Metabolic-flux profiling of the yeasts Saccharomyces cerevisiae and Pichia stipitis

Eukaryotic Cell

Volumn 2, Issue 1, 2003, Pages 170-180

  Fiaux, Jocelyne ^a   Çakar, Z Petek ^a,c   Sonderegger, Marco ^a   Wüthrich, Kurt ^a   Szyperski, Thomas ^b   Sauer, Uwe ^a  

^a ETH ZURICH   (Switzerland)

^b UNIVERSITY AT BUFFALO   (United States)

^c ISTANBUL TECHNICAL UNIVERSITY   (Turkey)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACID; GLUCOSE; GLUCOSE 6 PHOSPHATE ISOMERASE; MALIC ACID; MALIC ACID DERIVATIVE; NICOTINAMIDE ADENINE DINUCLEOTIDE (PHOSPHATE) TRANSHYDROGENASE;

ARTICLE; BIOSYNTHESIS; CELL CULTURE; CELL RESPIRATION; COMPARATIVE STUDY; ENERGY METABOLISM; FERMENTATION; GENETICS; METABOLISM; OXIDATIVE PHOSPHORYLATION; PENTOSE PHOSPHATE CYCLE; PHYSIOLOGY; PICHIA; SACCHAROMYCES CEREVISIAE;

AMINO ACIDS; CELL RESPIRATION; CELLS, CULTURED; ENERGY METABOLISM; FERMENTATION; GLUCOSE; GLUCOSE-6-PHOSPHATE ISOMERASE; MALATES; NADP TRANSHYDROGENASE; OXIDATIVE PHOSPHORYLATION; PENTOSE PHOSPHATE PATHWAY; PICHIA; SACCHAROMYCES CEREVISIAE;

ESCHERICHIA COLI; EUKARYOTA; PICHIA; PICHIA STIPITIS; SACCHAROMYCES; SACCHAROMYCES CEREVISIAE;

EID: 0013096838     PISSN: 15359778     EISSN: None     Source Type: Journal    
DOI: 10.1128/EC.2.1.170-180.2003     Document Type: Article

References (57)

