Pathways Knowlegdes
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| Pathway | DOIs | Note |
|---|---|---|
| epoxysqualene biosynthesis Accession ID: BioCyc:CALBI_PWY-5670 |
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| homoserine biosynthesis Accession ID: BioCyc:CALBI_HOMOSERSYN-PWY |
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Schlösser T, Gätgens C, Weber U, Stahmann KP. Alanine : glyoxylate aminotransferase of Saccharomyces cerevisiae-encoding gene AGX1 and metabolic significance. Yeast. 2004 Jan 15;21(1):63–73. doi: 10.1002/yea.1058. PMID: 14745783.; Mountain HA, Byström AS, Larsen JT, Korch C. Four major transcriptional responses in the methionine/threonine biosynthetic pathway of Saccharomyces cerevisiae. Yeast. 1991 Nov;7(8):781–803. doi: 10.1002/yea.320070804. PMID: 1789001.; Yamagata S. O-Acetylhomoserine sulfhydrylase of the fission yeast Schizosaccharomyces pombe: partial purification, characterization, and its probable role in homocysteine biosynthesis. J Biochem. 1984 Nov;96(5):1511–23. doi: 10.1093/oxfordjournals.jbchem.a134980. PMID: 6526818. |
| folate polyglutamylation Accession ID: BioCyc:CALBI_PWY3O-20 |
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Navarro-Martínez MD, Cabezas-Herrera J, Rodríguez-López JN. Antifolates as antimycotics? Connection between the folic acid cycle and the ergosterol biosynthesis pathway in Candida albicans. Int J Antimicrob Agents. 2006 Dec;28(6):560–7. doi: 10.1016/j.ijantimicag.2006.07.012. PMID: 17046206.; Cherest H, Thomas D, Surdin-Kerjan Y. Polyglutamylation of Folate Coenzymes Is Necessary for Methionine Biosynthesis and Maintenance of Intact Mitochondrial Genome inSaccharomyces cerevisiae. Journal of Biological Chemistry. 2000 May;275(19):14056–63. doi: 10.1074/jbc.275.19.14056.; Appling DR. Compartmentation of folate-mediated one-carbon metabolism in eukaryotes. FASEB J. 1991 Sep;5(12):2645–51. doi: 10.1096/fasebj.5.12.1916088. PMID: 1916088.; Henson OE, McClary DO. Growth inhibition of Candida albicans by folate pathway inhibitors. Their potential in the selection of auxotrophs. Antonie Van Leeuwenhoek. 1979;45(2):211–23. doi: 10.1007/bf00418585. PMID: 386943. |
| sulfate assimilation Accession ID: BioCyc:CALBI_PWY-781 |
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Thomas D, Surdin-Kerjan Y. Metabolism of sulfur amino acids in Saccharomyces cerevisiae. Microbiol Mol Biol Rev. 1997 Dec;61(4):503–32. doi: 10.1128/mmbr.61.4.503-532.1997.; Ono B, Kijima K, Ishii N, Kawato T, Matsuda A, Paszewski A, Shinoda S. Regulation of sulphate assimilation in Saccharomyces cerevisiae. Yeast. 1996 Sep 15;12(11):1153–62. doi: 10.1002/(sici)1097-0061(19960915)12:11%3c1153::aid-yea16%3e3.0.co;2-2. PMID: 8896281.; Mountain HA, Byström AS, Larsen JT, Korch C. Four major transcriptional responses in the methionine/threonine biosynthetic pathway of Saccharomyces cerevisiae. Yeast. 1991 Nov;7(8):781–803. doi: 10.1002/yea.320070804. PMID: 1789001.; Schwenn JD, Krone FA, Husmann K. Yeast PAPS reductase: properties and requirements of the purified enzyme. Arch Microbiol. 1988;150(4):313–9. doi: 10.1007/bf00408300. PMID: 3060034. |
| pantothenate and coenzyme A biosynthesis Accession ID: BioCyc:CALBI_PWY3B3-1588 |
