Mapping dynamical systems into chemical reactions

Abstract

Dynamical systems with polynomials on the right-hand side can model a wide range of physical processes. A subset of such dynamical systems that can model chemical reactions under mass-action kinetics are called chemical systems. A central problem in synthetic biology is to map general polynomial dynamical systems into dynamically similar chemical ones. In this paper, we present a novel map, called the quasi-chemical map, that can systematically solve this problem. The quasi-chemical map introduces suitable state-dependent perturbations into any given polynomial dynamical system which then becomes chemical under suitably large translation of variables. We prove that this map preserves robust dynamical features, such as generic equilibria and limit cycles, as well as temporal properties, such as periods of oscillations. Furthermore, the resulting chemical systems are of only at most one degree higher than the original dynamical systems. We demonstrate the quasi-chemical map by designing relatively simple chemical systems with exotic dynamics and pre-defined bifurcation structures.