Energetic limits to metabolic flexibility: Responses of Saccharomyces cerevisiae to glucose-galactose transitions

Microbiology

Volumn 155, Issue 4, 2009, Pages 1340-1350

  van den Brink, J ^a   Akeroyd, M ^b   van der Hoeven, R ^b   Ponk, J T ^a   de Winde, J H ^a   Daran Lapujade, P A S ^a  

^a DELFT UNIVERSITY OF TECHNOLOGY   (Netherlands)

^b DSM FOOD SPECIALTIES   (Netherlands)

Author keywords

[No Author keywords available]

Indexed keywords

GALACTOSE; GLUCOSE; SACCHAROMYCES CEREVISIAE PROTEIN;

AEROBIC METABOLISM; ANAEROBIC METABOLISM; ARTICLE; CELL ENERGY; CHEMOSTAT; CONTROLLED STUDY; ENERGY METABOLISM; ENZYME ACTIVITY; FERMENTATION; FUNGAL METABOLISM; FUNGAL STRAIN; FUNGUS CULTURE; NONHUMAN; PRIORITY JOURNAL; PROTEIN FUNCTION; PROTEIN SYNTHESIS; SACCHAROMYCES CEREVISIAE; SIGNAL TRANSDUCTION; ANAEROBIC GROWTH; CULTURE MEDIUM; GENE EXPRESSION REGULATION; GENETICS; GROWTH, DEVELOPMENT AND AGING; METABOLISM; PROTEOMICS;

SACCHAROMYCES CEREVISIAE;

AEROBIOSIS; ANAEROBIOSIS; CULTURE MEDIA; ENERGY METABOLISM; FERMENTATION; GALACTOSE; GENE EXPRESSION REGULATION, FUNGAL; GLUCOSE; PROTEOMICS; SACCHAROMYCES CEREVISIAE; SACCHAROMYCES CEREVISIAE PROTEINS;

EID: 65649130030     PISSN: 13500872     EISSN: None     Source Type: Journal    
DOI: 10.1099/mic.0.025775-0     Document Type: Article

References (54)

