Autocatalysis in reaction networks

Bull Math Biol. 2014 Oct;76(10):2570-95. doi: 10.1007/s11538-014-0024-x. Epub 2014 Sep 23.

Abstract

The persistence conjecture is a long-standing open problem in chemical reaction network theory. It concerns the behavior of solutions to coupled ODE systems that arise from applying mass-action kinetics to a network of chemical reactions. The idea is that if all reactions are reversible in a weak sense, then no species can go extinct. A notion that has been found useful in thinking about persistence is that of "critical siphon." We explore the combinatorics of critical siphons, with a view toward the persistence conjecture. We introduce the notions of "drainable" and "self-replicable" (or autocatalytic) siphons. We show that: Every minimal critical siphon is either drainable or self-replicable; reaction networks without drainable siphons are persistent; and nonautocatalytic weakly reversible networks are persistent. Our results clarify that the difficulties in proving the persistence conjecture are essentially due to competition between drainable and self-replicable siphons.

MeSH terms

  • Algorithms
  • Catalysis*
  • Kinetics
  • Mathematical Concepts
  • Models, Chemical*
  • Synthetic Biology
  • Systems Biology