Genomics, Proteomics, Bioinformatics

Biochemical ‘Cambrian’ Explosion-implosions: The Generation And Pruning Of Genetic Codes

By Keith Cowing
Status Report
biorxiv.org
June 27, 2025
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Biochemical ‘Cambrian’ Explosion-implosions: The Generation And Pruning Of Genetic Codes
Adapted from fig. 1.8 of [2]. Modern protein synthesis; the anticodon at one end of a tRNA molecule binds to its complementary codon in mRNA derived directly from the genome. Sequence-to-sequence translation is not highly parallel, in this model, and the process can be characterized in terms of the Shannon uncertainty in the transmission of information between codon machinery and amino acid machinery. — biorxiv.org

Tlusty’s topological analysis of the genetic code suggests ecosystem changes in available metabolic free energy that predated the aerobic transition enabled a punctuated sequence of increasingly complex genetic codes and protein translators.

These coevolved via a ‘Cambrian explosion’ until, very early on, the ancestor of the present narrow spectrum of protein machineries became evolutionarily locked in at a modest level of fitness reflecting a modest embedding metabolic free energy ecology.

Similar biochemical ‘Cambrian singularities’ must have occurred at different scales and levels of organizaron on Earth, with competition or chance-selected outcomes frozen at a far earlier period than the physical bauplan Cambrian explosion.

Other examples might include explosive variations in mechanisms of photosynthesis and subsequent oxygen metabolisms. Intermediate between Cambrian bauplan and genetic code, variants of both remain today, even after evolutionary pruning, often protected in specialized ecological niches. This suggests that, under less energetic astrobiological ecologies, a spectrum of less complicated reproductive codes may also survive in specialized niches.

Biochemical ‘Cambrian’ explosion-implosions: the generation and pruning of genetic codes, biorxiv.org

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