1. Ashe, M. P., De Long, S. K. & Sachs, A. B. (2000). Glucose depletion rapidly inhibits translation initiation in yeast. Mol Biol Cell 11, 833-848.
2. Atkinson, D. E. (1968). The energy charge of the adenylate pool as a regulatory parameter. Interaction with feedback modifiers. Biochemistry 7, 4030-4034.
3. Barnett, J. A., Payne, R. W. & Yarrow, D. (1990). Yeasts: Characteristics and Identification. Cambridge: Cambridge University Press.
4. Beckmann, J. D., Ljungdahl, P. O., Lopez, J. L. & Trumpower, B. L. (1987). Isolation and characterization of the nuclear gene encoding the Rieske iron-sulfur protein (RIP1) from Saccharomyces cerevisiae. J Biol Chem 262, 8901-8909.
5. Bergmeyer, H. A. & Michal, G. (1974). Methods of Enzymatic Analysis. New York: Academic Press.
6. Bergmeyer, H. C., Bergmeyer, J. & Grass, M. (1985). Methods in Enzymatic Analysis. Weinheim: Verlag Chemie.
7. Bevan, P. & Douglas, H. C. (1969). Genetic control of phosphoglucomutase variants in Saccharomyces cerevisiae. J Bacteriol 98, 532-535.
8. Canelas, A. B., van Gulik, W. M. & Heijnen, J. J. (2008). Determination of the cytosolic free NAD/NADH ratio in Saccharomyces cerevisiae under steady-state and highly dynamic conditions. Biotechnol Bioeng 100, 734-743.
9. Colowick, S. P. & Kaplan, N. O. (1967). Methods in Enzymology V. New York: Academic Press.
10. de Jongh, W. A., Bro, C., Ostergaard, S., Regenberg, B., Olsson, L. & Nielsen, J. (2008). The roles of galactitol, galactose-1-phosphate, and phosphoglucomutase in galactose-induced toxicity in Saccharomyces cerevisiae. Biotechnol Bioeng 101, 317-326.
11. Diderich, J. A., Raamsdonk, L. M., Kuiper, A., Kruckeberg, A. L., Berden, J. A., Teixeira de Mattos, M. J. & van Dam, K. (2002). Effects of a hexokinase II deletion on the dynamics of glycolysis in continuous cultures of Saccharomyces cerevisiae. FEMS Yeast Res 2, 165-172.
12. Ferea, T. L., Botstein, D., Brown, P. O. & Rosenzweig, R. F. (1999). Systematic changes in gene expression patterns following adaptive evolution in yeast. Proc Natl Acad Sci U S A 96, 9721-9726.
13. Francois, J. & Parrou, J. L. (2001). Reserve carbohydrates metabolism in the yeast Saccharomyces cerevisiae. FEMS Microbiol Rev 25, 125-145.
14. Fukuhara, H. (2003). The Kluyver effect revisited. FEMS Yeast Res 3, 327-331.
15. Gancedo, J. M. (1998). Yeast carbon catabolite repression. Microbiol Mol Biol Rev 62, 334-361.
16. Jansen, M. L., Daran-Lapujade, P., de Winde, J. H., Piper, M. D. & Pronk, J. T. (2004). Prolonged maltose-limited cultivation of Saccharomyces cerevisiae selects for cells with improved maltose affinity and hypersensitivity. Appl Environ Microbiol 70, 1956-1963.
17. Johnston, M., Flick, J. S. & Pexton, T. (1994). Multiple mechanisms provide rapid and stringent glucose repression of GAL gene expression in Saccharomyces cerevisiae. Mol Cell Biol 14, 3834-3841.
18. Klinke, H. B., Ahring, B. K., Schmidt, A. S. & Thomsen, A. B. (2002). Characterization of degradation products from alkaline wet oxidation of wheat straw. Bioresour Technol 82, 15-26.
19. Kuhn, K. M., DeRisi, J. L., Brown, P. O. & Sarnow, P. (2001). Global and specific translational regulation in the genomic response of Saccharomyces cerevisiae to a rapid transfer from a fermentable to a nonfermentable carbon source. Mol Cell Biol 21, 916-927.
20. Lange, H. C., Eman, M., van Zuijlen, G., Visser, D., van Dam, J. C., Frank, J., de Mattos, M. J. & Heijnen, J. J. (2001). Improved rapid sampling for in vivo kinetics of intracellular metabolites in Saccharomyces cerevisiae. Biotechnol Bioeng 75, 406-415.
21. Leuther, K. K. & Johnston, S. A. (1992). Nondissociation of GAL4 and GAL80 in vivo after galactose induction. Science 256, 1333-1335.
22. Majumdar, S., Ghatak, J., Mukherji, S., Bhattacharjee, H. & Bhaduri, A. (2004). UDPgalactose 4-epimerase from Saccharomyces cerevisiae. A bifunctional enzyme with aldose 1-epimerase activity. Eur J Biochem 271, 753-759.
23. Martinez-Pastor, M. T. & Estruch, F. (1996). Sudden depletion of carbon source blocks translation, but not transcription, in the yeast Saccharomyces cerevisiae. FEBS Lett 390, 319-322.
24. Mashego, M. R., Jansen, M. L., Vinke, J. L., van Gulik, W. M. & Heijnen, J. J. (2005). Changes in the metabolome of Saccharomyces cerevisiae associated with evolution in aerobic glucose-limited chemostats. FEMS Yeast Res 5, 419-430.
25. Masuda, C. A., Xavier, M. A., Mattos, K. A., Galina, A. & Montero-Lomeli, M. (2001). Phosphoglucomutase is an in vivo lithium target in yeast. J Biol Chem 276, 37794-37801.
26. (n): technical design and applications to peptide and protein analysis. J Sep Sci 25, 557-568.
27. Nilsson, A., Norbeck, J., Oelz, R., Blomberg, A. & Gustafsson, L. (2001). Fermentative capacity after cold storage of baker's yeast is dependent on the initial physiological state but not correlated to the levels of glycolytic enzymes. Int J Food Microbiol 71, 111-124.
28. Ostergaard, S., Olsson, L., Johnston, M. & Nielsen, J. (2000). Increasing galactose consumption by Saccharomyces cerevisiae through metabolic engineering of the GAL gene regulatory network. Nat Biotechnol 18, 1283-1286.
