Open Access
PLoS Genetics, volume 17, issue 1, pages e1008711
Episodic evolution of coadapted sets of amino acid sites in mitochondrial proteins
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Publication type: Journal Article
Publication date: 2021-01-25
Journal:
PLoS Genetics
Quartile SCImago
Q1
Quartile WOS
Q1
Impact factor: 4.5
ISSN: 15537390, 15537404
PubMed ID:
33493156
Cancer Research
Molecular Biology
Genetics
Ecology, Evolution, Behavior and Systematics
Genetics (clinical)
Abstract
The rate of evolution differs between protein sites and changes with time. However, the link between these two phenomena remains poorly understood. Here, we design a phylogenetic approach for distinguishing pairs of amino acid sites that evolve concordantly, i.e., such that substitutions at one site trigger subsequent substitutions at the other; and also pairs of sites that evolve discordantly, so that substitutions at one site impede subsequent substitutions at the other. We distinguish groups of amino acid sites that undergo coordinated evolution and evolve discordantly from other such groups. In mitochondrion-encoded proteins of metazoans and fungi, we show that concordantly evolving sites are clustered in protein structures. By analysing the phylogenetic patterns of substitutions at concordantly and discordantly evolving site pairs, we find that concordant evolution has two distinct causes: epistatic interactions between amino acid substitutions and episodes of selection independently affecting substitutions at different sites. The rate of substitutions at concordantly evolving groups of protein sites changes in the course of evolution, indicating episodes of selection limited to some of the lineages. The phylogenetic positions of these changes are consistent between proteins, suggesting common selective forces underlying them.
Citations by journals
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eLife
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eLife
1 publication, 16.67%
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Cellular and Molecular Life Sciences
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Cellular and Molecular Life Sciences
1 publication, 16.67%
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Genome Biology and Evolution
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Genome Biology and Evolution
1 publication, 16.67%
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Bioinformatics
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Bioinformatics
1 publication, 16.67%
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Citations by publishers
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Oxford University Press
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Oxford University Press
2 publications, 33.33%
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eLife Sciences Publications
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eLife Sciences Publications
1 publication, 16.67%
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Springer Nature
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Springer Nature
1 publication, 16.67%
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- We do not take into account publications that without a DOI.
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- Statistics recalculated weekly.
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Neverov A. et al. Episodic evolution of coadapted sets of amino acid sites in mitochondrial proteins // PLoS Genetics. 2021. Vol. 17. No. 1. p. e1008711.
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Neverov A., Popova A. V., Fedonin G. G., Cheremukhin E. A., Klink G. V., Bazykin G. A. Episodic evolution of coadapted sets of amino acid sites in mitochondrial proteins // PLoS Genetics. 2021. Vol. 17. No. 1. p. e1008711.
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TY - JOUR
DO - 10.1371/journal.pgen.1008711
UR - https://doi.org/10.1371%2Fjournal.pgen.1008711
TI - Episodic evolution of coadapted sets of amino acid sites in mitochondrial proteins
T2 - PLoS Genetics
AU - Neverov, Alexey
AU - Popova, Anfisa V
AU - Fedonin, Gennady G
AU - Cheremukhin, Evgeny A
AU - Klink, Galya V
AU - Bazykin, Georgii A.
PY - 2021
DA - 2021/01/25 00:00:00
PB - Public Library of Science (PLoS)
SP - e1008711
IS - 1
VL - 17
PMID - 33493156
SN - 1553-7390
SN - 1553-7404
ER -
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@article{2021_Neverov,
author = {Alexey Neverov and Anfisa V Popova and Gennady G Fedonin and Evgeny A Cheremukhin and Galya V Klink and Georgii A. Bazykin},
title = {Episodic evolution of coadapted sets of amino acid sites in mitochondrial proteins},
journal = {PLoS Genetics},
year = {2021},
volume = {17},
publisher = {Public Library of Science (PLoS)},
month = {jan},
url = {https://doi.org/10.1371%2Fjournal.pgen.1008711},
number = {1},
pages = {e1008711},
doi = {10.1371/journal.pgen.1008711}
}
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MLA
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Neverov, Alexey, et al. “Episodic evolution of coadapted sets of amino acid sites in mitochondrial proteins.” PLoS Genetics, vol. 17, no. 1, Jan. 2021, p. e1008711. https://doi.org/10.1371%2Fjournal.pgen.1008711.