1. Bakker, B. M., K. M. Overkamp, A. J. A. van Maris, P. Kötter, M. A. H. Luttik, J. P. van Dijken, and J. T. Pronk. 2001. Stoichiometry and compartmentation of NADH metabolism in Saccharomyces cerevisiae. FEMS Microbiol. Rev. 25:15-37.
2. Boles, E., P. de Jong-Gubbels, and J. T. Pronk. 1998. Identification and characterization of MAE1, the Saccharomyces cerevisiae structural gene encoding mitochondrial malic enzyme. J. Bacteriol. 180:2875-2882.
3. Boles, E., W. Lehnert, and F. K. Zimmermann. 1993. The role of the NAD-dependent glutamate dehydrogenase in restoring growth on glucose of a Saccharomyces cerevisiae phosphoglucose isomerase mutant. Eur. J. Biochem. 217:469-477.
4. Boonstra, B., C. E. French, I. Wainwright, and N. C. Bruce. 1999. The udhA gene of Escherichia coli encodes a soluble pyridine nucleotide transhydrogenase. J. Bacteriol. 181:1030-1034.
5. Bruinenberg, P. M., J. P. van Dijken, and W. A. Scheffers. 1983. A theoretical analysis of NADPH production and consumption in yeasts. J. Gen. Microbiol. 129:953-964.
6. Çakar, Z. P., U. Sauer, and J. E. Bailey. 1999. Metabolic engineering of yeast: the perils of auxotrophic hosts. Biotechnol. Lett. 21:611-616.
7. Canonaco, F., T. A. Hess, S. Heri, T. Wang, T. Szyperski, and U. Sauer. 2001. Metabolic flux response to phosphoglucose isomerase knock-out in Escherichia coli and impact of overexpression of the soluble transhydrogenase UdhA. FEMS Microbioh Lett. 204:247-252.
8. Christensen, B., T. Christiansen, A. K. Gombert, and J. Nielsen. 2001. Simple and robust method for estimation of the split ratio between the oxidative pentose phosphate pathways and the Embden-Meyerhof-Arnas pathway in microorganisms. Biotechnol. Bioeng. 74:517-523.
9. 13C-labeling experiments. Eur. J. Biochem. 269:2795-2800.
10. Christensen, B., and J. Nielsen. 1999. Metabolic network analysis. Adv. Biochem. Eng. Biotechnol. 66:209-231.
11. Cortassa, S., and M. A. Aon. 1998. The onset of fermentative metabolism in continuous culture depends on the catabolite repression properties of Saccharomyces cerevisiae. Enz. Microb. Technol. 22:705-712.
12. Dauner, M., J. E. Bailey, and U. Sauer. 2001. Metabolic flux analysis with a comprehensive isotopomer model in Bacillus subtilis. Biotechnol. Bioeng. 76:144-156.
13. de Jong-Gubbels, P., P. A. Vanrolleghem, J. J. Heijnen, J. P. van Dijken, and J. T. Pronk. 1995. Regulation of carbon metabolism in chemostat cultures of Saccharomyces cerevisiae grown on mixtures of glucose and ethanol. Yeast 11:407-418.
14. Dickinson, J. R., S. J. Harrison, and M. J. Hewlins. 1998. An investigation of the metabolism of valine to isobutyl alcohol in Saccharomyces cerevisiae. J. Biol. Chem. 273:25751-25756.
15. Emmerling, M., M. Dauner, A. Ponti, J. Fiaux, M. Hochuli, T. Szyperski, K. Wüthrich, J. E. Bailey, and U. Sauer. 2002. Metabolic flux responses to pyruvate kinase knockout in Escherichia coli. J. Bacteriol. 184:152-164.
16. Gancedo, J. M. 1998. Yeast carbon catabolite repression. Microbiol. Mol. Biol. Rev. 62:334-361.
17. Gancedo, J. M., and R. Lagunas. 1973. Contribution of the pentose-phosphate pathway to glucose metabolism in Saccharomyces cerevisiae: a critical analysis on the use of labelled glucose. Plant Sci. Lett. 1:193-200.
18. Gombert, A. K., M. M. dos Santos, B. Christensen, and J. Nielsen. 2001. Network identification and flux quantification in the central metabolism of Saccharomyces cerevisiae under different conditions of glucose repression. J. Bacteriol. 183:1441-1451.
19. 6 in yeast: incorporation pattern of glucose. J. Am. Chem. Soc. 123:11353-11359.
20. Hahn-Hägerdahl, B., C. F. Wahlbom, M. Gardonyi, W. H. van Zyl, R. R. Cordero Otero, and L. J. Jönsson. 2001. Metabolic engineering of Saccharomyces cerevisiae for xylose utilization. Adv. Biochem. Eng. Biotechnol. 73:53-84.
21. Haul, J., F. K. Zimmermann, and S. Müller. 2000. Simultaneous genomic overexpression of seven glycolytic enzymes in the yeast Saccharomyces cerevisiae. Enz. Microb. Technol. 26:688-698.
22. 1H-NMR spectroscopy. Eur. J. Biochem. 267:3337-3344.
23. Hochuli, M., H. Patzelt, D. Oesterhelt, K. Wüthrich, and T. Szyperski. 1999. Amino acid biosynthesis in the halophilic archaeon Haloarcula hispanica. J. Bacteriol. 181:3226-3237.
24. Johansson, B., and B. Hahn-Hägerdahl. 2002. The non-oxidative pentose phosphate pathway controls the fermentation rate of xylulose but not of xylose in Saccharomyces cerevisiae TMB3001. FEMS Yeast Res. 2:277-282.
25. Kötter, P., and M. Ciriacy. 1993. Xylose fermentation by Saccharomyces cerevisiae. Appl. Microbiol. Biotechnol. 38:776-783.
26. Lancar-Benda, J., B. Foucher, and M. Saint-Macary. 1996. Characterization, purification and properties of the yeast mitochondrial dicarboxylate carrier. Biochimie 78:195-200.
27. 13C labeling of common amino acids. Eur. J. Biochem. 268:2464-2479.
28. McAlister-Henn, L., and W. C. Small. 1997. Molecular genetics of yeast TCA cycle isoenzmyes. Prog. Nucleic Acid Res. 57:317-339.
29. Møller, K., B. Christensen, J. Förster, J. Piskur, J. Nielsen, and L. Olsson. 2002. Aerobic glucose metabolism of Saccharomyces kluyveri: growth, metabolite production, and quantification of metabolic fluxes. Biotechnol. Bioeng. 77:186-193.
