Relative contributions of intrinsic structural-functional constraints and translation rate to the evolution of protein-coding genes.

Genome Biology and Evolution
Yuri I WolfEugene V Koonin

Abstract

A long-standing assumption in evolutionary biology is that the evolution rate of protein-coding genes depends, largely, on specific constraints that affect the function of the given protein. However, recent research in evolutionary systems biology revealed unexpected, significant correlations between evolution rate and characteristics of genes or proteins that are not directly related to specific protein functions, such as expression level and protein-protein interactions. The strongest connections were consistently detected between protein sequence evolution rate and the expression level of the respective gene. A recent genome-wide proteomic study revealed an extremely strong correlation between the abundances of orthologous proteins in distantly related animals, the nematode Caenorhabditis elegans and the fruit fly Drosophila melanogaster. We used the extensive protein abundance data from this study along with short-term evolutionary rates (ERs) of orthologous genes in nematodes and flies to estimate the relative contributions of structural-functional constraints and the translation rate to the evolution rate of protein-coding genes. Together the intrinsic constraints and translation rate account for approximately 50% of the ...Continue Reading

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Citations

Jun 16, 2010·Nature Reviews. Genetics·Eugene V Koonin, Yuri I Wolf
Jul 28, 2010·Genome Biology and Evolution·Tom A Williams, Mario A Fares
Oct 5, 2010·Genome Biology and Evolution·Joshua L Cherry
Nov 11, 2011·Genome Biology and Evolution·David ManagadzeEugene V Koonin
Mar 30, 2011·Molecular Biology and Evolution·Fabian J TheisDmitrij Frishman
Mar 8, 2012·Molecular Biology and Evolution·Ezequiel JuritzGustavo Parisi
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Dec 24, 2011·PLoS Computational Biology·Alexander E LobkovskyEugene V Koonin
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Oct 15, 2014·Proceedings of the National Academy of Sciences of the United States of America·Karen L HaagDieter Ebert
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Sep 30, 2009·PLoS Biology·Lukasz JaroszewskiAdam Godzik
Nov 10, 2013·Molecular Biology and Evolution·Raquel Assis, Alexey S Kondrashov
Dec 18, 2013·RNA·Morten Muhlig NielsenJakob Skou Pedersen

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Methods Mentioned

BETA
protein folding
dissection

Software Mentioned

MUSCLE
PROTDIST

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