ArticleScientific reports2017
Optimization of amino acid replacement costs by mutational pressure in bacterial genomes.
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 12 papers.
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Who cites it
12 citing papers in PubMed.
- The Role of Mutations, Addition of Amino Acids, and Exchange of Genetic Information in the Coevolution of Primitive Coding Systems.International journal of molecular sciences · 2025Article
- Self-similarity and the maximum entropy principle in the genetic code.Theory in biosciences = Theorie in den Biowissenschaften · 2023Article
- Model of Genetic Code Structure Evolution under Various Types of Codon Reading.International journal of molecular sciences · 2022Article
- Characterizing genomic variants and mutations in SARS-CoV-2 proteins from Indian isolates.Gene reports · 2021Article
- Genome-wide identification of F-box proteins in Macrophomina phaseolina and comparison with other fungus.Journal, genetic engineering & biotechnology · 2021Article
- Are Nonsynonymous Transversions Generally More Deleterious than Nonsynonymous Transitions?Molecular biology and evolution · 2021Article
- Basic principles of the genetic code extension.Royal Society open science · 2020Article
- Population Genetics Based Phylogenetics Under Stabilizing Selection for an Optimal Amino Acid Sequence: A Nested Modeling Approach.Molecular biology and evolution · 2019Article
- The influence of different types of translational inaccuracies on the genetic code structure.BMC bioinformatics · 2019Article
- The optimality of the standard genetic code assessed by an eight-objective evolutionary algorithm.BMC evolutionary biology · 2018Article
- Optimization of the standard genetic code according to three codon positions using an evolutionary algorithm.PloS one · 2018Article
- Genetic Code Optimization for Cotranslational Protein Folding: Codon Directional Asymmetry Correlates with Antiparallel Betasheets, tRNA Synthetase Classes.Computational and structural biotechnology journal · 2017Article
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Authors and funding
5 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Mutations are considered a spontaneous and random process, which is important component of evolution because it generates genetic variation. On the other hand, mutations are deleterious leading to non-functional genes and energetically costly repairs. Therefore, one can expect that the mutational pressure is optimized to simultaneously generate genetic diversity and preserve genetic information. To check if empirical mutational pressures are optimized in these ways, we compared matrices of nucleotide mutation rates derived from bacterial genomes with their best possible alternatives that minimized or maximized costs of amino acid replacements associated with differences in their physicochemical properties (e.g. hydropathy and polarity). It should be noted that the studied empirical nucleotide substitution matrices and the costs of amino acid replacements are independent because these matrices were derived from sites free of selection on amino acid properties and the amino acid costs assumed only amino acid physicochemical properties without any information about mutation at the nucleotide level. Obtained results indicate that the empirical mutational matrices show a tendency to minimize costs of amino acid replacements. It implies that bacterial mutational pressures can evolve to decrease consequences of amino acid substitutions. However, the optimization is not full, which enables generation of some genetic variability.
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