The Structure of Autocatalytic Sets: Evolvability, Enablement, and Emergence
@article{Hordijk2012TheSO, title={The Structure of Autocatalytic Sets: Evolvability, Enablement, and Emergence}, author={Wim Hordijk and Mike A. Steel and Stuart A. Kauffman}, journal={Acta Biotheoretica}, year={2012}, volume={60}, pages={379-392} }
This paper presents new results from a detailed study of the structure of autocatalytic sets. We show how autocatalytic sets can be decomposed into smaller autocatalytic subsets, and how these subsets can be identified and classified. We then argue how this has important consequences for the evolvability, enablement, and emergence of autocatalytic sets. We end with some speculation on how all this might lead to a generalized theory of autocatalytic sets, which could possibly be applied to…
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References
SHOWING 1-10 OF 36 REFERENCES
Autocatalytic Sets and the Origin of Life
- PhilosophyEntropy
- 2010
Some of the criticism against and evidence in favor of autocatalytic sets are reviewed, and a case for their plausibility is made based on a formal framework that was introduced and studied in the previous work.
Random biochemical networks: the probability of self-sustaining autocatalysis.
- Computer ScienceJournal of theoretical biology
- 2005
Detecting autocatalytic, self-sustaining sets in chemical reaction systems.
- Computer ScienceJournal of theoretical biology
- 2004
Required Levels of Catalysis for Emergence of Autocatalytic Sets in Models of Chemical Reaction Systems
- ChemistryInternational journal of molecular sciences
- 2011
This paper investigates in more detail the levels of catalysis required for a self-sustaining autocatalytic network to form, and extends the theoretical and computational analyses to models in which catalysis requires template matching.
Autocatalytic sets of proteins
- BiologyOrigins of life and evolution of the biosphere
- 2006
The main conclusions appear independent of the idealizations of the initial model, introduce a novel kind of parallel selection for peptides catalyzing connected sequences of reactions, depend upon a new kind of minimal critical complexity whose properties are definable, and suggest that the emergence of self replicating systems may be a self organizing collective property of critically complex protein systems in prebiotic evolution.
The hypercycle. A principle of natural self-organization. Part A: Emergence of the hypercycle.
- BiologyDie Naturwissenschaften
- 1977
An analysis of experimental data regarding RNA and D N A replication reveals that a sufficient amount of information for the build up of a translation machinery can be gained only via integration of several different replicative units (or reproductive cycles) throughfimctional linkages.
Lack of evolvability in self-sustaining autocatalytic networks constraints metabolism-first scenarios for the origin of life
- BiologyProceedings of the National Academy of Sciences
- 2010
It is demonstrated here that replication of compositional information is so inaccurate that fitter compositional genomes cannot be maintained by selection and the system lacks evolvability, cautions against metabolism-first theories of the origin of life, although ancient metabolic systems could have provided a stable habitat within which polymer replicators later evolved.
A principle of natural self-organization
- BiologyNaturwissenschaften
- 2004
An analysis of experimental data regarding RNA and DNA replication at various levels of organization reveals, that a sufficient amount of information for the build up of a translation machinery can be gained only via integration of several different replicative units (or reproductive cycles) through functional linkages.
Evolution before genes
- BiologyBiology Direct
- 2011
It is discovered that if general conditions are satisfied, the accumulation of adaptations in chemical reaction networks can occur, and only when a chemical reaction network consists of many viable cores, can it be evolvable.
Evolution of the first metabolic cycles.
- BiologyProceedings of the National Academy of Sciences of the United States of America
- 1990
It is a consequence of this hypothesis that the postulated cycle cannot exist as a single isolated cycle but must be a member of a network of concatenated homologous cycles, from which all anabolic pathways appear to have sprung.