -
glucose and glucose-1-phosphate degradation

Accession ID: BioCyc:ECOL316407_GLUCOSE1PMETAB-PWY		 -
glucose and glucose-1-phosphate degradation

Accession ID: BioCyc:ECOL413997_GLUCOSE1PMETAB-PWY		 -
glucose and glucose-1-phosphate degradation

Accession ID: BioCyc:10403S_RAST_GLUCOSE1PMETAB-PWY		 -
glucose and glucose-1-phosphate degradation

Accession ID: BioCyc:PABTQVLC_GLUCOSE1PMETAB-PWY		 -
daphnin interconversion

Accession ID: BioCyc:META_PWY-7056
  • 10.1016/s0031-9422(01)00471-x
 De Rosa S, Mitova M, Handjieva N, Calis I. Coumarin glucosides from Cruciata taurica. Phytochemistry. 2002 Feb;59(4):447–50. doi: 10.1016/s0031-9422(01)00471-x. PMID: 11830165.
Entner-Doudoroff pathway II (non-phosphorylative)

Accession ID: BioCyc:META_NPGLUCAT-PWY
  • 10.1046/j.1432-1327.1999.00201.x
  • 10.1128/jb.124.3.1128-1131.1975
  • 10.1139/m89-009
 Kardinahl S, Schmidt CL, Hansen T, Anemüller S, Petersen A, Schäfer G. The strict molybdate-dependence of glucose-degradation by the thermoacidophile Sulfolobus acidocaldarius reveals the first crenarchaeotic molybdenum containing enzyme – an aldehyde oxidoreductase. European Journal of Biochemistry. 1999 Mar;260(2):540–8. doi: 10.1046/j.1432-1327.1999.00201.x.; Danson MJ. Central metabolism of the archaebacteria: an overview. Can J Microbiol. 1989 Jan;35(1):58–64. doi: 10.1139/m89-009. PMID: 2497944.; Allam AM, Hassan MM, Elzainy TA. Formation and cleavage of 2-keto-3-deoxygluconate by 2-keto-3-deoxygluconate aldolase of Aspergillus niger. J Bacteriol. 1975 Dec;124(3):1128–31. doi: 10.1128/jb.124.3.1128-1131.1975.
coniferin metabolism