29. Ostergaard, S., Olsson, L. & Nielsen, J. (2001a). In vivo dynamics of galactose metabolism in Saccharomyces cerevisiae: metabolic fluxes and metabolite levels. Biotechnol Bioeng 73, 412-425.
30. Ostergaard, S., Walloe, K. O., Gomes, S. G., Olsson, L. & Nielsen, J. (2001b). The impact of GAL6, GAL80, and MIG1 on glucose control of the GAL system in Saccharomyces cerevisiae. FEMS Yeast Res 1, 47-55.
31. Palmqvist, E., Grage, H., Meinander, N. Q. & Hahn-Hagerdal, B. (1999). Main and interaction effects of acetic acid, furfural, and p-hydroxybenzoic acid on growth and ethanol productivity of yeasts. Biotechnol Bioeng 63, 46-55.
32. Parrou, J. L. & Francois, J. (1997). A simplified procedure for a rapid and reliable assay of both glycogen and trehalose in whole yeast cells. Anal Biochem 248, 186-188.
33. Piper, M. D., Daran-Lapujade, P., Bro, C., Regenberg, B., Knudsen, S., Nielsen, J. & Pronk, J. T. (2002). Reproducibility of oligonucleotide microarray transcriptome analyses. An interlaboratory comparison using chemostat cultures of Saccharomyces cerevisiae. J Biol Chem 277, 37001-37008.
34. Platt, A. & Reece, R. J. (1998). The yeast galactose genetic switch is mediated by the formation of a Gal4p-Gal80p-Gal3p complex. EMBO J 17, 4086-4091.
35. Platt, A., Ross, H. C., Hankin, S. & Reece, R. J. (2000). The insertion of two amino acids into a transcriptional inducer converts it into a galactokinase. Proc Natl Acad Sci U S A 97, 3154-3159.
36. Postma, E., Kuiper, A., Tomasouw, W. F., Scheffers, W. A. & van Dijken, J. P. (1989). Competition for glucose between the yeasts Saccharomyces cerevisiae and Candida utilis. Appl Environ Microbiol 55, 3214-3220.
37. Raamsdonk, L. M., Diderich, J. A., Kuiper, A., van Gaalen, M., Kruckeberg, A. L., Berden, J. A. & van Dam, K. (2001). Co-consumption of sugars or ethanol and glucose in a Saccharomyces cerevisiae strain deleted in the HXK2 gene. Yeast 18, 1023-1033.
38. Rabelo, S. C., Filho, R. M. & Costa, A. C. (2008). A comparison between lime and alkaline hydrogen peroxide pretreatments of sugarcane bagasse for ethanol production. Appl Biochem Biotechnol 144, 87-100.
39. Raghevendran, V., Gombert, A. K., Christensen, B., Kötter, P. & Nielsen, J. (2004). Phenotypic characterization of glucose repression mutants of Saccharomyces cerevisiae using experiments with 13C-labelled glucose. Yeast 21, 769-779.
40. Sauer, U. & Schlattner, U. (2004). Inverse metabolic engineering with phosphagen kinase systems improves the cellular energy state. Metab Eng 6, 220-228.
41. Snoek, I. S. & Steensma, H. Y. (2006). Why does Kluyveromyces lactis not grow under anaerobic conditions? Comparison of essential anaerobic genes of Saccharomyces cerevisiae with the Kluyveromyces lactis genome. FEMS Yeast Res 6, 393-403.
42. Stephanopoulos, G. N., Aristidou, A. A. & Nielsen, J. (1998). Metabolic Engineering. Principles and Methodologies. San Diego, CA: Elsevier.
43. Sun, Y. & Cheng, J. (2002). Hydrolysis of lignocellulosic materials for ethanol production: a review. Bioresour Technol 83, 1-11.
44. Thomsson, E., Gustafsson, L. & Larsson, C. (2005). Starvation response of Saccharomyces cerevisiae grown in anaerobic nitrogen- or carbon-limited chemostat cultures. Appl Environ Microbiol 71, 3007-3013.
45. Uesono, Y., Ashe, M. P. & Toh.E, A. (2004). Simultaneous yet independent regulation of actin cytoskeletal organization and translation initiation by glucose in Saccharomyces cerevisiae. Mol Biol Cell 15, 1544-1556.
46. van den Berg, M. A., Jong-Gubbels, P., Kortland, C. J., van Dijken, J. P., Pronk, J. T. & Steensma, H. Y. (1996). The two acetyl-coenzyme A synthetases of Saccharomyces cerevisiae differ with respect to kinetic properties and transcriptional regulation. J Biol Chem 271, 28953-28959.
47. van den Brink, J., Daran-Lapujade, P., Pronk, J. T. & de Winde, J. H. (2008). New insights into the Saccharomyces cerevisiae fermentation switch: dynamic transcriptional response to anaerobicity and glucoseexcess. BMC Genomics 9, 100.
48. van Dijken, J. P., Bauer, J., Brambilla, L., Duboc, P., Francois, J. M., Gancedo, C., Giuseppin, M. L., Heijnen, J. J., Hoare, M. & other authors (2000). An interlaboratory comparison of physiological and genetic properties of four Saccharomyces cerevisiae strains. Enzyme Microb Technol 26, 706-714.
49. van Hoek, P., van Dijken, J. P. & Pronk, J. T. (2000). Regulation of fermentative capacity and levels of glycolytic enzymes in chemostat cultures of Saccharomyces cerevisiae. Enzyme Microb Technol 26, 724-736.
50. Verduyn, C., Postma, E., Scheffers, W. A. & van Dijken, J. P. (1990). Energetics of Saccharomyces cerevisiae in anaerobic glucose-limited chemostat cultures. J Gen Microbiol 136, 405-412.
51. Verduyn, C., Stouthamer, A. H., Scheffers, W. A. & van Dijken, J. P. (1991). A theoretical evaluation of growth yields of yeasts. Antonie Van Leeuwenhoek 59, 49-63.
52. Verduyn, C., Postma, E., Scheffers, W. A. & van Dijken, J. P. (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.
53. Wu, Y., Reece, R. J. & Ptashne, M. (1996). Quantitation of putative activator-target affinities predicts transcriptional activating potentials. EMBO J 15, 3951-3963.
54. 13C-labeled cell extracts as internal standards. Anal Biochem 336, 164-171.