Combinatorics of Polymer-Based Models of Early Metabolism

DOI10.1137/20M1324429MaRDI QIDQ5157393zbMATH OpenOpenAlexFDO

Authors Oliver Weller-Davies, Mike Steel, Jotun Hein

Publication date 18 October 2021

Published in SIAM Journal on Discrete Mathematics (Search for Journal in Brave)

Full work available at URL https://arxiv.org/abs/2104.05867

zbMATH Keywords

autocatalytic networkbinary polymer modelenumerationMöbius inversionorigin of metabolismpeptidespolymerRAF set

Mathematics Subject Classification ID

Permutations, words, matrices (05A05) Biochemistry, molecular biology (92C40)

Abstract: Polymer models are a widely used tool to study the prebiotic formation of metabolism at the origins of life. Counts of the number of reactions in these models are often crucial in probabilistic arguments concerning the emergence of autocatalytic networks. In the first part of this paper, we provide the first exact description of the number of reactions under widely applied model assumptions. Conclusions from earlier studies rely on either approximations or asymptotic counting, and we show that the exact counts lead to similar, though not always identical, asymptotic results. In the second part of the paper, we investigate a novel model assumption whereby polymers are invariant under spatial rotation. We outline the biochemical relevance of this condition and again give exact enumerative and asymptotic formulae for the number of reactions.

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Cites work

• Detecting autocatalytic, self-sustaining sets in chemical reaction systems
• scientific article; zbMATH DE number 3983158 (Why is no real title available?)
• Minimal autocatalytic networks
• Random biochemical networks: the probability of self-sustaining autocatalysis
• The emergence of a self-catalysing structure in abstract origin-of-life models
• The equation \(a_ M=b^ Nc^ P\) in a free group

Cited in

(4)

• Non-Archimedean space of states in the polymerization model
• A family of metrics for biopolymers based on counting independent sets
• Navigating the chemical space of HCN polymerization and hydrolysis: guiding graph grammars by mass spectrometry data
• Predicting template-based catalysis rates in a simple catalytic reaction model

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