Accession ID: BioCyc:META_PWY-116
  • 10.1002/jlac.19677030126
  • 10.1007/s00425-005-1517-5
  • 10.1016/0003-9861(76)90214-9
  • 10.1016/0005-2744(73)90027-2
  • 10.1016/0031-9422(94)85053-4
  • 10.1016/j.febslet.2005.04.016
  • 10.1016/s0031-9422(01)00107-8
  • 10.1016/s1360-1385(00)01720-9
  • 10.1016/s1369-5266(02)00257-1
  • 10.1021/jf034817y
  • 10.1023/a:1006226931512
  • 10.1073/pnas.96.16.8955
  • 10.1074/jbc.m007263200
  • 10.1104/pp.107.2.331
  • 10.1111/j.1365-313x.2004.02089.x
  • 10.1111/j.1432-1033.1978.tb12349.x
  • 10.1111/j.1432-1033.1982.tb19776.x
  • 10.1146/annurev.arplant.54.031902.134938
 Tsuji Y, Chen F, Yasuda S, Fukushima K. Unexpected behavior of coniferin in lignin biosynthesis of Ginkgo biloba L. Planta. 2005 Sep;222(1):58–69. doi: 10.1007/s00425-005-1517-5. PMID: 15986215.; Lim EK, Jackson RG, Bowles DJ. Identification and characterisation of Arabidopsis glycosyltransferases capable of glucosylating coniferyl aldehyde and sinapyl aldehyde. FEBS Lett. 2005 May 23;579(13):2802–6. doi: 10.1016/j.febslet.2005.04.016. PMID: 15907484.; Hemm MR, Rider SD, Ogas J, Murry DJ, Chapple C. Light induces phenylpropanoid metabolism in Arabidopsis roots. The Plant Journal. 2004 May 04;38(5):765–78. doi: 10.1111/j.1365-313x.2004.02089.x.; Tsuji Y, Chen F, Yasuda S, Fukushima K. The behavior of deuterium-labeled monolignol and monolignol glucosides in lignin biosynthesis in angiosperms. J Agric Food Chem. 2004 Jan 14;52(1):131–4. doi: 10.1021/jf034817y. PMID: 14709025.; Boerjan W, Ralph J, Baucher M. Lignin biosynthesis. Annu Rev Plant Biol. 2003;54():519–46. doi: 10.1146/annurev.arplant.54.031902.134938. PMID: 14503002.; Humphreys JM, Chapple C. Rewriting the lignin roadmap. Curr Opin Plant Biol. 2002 Jun;5(3):224–9. doi: 10.1016/s1369-5266(02)00257-1. PMID: 11960740.; Steeves V, Förster H, Pommer U, Savidge R. Coniferyl alcohol metabolism in conifers -- I. Glucosidic turnover of cinnamyl aldehydes by UDPG: coniferyl alcohol glucosyltransferase from pine cambium. Phytochemistry. 2001 Aug;57(7):1085–93. doi: 10.1016/s0031-9422(01)00107-8. PMID: 11430981.; Lim E, Li Y, Parr A, Jackson R, Ashford DA, Bowles DJ. Identification of Glucosyltransferase Genes Involved in Sinapate Metabolism and Lignin Synthesis in Arabidopsis. Journal of Biological Chemistry. 2001 Feb;276(6):4344–9. doi: 10.1074/jbc.m007263200.; Vogt T, Jones P. Glycosyltransferases in plant natural product synthesis: characterization of a supergene family. Trends Plant Sci. 2000 Sep;5(9):380–6. doi: 10.1016/s1360-1385(00)01720-9. PMID: 10973093.; Osakabe K, Tsao CC, Li L, Popko JL, Umezawa T, Carraway DT, Smeltzer RH, Joshi CP, Chiang VL. Coniferyl aldehyde 5-hydroxylation and methylation direct syringyl lignin biosynthesis in angiosperms. Proc. Natl. Acad. Sci. U.S.A. 1999 Aug 03;96(16):8955–60. doi: 10.1073/pnas.96.16.8955.; Dharmawardhana DP, Ellis BE, Carlson JE. cDNA cloning and heterologous expression of coniferin beta-glucosidase. Plant Mol Biol. 1999 May;40(2):365–72. doi: 10.1023/a:1006226931512. PMID: 10412914.; Dharmawardhana DP, Ellis BE, Carlson JE. A beta-glucosidase from lodgepole pine xylem specific for the lignin precursor coniferin. Plant Physiol. 1995 Feb;107(2):331–9. PMID: 7724669; PMCID: PMC157133.; Leinhos V, Udagama-Randeniya PV, Savidge RA. Purification of an acidic coniferin-hydrolysing beta-glucosidase from developing xylem of Pinus banksiana. Phytochemistry. 1994 Sep;37(2):311–5. doi: 10.1016/0031-9422(94)85053-4. PMID: 7765617.; Schmid G, Grisebach H. Enzymic synthesis of lignin precursors. Purification and properties of UDP glucose: coniferyl-alcohol glucosyltransferase from cambial sap of spruce (Picea abies L.). Eur J Biochem. 1982 Apr 01;123(2):363–70. doi: 10.1111/j.1432-1033.1982.tb19776.x. PMID: 6210530.; Marcinowski S, Grisebach H. Enzymology of lignification. Cell-wall bound beta-glucosidase for coniferin from spruce (Picea abies) seedlings. Eur J Biochem. 1978 Jun 01;87(1):37–44. doi: 10.1111/j.1432-1033.1978.tb12349.x. PMID: 27355.; Ibrahim RK, Grisebach H. Purification and properties of UDP-glucose: Coniferyl alcohol glucosyltransferase from suspension cultures of Paul's scarlet rose. Archives of Biochemistry and Biophysics. 1976 Oct;176(2):700–8. doi: 10.1016/0003-9861(76)90214-9.; Sutter A, Grisebach H. UDP-glucose: flavonol 3-0-glucosyltransferase from cell suspension cultures of parsley. Biochim Biophys Acta. 1973 Jun 06;309(2):289–95. doi: 10.1016/0005-2744(73)90027-2. PMID: 4731963.; Freudenberg K, Torres-Serres J. [Conversion of the phenylalanines in lignin-component glucosides]. Justus Liebigs Ann Chem. 1967 Apr;703():225–30. doi: 10.1002/jlac.19677030126. PMID: 5593877.
L-ascorbate biosynthesis VI (engineered pathway)

Accession ID: BioCyc:META_PWY-7165
  • 10.1016/s0021-9258(18)48039-8
  • 10.1073/pnas.95.12.6768
  • 10.1126/science.230.4722.144
  • 10.1128/aem.43.5.1064-1069.1982
  • 10.1128/aem.65.8.3341-3346.1999
 Yum D, Lee B, Pan J. Identification of the yqhE and yafB Genes Encoding Two 2,5-Diketo- d -Gluconate Reductases in Escherichia coli. Appl Environ Microbiol. 1999 Aug;65(8):3341–6. doi: 10.1128/aem.65.8.3341-3346.1999.; Khurana S, Powers DB, Anderson S, Blaber M. Crystal structure of 2,5-diketo- d -gluconic acid reductase A complexed with NADPH at 2.1-Å resolution. Proc. Natl. Acad. Sci. U.S.A. 1998 Jun 09;95(12):6768–73. doi: 10.1073/pnas.95.12.6768.; Miller JV, Estell DA, Lazarus RA. Purification and characterization of 2,5-diketo-D-gluconate reductase from Corynebacterium sp. Journal of Biological Chemistry. 1987 Jul;262(19):9016–20. doi: 10.1016/s0021-9258(18)48039-8.; Anderson S, Marks CB, Lazarus R, Miller J, Stafford K, Seymour J, Light D, Rastetter W, Estell D. Production of 2-Keto-L-Gulonate, an Intermediate in L-Ascorbate Synthesis, by a Genetically Modified Erwinia herbicola. Science. 1985 Oct 11;230(4722):144–9. doi: 10.1126/science.230.4722.144. PMID: 17842676.; Sonoyama T, Tani H, Matsuda K, Kageyama B, Tanimoto M, Kobayashi K, Yagi S, Kyotani H, Mitsushima K. Production of 2-Keto- l -Gulonic Acid from d -Glucose by Two-Stage Fermentation. Appl Environ Microbiol. 1982 May;43(5):1064–9. doi: 10.1128/aem.43.5.1064-1069.1982.
glucose and glucose-1-phosphate degradation

Accession ID: BioCyc:ARA_GLUCOSE1PMETAB-PWY		 -