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Webb ME, Smith AG, Abell C. Biosynthesis of pantothenate. Nat Prod Rep. 2004 Dec;21(6):695–721. doi: 10.1039/b316419p. PMID: 15565250.; White WH, Gunyuzlu PL, Toyn JH. Saccharomyces cerevisiae is capable of de Novo pantothenic acid biosynthesis involving a novel pathway of beta-alanine production from spermine. J Biol Chem. 2001 Apr 06;276(14):10794–800. doi: 10.1074/jbc.m009804200. PMID: 11154694.; Sarett HP, Cheldelin VH. The Utilization of beta-Alanine and Pantothenic Acid by Yeasts. J Bacteriol. 1945 Jan;49(1):31–9. PMID: 16560893; PMCID: PMC517986. |
| glutamate biosynthesis from ammonia Accession ID: BioCyc:CALBI_GLUTSYNIII-PWY |
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Avendaño A, Deluna A, Olivera H, Valenzuela L, Gonzalez A. GDH3 encodes a glutamate dehydrogenase isozyme, a previously unrecognized route for glutamate biosynthesis in Saccharomyces cerevisiae. J Bacteriol. 1997 Sep;179(17):5594–7. doi: 10.1128/jb.179.17.5594-5597.1997.; Holmes AR, McNaughton GS, More RD, Shepherd MG. Ammonium assimilation by Candida albicans and other yeasts: a 13N isotope study. Can. J. Microbiol. 1991 Mar 01;37(3):226–32. doi: 10.1139/m91-034.; Holmes AR, Collings A, Farnden KJ, Shepherd MG. Ammonium assimilation by Candida albicans and other yeasts: evidence for activity of glutamate synthase. J Gen Microbiol. 1989 Jun;135(6):1423–30. doi: 10.1099/00221287-135-6-1423. PMID: 2575653.; Benjamin PM, Wu J, Mitchell AP, Magasanik B. Three regulatory systems control expression of glutamine synthetase inSaccharomyces cerevisiae at the level of transcription. Molecular Genetics and Genomics. 1989 Jun;217(2-3):370–7. doi: 10.1007/bf02464906. |
| NAD/NADH phosphorylation and dephosphorylation Accession ID: BioCyc:CALBI_PWY-5083 |
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Belenky P, Bogan KL, Brenner C. NAD+ metabolism in health and disease. Trends Biochem Sci. 2007 Jan;32(1):12–9. doi: 10.1016/j.tibs.2006.11.006. PMID: 17161604.; Shi F, Kawai S, Mori S, Kono E, Murata K. Identification of ATP-NADH kinase isozymes and their contribution to supply of NADP(H) in Saccharomyces cerevisiae. The FEBS Journal. 2005 Jun 24;272(13):3337–49. doi: 10.1111/j.1742-4658.2005.04749.x.; Camougrand NM, Cheyrou A, Henry MF, Guérin MG. The alternative respiratory pathway of the yeast Candida parapsilosis: oxidation of exogenous NAD(P)H. J Gen Microbiol. 1988 Dec;134(12):3195–204. doi: 10.1099/00221287-134-12-3195. PMID: 3269391. |
| L-arabinose degradation Accession ID: BioCyc:CALBI_PWY-5515 |
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de Groot MJL, Prathumpai W, Visser J, Ruijter GJG. Metabolic Control Analysis of Aspergillus niger |
| superpathway of ergosterol biosynthesis Accession ID: BioCyc:CALBI_ERGOSTEROL-SYN-PWY |
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Sun LM, Lv BB, Cheng AX, Wu XZ, Lou HX. The Effect of Plagiochin E Alone and in Combination with Fluconazole on the Ergosterol Biosynthesis of Candida albicans. Biological & Pharmaceutical Bulletin. 2009;32(1):36–40. doi: 10.1248/bpb.32.36. |
| fatty acid biosynthesis -- elongase pathway Accession ID: BioCyc:LEISH_PWY3IU-15 |
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Lee SH, Stephens JL, Englund PT. A fatty-acid synthesis mechanism specialized for parasitism. Nat Rev Microbiol. 2007 Apr;5(4):287–97. doi: 10.1038/nrmicro1617. PMID: 17363967. |
| glyoxalase pathway Accession ID: BioCyc:LEISH_PWY3IU-139 |
