CATEGORIZATION OF SOME OSCILLATORY ENZYMATIC-REACTIONS

We investigate the categorization of two or more proposed reaction mec hanisms for each of the following oscillatory enzymatic reactions: (1) the peroxidase-oxidase reaction; (2) glycolytic oscillations; (3) osc illations of cyclic AMP in slime mold cells; (4) enzymatic pH oscillat ions; (5) calcium spiking in cytosol. We use prior work in stoichiomet ric network analysis and categorization of oscillatory reactions to id entify in each proposed reaction mechanism essential and nonessential species, the specific role of each essential species, the connectivity of the essential species, including the identification of the reactio ns leading to oscillatory instabilities, and the category. For each mo del, we predict the results of several experiments including relative amplitudes, quench amplitudes, phase shifts, and sign symbolic concent ration shifts and compare them with those from available experiments. These and several other experiments such as bifurcation analysis,phase response curves, entrainment experiments, qualitative and quantitativ e pulsed species response, delay experiments, and external periodic pe rturbation provide stringent tests of proposed reaction mechanisms, an d appropriate ones are suggested to discriminate among competing mecha nisms for a given reaction. We find the necessity for introducing a ne w subcategory in our categorization of oscillatory reactions. The deta ils of the analysis for reactions 2-5 and of the methods determining t he categories are given in the Supporting Information.