ArticleScientific reports2017
Computational exploration of the chemical structure space of possible reverse tricarboxylic acid cycle constituents.
Article in Scientific reports, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 9 papers.
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Who cites it
9 citing papers in PubMed.
- The return of metabolism: biochemistry and physiology of glycolysis.Biological reviews of the Cambridge Philosophical Society · 2026Review
- The Prebiotic Kitchen: A Guide to Composing Prebiotic Soup Recipes to Test Origins of Life Hypotheses.Life (Basel, Switzerland) · 2021Review
- Automated Exploration of Prebiotic Chemical Reaction Space: Progress and Perspectives.Life (Basel, Switzerland) · 2021Review
- Thermodynamics of Potential CHO Metabolites in a Reducing Environment.Life (Basel, Switzerland) · 2021Article
- Environmental boundary conditions for the origin of life converge to an organo-sulfur metabolism.Nature ecology & evolution · 2019Article
- Formation of Abasic Oligomers in Nonenzymatic Polymerization of Canonical Nucleotides.Life (Basel, Switzerland) · 2019Article
- Prebiotic chemistry in neutral/reduced-alkaline gas-liquid interfaces.Scientific reports · 2019Article
- A genome-scale metabolic network reconstruction of extremely halophilic bacterium Salinibacter ruber.PloS one · 2019Article
- Exploring astrobiology usingPhilosophical transactions. Series A, Mathematical, physical, and engineering sciences · 2017Article
Corrections and comments
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Authors and funding
2 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The reverse tricarboxylic acid (rTCA) cycle has been explored from various standpoints as an idealized primordial metabolic cycle. Its simplicity and apparent ubiquity in diverse organisms across the tree of life have been used to argue for its antiquity and its optimality. In 2000 it was proposed that chemoinformatics approaches support some of these views. Specifically, defined queries of the Beilstein database showed that the molecules of the rTCA are heavily represented in such compound databases. We explore here the chemical structure "space," e.g. the set of organic compounds which possesses some minimal set of defining characteristics, of the rTCA cycle's intermediates using an exhaustive structure generation method. The rTCA's chemical space as defined by the original criteria and explored by our method is some six to seven times larger than originally considered. Acknowledging that each assumption in what is a defining criterion making the rTCA cycle special limits possible generative outcomes, there are many unrealized compounds which fulfill these criteria. That these compounds are unrealized could be due to evolutionary frozen accidents or optimization, though this optimization may also be for systems-level reasons, e.g., the way the pathway and its elements interface with other aspects of metabolism.
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