A novel stochastic simulation approach enables exploration of mechanisms for regulating polarity site movement
Fig 2
Comparison of spatial Gillespie simulations using the mesoscopic rates kh and kc with particle-based simulations.
(A-D) Results for the mean number of species A from spatial Gillespie simulations using the mesoscopic rate kh with initial low abundance of reactants in (A, B) (total A = total B = 5, total C = 0 at t = 0) and initial high abundance (total A = total B = 5000, total C = 0 at t = 0) in (C-D). (E-H) show corresponding simulations to (A-D) but using the mesoscopic rate kc. In all the simulations, the degree of diffusion control is λπρ2/Dtot = 50, with Dtot = 2D and D = 0.0025μm2/s, ρ = 0.005 μm and λ = 3183.1/s. The size of the domain is L = 1μm. For the reversible reaction A+B ↔ C, the microscopic dissociation rate constant kdmicro is 1/s in (B, F), and 10/s in (D, H).