Biochemical kinetics in changing volumes

Acta Biochimica Polonica

Volumn 51, Issue 1, 2004, Pages 231-243

  Pawłowski, Piotr H ^a   Zielenkiewicz, Piotr ^a  

^a INSTITUTE OF BIOCHEMISTRY AND BIOPHYSICS   (Poland)

Author keywords

Chemical kinetics; Cyclin oscillations; Glycolytic oscillations; Varying volume

Indexed keywords

ARTICLE; CELL COMPARTMENTALIZATION; CELL DIVISION; CELL GROWTH; CELL VOLUME; CHEMICAL REACTION KINETICS; COMPUTER PREDICTION; COMPUTER SIMULATION; ENZYME KINETICS; ENZYME METABOLISM; GLYCOLYSIS; HYPOTHESIS; MICHAELIS CONSTANT; MICHAELIS MENTEN KINETICS; OSCILLATORY POTENTIAL; PHASE SEPARATION; STEADY STATE;

EID: 2342587262     PISSN: 0001527X     EISSN: None     Source Type: Journal    
DOI: 10.18388/abp.2004_3616     Document Type: Article

References (24)

1. Bier M, Bakker BM, Westerhoff HV. (2000) How yeast cells synchronize their glycolytic oscillations: a perturbation analytic treatment. Biophys J.; 78: 1087-93.
2. Burns JA, Cornish-Bowden A, Groen AK, Heinrich R, Kacser H, Porteous JW, Rapoport SM, Rapoport TA, Stucki JW, Tager JM, Wanders RJA, Westerhoff HV. (1985) Control of metabolic systems. Trends Biochem Sci.; 10: 16.
3. Chaplin M. (1990) Fundamentals of enzyme kinetics: Simple kinetics of enzyme action. In Enzyme Technology. Chaplin M, Bucke Ch, eds, pp 1-40. Cambridge University Press, Cambridge.
4. Crabtree B, Newsholme EA, Reppas NB. (1997) Principles of regulation and control in biochemistry: a pragmatic, flux-oriented approach. In Handbook of Physiology. Hoffman FJ, Jamieson JD, eds, pp 117-80. Oxford University Press, Oxford.
5. Cross AL, Armstrong RL, Gobrecht C, Paton M, Ware C. (1997) Three dimensional imaging of the Belousov-Zhabotinsky reaction using magnetic resonance. Magn Reson Imaging.; 15: 719-25.
6. 2+ Nature.; 316: 541-2.
7. Gingold MP. (1974) Expressions of the Michaelis-Menten equation when studying enzyme reactions in a variable-volume medium. Biochem J.; 143: 771-3.
8. Giuseppin ML, van Riel NA. (2000) Metabolic modeling of Saccharomyces cerevisiae using the optimal control of homeostasis: a cybernetic model definition. Metab Eng.; 2: 14-33.
9. Goldbeter A. (1991) A minimal cascade model for the mitotic oscillator involving cyclin and cdc2 kinase. Proc Natl Acad Sci USA.; 88: 9107-11.
10. Kacser H, Burns JA. (1973) The control of flux. Symp Soc Exp Biol.; 27: 65-104.
11. Karagiannis J, Young PG. (2001) Intracellular pH homeostasis during cell-cycle progression and growth state transition in Schizosaccharomyces pombe. J Cell Sci.; 114: 2929-41.
12. Lee JM. (1992) Enzyme kinetics. In Biochemical Engineering. Englewood C, ed, pp 4-16. Prentice-Hall, New York.
13. Mendes P. (1993) Gepasi: a software package for modeling the dynamics, steady states and control of biochemical and other systems. Comput Appl Biosci.; 9: 563-71.
14. Mendes P. (1997) Biochemistry by numbers: simulation of biochemical pathways with Gepasi 3. Trends Biochem Sci.; 22: 361-3.
15. Mendes P, Kell DB. (1998) Non-linear optimization of biochemical pathways: applications to metabolic engineering and parameter estimation. Bioinformatics.; 14: 869-83.
16. Morton-Firth CJ, Bray D. (1998) Predicting temporal fluctuations in an intracellular signaling pathway. J Theor Biol.; 192: 117-28.
17. Morton-Firth CJ, Shimizu TS, Bray D. (1999) A free-energy-based stochastic simulation of the Tar receptor complex. J Mol Biol.; 286: 1059-74.
18. Ni TC, Savageau MA. (1996) Application of biochemical systems theory to metabolism in human red blood cells: Signal propagation and accuracy of representation. J Biol Chem.; 271: 7927-41.
19. Pojman J. (1999) Studying nonlinear chemical dynamics with numerical experiments. J Chem Educ.; 76: 1310.
20. Pye EK. (1971) Periodicities in intermediary metabolism. In Biochronometry. Menaker M, ed, pp 623-36. National Acad. Sci., Washington, DC.
21. Schaff J, Fink C, Slepchenko B, Carson J, Loew L. (1997) A general computational framework for modeling cellular structure and function. Biophys J.; 73: 1135-46.
22. Schulz AR. (1994) Enzyme Kinetics. From Diastase to Multi-enzyme Systems. Cambridge University Press, Cambridge.
23. Tomita M, Hashimoto K, Takahashi K, Shimizu TS, Matsuzaki Y, Miyoshi F, Saito K, Tanida S, Yugi K, Venter JC, Hutchison CA III. (1999) E-CELL: Software environment for whole cell simulation. Bioinformatics.; 15: 72-84.
24. Woldringh CL, Huls PG, Vischer NO. (1993) Volume growth of daughter and parent cells during the cell cycle of Saccharomyces cerevisiae a/alpha as determined by image cytometry. J Bacteriol.; 175: 3174-81.