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Protein Evolutionary Rates Correlate with Expression Independently of Synonymous Substitutions in Helicobacter pylori
Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Evolution, Genomics and Systematics, Molecular Evolution. (Siv Andersson)
Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Evolution, Genomics and Systematics, Molecular Evolution.
Uppsala University, Disciplinary Domain of Science and Technology, Biology, Department of Evolution, Genomics and Systematics, Molecular Evolution.
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2006 (English)In: Journal of Molecular Evolution, ISSN 0022-2844, E-ISSN 1432-1432, Vol. 62, no 5, 600-614 p.Article in journal (Refereed) Published
Abstract [en]

In free-living microorganisms, such as Escherichia coli and Saccharomyces cerevisiae, both synonymous and nonsynonymous substitution frequencies correlate with expression levels. Here, we have tested the hypothesis that the correlation between amino acid substitution rates and expression is a by-product of selection for codon bias and translational efficiency in highly expressed genes. To this end, we have examined the correlation between protein evolutionary rates and expression in the human gastric pathogen Helicobacter pylori, where the absence of selection on synonymous sites enables the two types of substitutions to be uncoupled. The results revealed a statistically significant negative correlation between expression levels and nonsynonymous substitutions in both H. pylori and E. coli. We also found that neighboring genes located on the same, but not on opposite strands, evolve at significantly more similar rates than random gene pairs, as expected by co-expression of genes located in the same operon. However, the two species differ in that synonymous substitutions show a strand-specific pattern in E. coli, whereas the weak similarity in synonymous substitutions for neighbors in H. pylori is independent of gene orientation. These results suggest a direct influence of expression levels on nonsynonymous substitution frequencies independent of codon bias and selective constraints on synonymous sites.

Place, publisher, year, edition, pages
Springer Science+Business Media Inc. , 2006. Vol. 62, no 5, 600-614 p.
Keyword [en]
Helicobacter pylori, Substitution rate, Expression, Network, Codon bias
National Category
Bioinformatics and Systems Biology
Identifiers
URN: urn:nbn:se:uu:diva-107719DOI: 10.1007/s00239-005-0104-5OAI: oai:DiVA.org:uu-107719DiVA: diva2:232610
Available from: 2009-08-24 Created: 2009-08-24 Last updated: 2017-12-13Bibliographically approved

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Publisher's full texthttp://www.springerlink.com/content/w4157g6355767017/?p=08b3802f7fdf4c65bbe75fc43f38672e&pi=7

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Sällström, Björn

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