Metabolic network analysis on Phaffia rhodozyma yeast using 13C-labeled glucose and gas chromatography-mass spectrometry

Metabolic Engineering

Volumn 6, Issue 4, 2004, Pages 340-351

  Cannizzaro, Christopher ^a   Christensen, Bjarke ^b   Nielsen, Jens ^b   Stockar, Urs Von ^a  

^a EPFL   (Switzerland)

^b TECHNICAL UNIVERSITY OF DENMARK   (Denmark)

Author keywords

Astaxanthin; C 13 labeling; Carotenoids; GC MS; Metabolic network analysis; Phaffia rhodozyma

Indexed keywords

ANIMALIA; PHAFFIA RHODOZYMA;

EID: 6044250373     PISSN: 10967176     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.ymben.2004.06.001     Document Type: Article

References (44)

1. An G.H. Improved growth of the red yeast, Phaffia rhodozyma (Xanthophyllomyces dendrorhous), in the presence of tricarboxylic acid cycle intermediates. Biotechnol. Lett. 23:2001;1005-1009
2. Boekhout T., Fonseca A., Sampaio J.P., Golubev W.I. Classification of heterobasidiomycetous yeasts. classification and affiliation of genera to higher taxa of heterobasidiomycetes Can. J. Microbiol. 39:1993;276-290
3. Boles E., de Jong-Gubbels P., Pronk J.T. Identification and characterization of MAE1, the Saccharomyces cerevisiae structural gene encoding mitochondrial malic enzyme. J. Bacteriol. 180:1998;2875-2882
4. Botham P.A., Ratledge C. A biochemical explanation for lipid accumulation in Candida 107 and other oleaginous microorganisms. J. Gen. Microbiol. 114:1979;361-375
5. Cannizzaro, C., 2002. Applied bioprocess monitoring and control: a study on carotenoid synthesis in Phaffia rhodozyma yeast. Thèse N°2620. Laboratory of Chemical and Biochemical Engineering, Swiss Federal Institute of Technology, Lausanne.
6. CBS culture collection, 1999. Phaffia rhodozyma CBS5905 T. Delft, Netherlands, Centraalbureau voor Schimmelcultures.
7. Christensen B., Nielsen J. Isotopomer analysis using GC-MS. Metab. Eng. 1:1999;282-290
8. Christensen B., Nielsen J. Metabolic network analysis on Penicillium chrysogenum using 13C-labeled glucose. Biotechnol. Bioeng. 68:2000;652-659
9. 13C-labeled glucose. Metab. Eng. 4:2002;159-169
10. Evans C.T., Ratledge C. Induction of xylulose-5-phosphate phosphoketolase in a variety of yeasts grown on D-xylose. the key to efficient xylose metabolism Arch. Microbiol. 139:1984;48-52
11. Evans C.T., Scragg A.H., Ratledge C. Regulation of citrate efflux from mitochondria of oleaginous and non-oleaginous yeasts by adenine nucleotides. Eur. J. Biochem. 132:1983;609-615
12. Federhen, S., Harrison, I., Hotton, C., Leipe, D., Soussov, V., Sternberg, R., Turner, S. 2001. NCBI Taxonomy Browser, http://www.ncbi.nlm.nih. gov.
13. Flores C., Rodriguez C., Petit T., Gancedo C. Carbohydrate and energy-yielding metabolism in non-conventional yeasts. FEMS Microbiol. Lett. 24:2000;507-529
14. Flores-Cotera L.B., Martín R., Sánchez S. Citrate, a possible precursor of astaxanthin in Phaffia rhodozyma. influence of varying levels of ammonium, phosphate and citrate in a chemically defined medium Appl. Microbiol. Biotechnol. 55:2001;341-347
15. Fontana J.D., Chocial M.B., Baron M., Guimaraes M.F., Maraschin M., Ulhoa C., Florencio J.A., Bonfim T.M.B. Astaxanthinogenesis in the yeast Phaffia rhodozyma - Optimization of low-cost culture media and yeast cell wall lysis. Appl. Biochem. Biotechnol. 63:1997;305-314
16. Gombert A.K., Nielsen J. Mathematical modelling of metabolism. Curr. Opin. Biotech. 11:2000;180-186
17. Gombert A.K., Santos M.M., Christensen B., Nielsen J. Network identification and flux quantification in the central metabolism of Saccharomyces cerevisiae under different conditions of glucose repression. J. Bacteriol. 183:2001;1441-1451
18. Granger L.M., Perlot P., Goma G., Pareilleux A. Efficiency of fatty acid synthesis by oleaginous yeasts - Prediction of yield and fatty acid cell content from consumed C/N ratio by a simple method. Biotechnol. Bioeng. 42:1993;1151-1156
19. Höfer M. Estimation of the pathways of glucose catabolism in Rhodotorula gracilis. Folia Microbiologica (Praha). 13:1968;373-377
20. Höfer M., Brand K., Deckner H., Becker J.-U. Importance of the pentose phosphate pathway for D-glucose catabolism in the obligatory aerobic yeast Rhodoturula gracilis. Biochem. J. 123:1971;855-863