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Sousa Silva M, Ferreira AEN, Tomás AM, Cordeiro C, Ponces Freire A. Quantitative assessment of the glyoxalase pathway in Leishmania infantum as a therapeutic target by modelling and computer simulation. The FEBS Journal. 2005 Apr 22;272(10):2388–98. doi: 10.1111/j.1742-4658.2005.04632.x.; Vickers TJ, Greig N, Fairlamb AH. A trypanothione-dependent glyoxalase I with a prokaryotic ancestry in Leishmania major. Proc. Natl. Acad. Sci. U.S.A. 2004 Aug 25;101(36):13186–91. doi: 10.1073/pnas.0402918101.; Darling TN, Davis DG, London RE, Blum JJ. Products of Leishmania braziliensis glucose catabolism: release of D-lactate and, under anaerobic conditions, glycerol. Proc. Natl. Acad. Sci. U.S.A. 1987 Oct;84(20):7129–33. doi: 10.1073/pnas.84.20.7129. |
| pentose phosphate pathway (oxidative branch) Accession ID: BioCyc:LEISH_OXIDATIVEPENT-PWY |
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Maugeri DA, Cazzulo JJ, Burchmore RJS, Barrett MP, Ogbunude POJ. Pentose phosphate metabolism in Leishmania mexicana. Molecular and Biochemical Parasitology. 2003 Aug;130(2):117–25. doi: 10.1016/s0166-6851(03)00173-7. |
| IAA biosynthesis I Accession ID: BioCyc:LEISH_PWY-581 |
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| biopterin metabolism Accession ID: BioCyc:LEISH_PWY3IU-255 |
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Opperdoes FR, Coombs GH. Metabolism of Leishmania: proven and predicted. Trends Parasitol. 2007 Apr;23(4):149–58. doi: 10.1016/j.pt.2007.02.004. PMID: 17320480.; Lye L, Cunningham ML, Beverley SM. Characterization of quinonoid-Dihydropteridine Reductase (QDPR) from the Lower Eukaryote Leishmania major. Journal of Biological Chemistry. 2002 Oct;277(41):38245–53. doi: 10.1074/jbc.m206543200.; Ouellette M, Drummelsmith J, El Fadili A, Kündig C, Richard D, Roy G. Pterin transport and metabolism in Leishmania and related trypanosomatid parasites. International Journal for Parasitology. 2002 Apr;32(4):385–98. doi: 10.1016/s0020-7519(01)00346-0. |
| ascorbate biosynthesis Accession ID: BioCyc:LEISH_PWY3IU-472 |
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Opperdoes FR, Coombs GH. Metabolism of Leishmania: proven and predicted. Trends Parasitol. 2007 Apr;23(4):149–58. doi: 10.1016/j.pt.2007.02.004. PMID: 17320480.; Wilkinson SR, Prathalingam SR, Taylor MC, Horn D, Kelly JM. Vitamin C biosynthesis in trypanosomes: a role for the glycosome. Proc Natl Acad Sci U S A. 2005 Aug 16;102(33):11645–50. PMID: 16087875; PMCID: PMC1187986. |
| glutathione redox reactions I Accession ID: BioCyc:LEISH_PWY-4081 |
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| NAD/NADH phosphorylation and dephosphorylation Accession ID: BioCyc:LEISH_PWY-5083 |
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| homoserine biosynthesis Accession ID: BioCyc:LEISH_HOMOSERSYN-PWY |
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Opperdoes FR, Coombs GH. Metabolism of Leishmania: proven and predicted. Trends Parasitol. 2007 Apr;23(4):149–58. doi: 10.1016/j.pt.2007.02.004. PMID: 17320480. |
| superpathway of phospholipid biosynthesis Accession ID: BioCyc:LEISH_PWY3IU-205 |
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| superpathway of glycolysis, pyruvate dehydrogenase and TCA cycle Accession ID: BioCyc:LEISH_PWY3IU-61 |
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