‘Domino’ systems biology and the ‘A’ of ATP


We develop a strategic ‘domino’ approach that starts with one key feature of cell function and the main process providing for it, and then adds additional processes and components only as necessary to explain provoked experimental observations. The approach is here applied to the energy metabolism of yeast in a glucose limited chemostat, subjected to a sudden increase in glucose. The puzzles addressed include (i) the lack of increase in ATP upon glucose addition, (ii) the lack of increase in ADP when ATP is hydrolyzed, and (iii) the rapid disappearance of the ‘A’ (adenine) moiety of ATP. Neither the incorporation of nucleotides into new biomass, nor steady de novo synthesis of AMP explains. Cycling of the ‘A’ moiety accelerates when the cell's energy state is endangered, another essential domino among the seven required for understanding of the experimental observations. This new domino analysis shows how strategic experimental design and observations in tandem with theory and modeling may identify and resolve important paradoxes. It also highlights the hitherto unexpected role of the ‘A’ component of ATP.

SEEK ID: https://fairdomhub.org/publications/179

DOI: 10.1016/j.bbabio.2012.09.014

Projects: MOSES

Publication type: Not specified

Journal: Biochimica et Biophysica Acta (BBA) - Bioenergetics


Date Published: 1st Sep 2012

Registered Mode: Not specified

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Verma, M., Zakhartsev, M., Reuss, M., & Westerhoff, H. V. (2013). ‘Domino’ systems biology and the ‘A’ of ATP. In Biochimica et Biophysica Acta (BBA) - Bioenergetics (Vol. 1827, Issue 1, pp. 19–29). Elsevier BV. https://doi.org/10.1016/j.bbabio.2012.09.014

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Created: 16th Oct 2012 at 10:40

Last updated: 16th Oct 2012 at 10:55

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