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Origins of Life and Evolution of Biospheres

, Volume 35, Issue 2, pp 111–133 | Cite as

Polymer Gard: Computer Simulation of Covalent Bond Formation in Reproducing Molecular Assemblies

  • Barak Shenhav
  • Arren Bar-Even
  • Ran Kafri
  • Doron LancetEmail author
Article

Abstract

The basic Graded Autocatalysis Replication Domain (GARD) model consists of a repertoire of small molecules, typically amphiphiles, which join and leave a non-covalent micelle-like assembly. Its replication behavior is due to occasional fission, followed by a homeostatic growth process governed by the assembly’ s composition. Limitations of the basic GARD model are its small finite molecular repertoire and the lack of a clear path from a ‘monomer world’ towards polymer-based living entities.We have now devised an extension of the model (polymer GARD or P-GARD), where a monomer-based GARD serves as a ‘scaffold’ for oligomer formation, as a result of internal chemical rules. We tested this concept with computer simulations of a simple case of monovalent monomers, whereby more complex molecules (dimers) are formed internally, in a manner resembling biosynthetic metabolism. We have observed events of dimer ‘take-over’ – the formation of compositionally stable, replication-prone quasi stationary states (composomes) that have appreciable dimer content. The appearance of novel metabolism-like networks obeys a time-dependent power law, reminiscent of evolution under punctuated equilibrium. A simulation under constant population conditions shows the dynamics of takeover and extinction of different composomes, leading to the generation of different population distributions. The P-GARD model offers a scenario whereby biopolymer formation may be a result of rather than a prerequisite for early life-like processes.

Keywords

biopolymers catalytic networks compositional information dimers lipid world mutual catalysis oligomers prebiotic evolution replication stationary states 

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Copyright information

© Springer Science + Business Media, Inc. 2005

Authors and Affiliations

  • Barak Shenhav
    • 1
  • Arren Bar-Even
    • 1
  • Ran Kafri
    • 1
  • Doron Lancet
    • 1
    Email author
  1. 1.Department of Molecular Genetics and the Crown Human Genome Centerthe Weizmann Institute of ScienceRehovotIsrael

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