21. Holdsworth J.E., Veenhuis M., Ratledge C. Enzyme activities in oleaginous yeasts accumulating and utilizing exogenous or endogenous lipids. J. Gen. Microbiol. 134:1988;2907-2915
22. Johnson E.A., Schroeder W. Microbial carotenoids. Fiechter A. Advances in Biochemical Engineering. Vol. 53:1995;119-178 Springer, Berlin
23. Jonsbu E., Christensen B., Nielsen J. Changes of in vivo fluxes through central metabolic pathways during the production of nystatin by Streptomyces norusei in batch culture. Appl. Microbiol. Biotechnol. 56:2001;93-100
24. Marison I., von Stockar U. A novel bench-scale calorimeter for biological process development work. Thermochim. Acta. 85:1985;493-496
25. Meyer P.S., du Preez J.C., Kilian S.G. Selection and evaluation of astaxanthin-overproducing mutants of Phaffia rhodozyma. World J. Microb. Biotechnol. 9:1993;514-520
26. Misawa N., Shimada H. Metabolic engineering for the production of carotenoids in non-carotenogenic bacteria and yeasts. J. Biotechnol. 59:1998;169-181
27. Moller K., Christensen B., Förster J., Piskur J., Nielsen J., Olsson L. Aerobic glucose metabolism of Sacchromyces kluyveri. growth, metabolite production and quantification of metabolic fluxes Biotechnol. Bioeng. 77:2002;186-193
28. Nakase, T., Suh, O.S., Takashima, M., 2000. Significance of cellular xylose in the systematics of basidiomycetous yeasts. Riken Review, The Institute of Physical and Chemical Research, Japan 8.
29. Pedersen H., Christensen B., Hjort C., Nielsen J. Construction and characterization of an oxalic acid nonproducing strain of Aspergillus niger. Metab. Eng. 2:2000;34-41
30. Ratledge C., Botham P.A. Pathways of glucose metabolism in Candida 107, a lipid accumulating yeast. J. Gen. Microbiol. 102:1977;391-395
31. Sandmann G. Carotenoid biosynthesis and biotechnological application. Arch. Biochem. Biophys. 385:2001;4-12
32. 13C tracer experiments. Ph.D. dissertation. Institute for Biotechnology, Denmark Technical University, Lingby.
33. Schmidt K., Marx A., de Graaf A.A., Wiechert W., Sahm H., Nielsen J., Villadsen J. C13 tracer experiments and metabolite balancing for metabolic flux analysis. comparing two approaches Biotechnol. Bioeng. 58:1998;254-257
34. Schmidt-Dannert C. Engineering novel carotenoids in microorganisms. Curr. Opin. Biotechnol. 11:2000;255-261
35. Sugiyama J., Fukagawa M., Chiu S., Komagata K. Cellular carbohydrate composition, DNA base composition, ubiquinone systems, and diazonium blue B color test in the genera Rhodosporidium, Leucosporidium, Rhodotorula and related basidiomycetous yeasts. J. Gen. Appl. Microbiol. 31:1985;519-550
36. Thykaer J., Christensen B., Nielsen J. Metabolic network analysis on an adipoyl-7-ADCA-producing strain of Penicillium chrysogenum. elucidation of adipate degradation Metab. Eng. 4:2002;151-158
37. Verdoes J.C., Wery J., Boekhout T., Vanooyen A.J.J. Molecular characterization of the glyceraldehyde-3-phosphate dehydrogenase gene of Phaffia rhodozyma. Yeast. 13:1997;1231-1242
38. Verduyn C., Postma E., Sheffers W.A., van Dijken J.P. Effect of benzoic acid on metabolic fluxes in yeasts. a continuous culture study on the regulation of respiration and alcoholic fermentation Yeast. 8:1992;501-517
39. Voigt K., Wöstermeyer J. Phylogeny and origin of 82 zygomycetes from all 54 genera of the Mucorales and Mortierellaes based on combined analysis of actin and translation elongation factor EF-1 alpha genes. Gene. 270:2001;113-120
40. Whitworth D.A., Ratledge C. An analysis of intermediary metabolism and its control in a fat-synthesizing yeast (Candida 107) growing on glucose and alkanes. J. Gen. Microbiol. 88:1975;275-288
41. Whitworth D.A., Ratledge C. Phosphoketolase in Rhodoturula graminis and other yeasts. J. Gen. Microbiol. 102:1977;397-401
42. Wiechert, W., 2001. 13C metabolic flux analysis. Metab. Eng. 1-12.
43. Wittmann C., Heinzle E. Mass spectrometry for metabolic flux analysis. Biotechnol. Bioeng. 62:1999;739-750
44. Wynn J.P., Hamid A.A., Ratledge C. The role of malic enzyme in the regulation of lipid accumulation in filamentous fungi. Microbiol. 145:1999;1911-1917