30. Nissen, T. L., M. Anderlund, J. Nielsen, J. Villadsen, and M. C. Kielland-Brandt. 2001. Expression of a cytoplasmic transhydrogenase in Saccharomyces cerevisiae results in formation of 2-oxoglutarate due to depletion of the NADPH pool. Yeast 18:19-32.
31. Palmeri, L., F. M. Lasorsa, A. De Palma, F. Palmeri, M. J. Runswick, and J. E. Walker. 1997. Identification of the yeast ACR1 gene product as a succinate-fumarate transporter essential for growth on ethanol or acetate. FEBS Lett. 417:114-118.
32. Palmeri, L., A. Vozza, G. Agrimi, V. De Marco, M. J. Runswick, F. Palmieri, and J. E. Walkers. 1999. Identification of the yeast mitochondrial transporter for oxaloacetate and sulfate. J. Biol. Chem. 274:22184-22190.
33. Passoth, V., M. Zimmermann, and U. Klinner. 1996. Peculiarities of the regulation of fermentation and respiration in the crabtree-negative xylose-fermenting yeast Pichia stipitis. Appl. Biochem. Biotechnol. 57-58:201-212.
34. Postma, E., C. Verduyn, W. A. Scheffers, and J. P. van Dijken. 1989. Enzymic analysis of the crabtree effect in glucose-limited chemostat cultures of Saccharomyces cerevisiae. Appl. Environ. Microbiol. 55:468-477.
35. Proft, M., D. Grzesitza, and K.-D. Entian. 1995. Identification and characterization of regulatory elements in the phosphoenolpyruvate carboxykinase gene PCK1 of Saccharomyces cerevisiae. Mol. Gen. Genet. 246:367-373.
36. Sauer, U., V. Hatzimanikatis, J. E. Bailey, M. Hochuli, T. Szyperski, and K. Wüthrich. 1997. Metabolic fluxes in riboflavin-producing Bacillus subtilis. Nat. Biotechnol. 15:448-452.
37. Sauer, U., D. R. Lasko, J. Fiaux, H. M., R. Glaser, T. Szyperski, K. Wüthrich, and J. E. Bailey. 1999. Metabolic flux ratio analysis of genetic and environmental modulations of Escherichia coli central carbon metabolism. J. Bacteriol. 181:6679-6688.
38. Schmidt, K., M. Carlsen, J. Nielsen, and J. Villadsen. 1997. Modeling isotopomer distributions in biochemical networks using isotopomer mapping matrices. Biotechnol. Bioeng. 55:831-840.
39. Senac, T., and B. Hahn-Hägerdal. 1990. Intermediary metabolite concentrations in xylulose- and glucose-fermenting Saccharomyces cerevisiae cells. Appl. Environ. Microbiol. 56:120-126.
40. 13C labeling. FEBS Lett. 249:113-118.
41. 13C nuclear magnetic resonance spectroscopy. Appl. Environ. Microbiol. 58:2552-2558.
42. Stückrath, I., H. C. Lange, P. Kötter, W. M. van Gulik, K.-D. Entian, and J. J. Heijnen. 2002. Characterization of null mutants of the glyoxylate cycle and gluconeogenic enzymes in S. cerevisiae through metabolic network modeling verified by chemostat cultivation. Biotechnol. Bioeng. 77:61-72.
43. 13C-NMR, MS and metabolic flux balancing in biotechnological research. Q. Rev. Biophys. 31:41-106.
44. 13C-labeling of proteinogenic amino acids: an efficient analytical tool to investigate intermediary metabolism. Eur. J. Biochem. 232:433-448.
45. 13C labeling and two-dimensional NMR spectroscopy. Trends Biotechnol. 14:453-459.
46. 13C-labeling and two-dimensional NMR spectroscopy. Metab. Eng. 1:189-197.
47. van Dijken, J. P., and W. A. Scheffers. 1986. Redox balances in the metabolism of sugars by yeasts. FEMS Microbiol. Rev. 32:199-224.
48. van Roemund, C. W. T., E. H. Hettema, M. van der Berg, H. F. Tabak, and R. J. A. Wanders. 1999. Molecular characterization of carnithine-dependent transport of acetyl-CoA from peroxisomes to mitochondria in Saccharomyces cerevisiae and identification of a plasma membrane carnithine transporter, Agp2p. EMBO J. 18:5843-5852.
49. van Urk, H., D. Schipper, G. J. Breedveld, P. R. Mak, W. A. Scheffers, and J. P. van Dijken. 1989. Localization and kinetics of pyruvate-metabolizing enzymes in relation to aerobic alcoholic fermentation in Saccharomyces cerevisiae. Biochim. Biophys. Acta 992:78-86.
50. 13C-labeling. Metab. Eng. 3:151-162.
51. Verduyn, C., E. Postma, W. A. Scheffers, and J. P. van Dijken. 1992. Effect of benzoic acid on metabolic fluxes in yeasts: a continuous-culture study on the regulation of respiration and alcoholic fermentation. Yeast 8:501-517.
52. Wahlbom, C. F., A. Eliasson, and B. Hahn-Hägerdal. 2001. Intracellular fluxes in a recombinant xylose-utilizing Saccharomyces cerevisiae cultivated anaerobically at different dilution rates and feed concentrations. Biotechnol. Bioeng. 72:289-296.
53. Walker, G. M. 1998. Yeast physiology and biotechnology. John Wiley & Sons, Ltd., Chichester, United Kingdom.
54. Wang, C. H., I. Stern, C. M. Gilmour, S. Klungsoyr, D. J. Reed, J. J. Bialy, B. E. Christensen, and V. H. Cheldelin. 1958. Comparative study of glucose catabolism by the radiorespirometric method. J. Bacteriol. 76:207-216.
55. 13C metabolic flux analysis. Metab. Eng. 3:195-206.
56. Wiechert, W., C. Siefke, A. A. de Graaf, and A. Marx. 1997. Bidirectional reaction steps in metabolic networks: II. Flux estimation and statistical analysis. Biotechnol. Bioeng. 55:118-135.
57. Woldman, Y., and D. R. Appling. 2002. A general method for determining the contribution of split pathways in metabolite production in the yeast Saccharomyces cerevisiae. Metab. Eng. 4:170-181.