Tools for Evolutionary Genetics

A special issue of Genes (ISSN 2073-4425). This special issue belongs to the section "Population and Evolutionary Genetics and Genomics".

Deadline for manuscript submissions: closed (25 November 2024) | Viewed by 1646

Special Issue Editor


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Guest Editor
Theoretical Biology Group, Biomedical Research Institute, National Autonomous University of Mexico, Mexico City CP 04510, Mexico
Interests: origin and evolution of the genetic code; evolutionary genomics; mathematical epidemiology; early evolution of life; biophysics of ligand binding to receptors and proteins

Special Issue Information

Dear Colleagues,

A plethora of methods have been used in evolutionary genetics, including classic approaches stemming from population genetics and statistical measures for distinguishing neutral mutations from natural selection. Phylogenetic analyses have been extended using network theory in order to carry out phylogenomic analysis.

This Special Issue welcomes original research articles and reviews that cover the basic and applied aspects of evolution, as well as the novel tools and methodologies that are currently in use in the field of evolution. The goal of this Special Issue is understand how using interdisciplinary research for advancing knowledge in evolutionary genetics currently provides an opportunity with which to tackle both old and modern challenges.

Dr. Marco V. José
Guest Editor

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Keywords

  • evolutionary biology
  • Darwinian evolution
  • population genetics
  • modern synthesis
  • molecular biology and evolution
  • central dogma
  • genetic code
  • microevolution and macroevolution
  • genomics
  • RNA evolution
  • structural phylogenomics
  • complexity
  • complexity and stability
  • proteome and RNAome evolution

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Published Papers (1 paper)

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Research

34 pages, 12575 KiB  
Article
A Proposal for the RNAome at the Dawn of the Last Universal Common Ancestor
by Miryam Palacios-Pérez and Marco V. José
Genes 2024, 15(9), 1195; https://doi.org/10.3390/genes15091195 - 11 Sep 2024
Viewed by 1223
Abstract
From the most ancient RNAs, which followed an RNY pattern and folded into small hairpins, modern RNA molecules evolved by two different pathways, dubbed Extended Genetic Code 1 and 2, finally conforming to the current standard genetic code. Herein, we describe the evolutionary [...] Read more.
From the most ancient RNAs, which followed an RNY pattern and folded into small hairpins, modern RNA molecules evolved by two different pathways, dubbed Extended Genetic Code 1 and 2, finally conforming to the current standard genetic code. Herein, we describe the evolutionary path of the RNAome based on these evolutionary routes. In general, all the RNA molecules analysed contain portions encoded by both genetic codes, but crucial features seem to be better recovered by Extended 2 triplets. In particular, the whole Peptidyl Transferase Centre, anti-Shine–Dalgarno motif, and a characteristic quadruplet of the RNA moiety of RNAse-P are clearly unveiled. Differences between bacteria and archaea are also detected; in most cases, the biological sequences are more stable than their controls. We then describe an evolutionary trajectory of the RNAome formation, based on two complementary evolutionary routes: one leading to the formation of essentials, while the other complemented the molecules, with the cooperative assembly of their constituents giving rise to modern RNAs. Full article
(This article belongs to the Special Issue Tools for Evolutionary Genetics)
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