In silica evolution of early metabolism

  • Authors:

  • Alexander Ullrich;Markus Rohrschneider;Gerik Scheuermann;Peter F. Stadler;Christoph Flamm

  • Affiliations:

  • Department of Computer Science and Interdisciplinary Center for Bioinformatics, University of Leipzig, Leipzig, Germany;Department of Computer Science, University of Leipzig, Leipzig, Germany;Department of Computer Science, University of Leipzig, Leipzig, Germany;Dept. of Comp. Science and Interdisciplinary Center for Bioinf., Univ. of Leipzig, Germany and Fraunhofer Inst. für Zelltherapie und Immun., Germany and Univ. of Copenhagen, Denmark and The S ...;Department of Theoretical Chemistry, University of Vienna, Wien, Austria

  • Venue:
  • Artificial Life
  • Year:
  • 2011

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Abstract

We developed a simulation tool for investigating the evolution of early metabolism, allowing us to speculate on the formation of metabolic pathways from catalyzed chemical reactions and on the development of their characteristic properties. Our model consists of a protocellular entity with a simple RNA-based genetic system and an evolving metabolism of catalytically active ribozymes that manipulate a rich underlying chemistry. Ensuring an almost open-ended and fairly realistic simulation is crucial for understanding the first steps in metabolic evolution. We show here how our simulation tool can be helpful in arguing for or against hypotheses on the evolution of metabolic pathways. We demonstrate that seemingly mutually exclusive hypotheses may well be compatible when we take into account that different processes dominate different phases in the evolution of a metabolic system. Our results suggest that forward evolution shapes the metabolic networks in the very early steps of evolution. In later and more complex stages, enzyme recruitment supersedes forward evolution, keeping a core set of pathways from the early phase.