Rxivist logo

Rxivist combines preprints from bioRxiv with data from Twitter to help you find the papers being discussed in your field. Currently indexing 71,071 bioRxiv papers from 310,049 authors.

Senescence and entrenchment in evolution of amino acid sites

By A. V. Stolyarova, E. Nabieva, V. V. Ptushenko, Alexander Favorov, A. V. Popova, A. D. Neverov, Georgii A. Bazykin

Posted 07 Oct 2019
bioRxiv DOI: 10.1101/794743

Amino acid propensities at a site change in the course of protein evolution. This may happen for two reasons. Changes may be triggered by substitutions at epistatically interacting sites elsewhere in the genome; alternatively, they may arise due to environmental changes that are external to the genome. Here, we design a framework for distinguishing between these alternatives. Using analytical modelling and simulations, we show that they cause opposite dynamics of the fitness of the allele currently occupying the site: its fitness tends to increase with the time since its origin due to epistasis (“entrenchment”), but to decrease due to random environmental fluctuations (“senescence”). We analyse the phylogenetic distribution of substitutions in nuclear genomes, and show that among the amino acids originating at negatively selected sites of vertebrates, nearly all experience strong entrenchment. By contrast, among the amino acids originating at positively selected sites, 18% experience senescence. A similar pattern is observed in phylogenies of insects. We propose that senescence of the current allele is a cause of adaptive evolution.

Download data

  • Downloaded 158 times
  • Download rankings, all-time:
    • Site-wide: 58,422 out of 71,071
    • In evolutionary biology: 4,009 out of 4,644
  • Year to date:
    • Site-wide: 47,956 out of 71,071
  • Since beginning of last month:
    • Site-wide: 61,288 out of 71,071

Altmetric data

Downloads over time

Distribution of downloads per paper, site-wide


Sign up for the Rxivist weekly newsletter! (Click here for more details.)