Two different template replicators coexisting in the same protocell: stochastic simulation of an extended chemoton...

Area of Science:

• Computational biology
• Systems biology
• Biochemistry

Background:

• Simulating complex biochemical systems is challenging.
• The chemoton is a minimal cell model for cellular organization.
• Previous models were continuous and deterministic.

Purpose of the Study:

• To implement a stochastic model of the chemoton using the BlenX programming language.
• To explore an extended chemoton with competing template cycles.
• To investigate solutions to Eigen's paradox and model cell growth/division.

Main Methods:

• Utilized the BlenX process algebra-based programming language.
• Developed a stochastic model of the chemoton.
• Implemented an extended chemoton with two competing template cycles.
• Introduced a two-state switch for cell growth and division control.

Main Results:

• The stochastic chemoton model shows comparable behavior to continuous deterministic models.
• Reaction coupling in the chemoton facilitates template coexistence, addressing Eigen's paradox.
• A hybrid method using a two-state switch successfully controlled cell growth and division.

Conclusions:

• The BlenX language is suitable for simulating complex biochemical systems like the chemoton.
• The study provides a novel computational approach to understanding cellular organization and evolution.
• The implemented model offers insights into template coexistence and cell cycle control.