A first-passage approach to diffusion-influenced reversible binding: insights into nanoscale signaling at the presynapse (2004.04510v2)

Abstract: Synaptic transmission between neurons is governed by a cascade of stochastic reaction-diffusion events that lead to calcium-induced vesicle release of neurotransmitter. Since experimental measurements of such systems are challenging due their nanometer and sub-millisecond scale, numerical simulations remain the principal tool for studying calcium dependent synaptic vesicle fusion, despite limitations of time-consuming calculations. In this paper we develop an analytical solution to rapidly explore dynamical stochastic reaction-diffusion problems, based on first-passage times. This is the first analytical model that accounts simultaneously for relevant statistical features of calcium ion diffusion, buffering, and its binding/unbinding reaction with a vesicular sensor. In particular, unbinding kinetics are shown to have a major impact on the calcium sensor's occupancy probability on a millisecond scale and therefore cannot be neglected. Using Monte Carlo simulations we validated our analytical solution for instantaneous calcium influx and that through voltage-gated calcium channels. Overall we present a fast and rigorous analytical tool to study simplified reaction-diffusion systems that allow a systematic exploration of the biophysical parameters at a molecular scale, while correctly accounting for the statistical nature of molecular interactions within cells, that can also serve as a building block for more general cell signaling simulators.