Comparative characterization of the fermentation pathway of Saccharomyces cerevisiae using biochemical systems theory and metabolic control analysis: Model validation and dynamic behavior

In the first two papers of this series (immediately preceding, this issue), we characterized the steady-state properties of a model of a fermentation pathway in Saccharomyces cerevisiae in four experimental conditions. In each of these conditions, the pictures obtained by metabolic control analysis and biochemical systems theory were coincident, which illustrates the relatedness of the two approaches. In this paper we analyze the quality of this description by means of the tools available within biochemical systems theory, and we show that in some of the experimental conditions studied the system is poorly characterized. The most critical condition corresponds to the immobilization of the cells at pH 5.5, in which the kinetic characterization appears to be inaccurate. Furthermore, sensitivity analysis and the study of the local steady-state stability identify the most critical parameters. The results of these analyses are confirmed by the predictions of the dynamic response of the model using its S-system representation. This illustrates the utility of these tools and warns against using the steady-state characterization without testing its validity.