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Coevolutionary landscape inference and the context-dependence of mutations in beta-lactamase TEM-1.

TitleCoevolutionary landscape inference and the context-dependence of mutations in beta-lactamase TEM-1.
Publication TypeJournal Article
Year of Publication2015
AuthorsFigliuzzi, M, Jacquier, H, Schug, A, Tenaillon, O, Weigt, M
JournalMol Biol Evol
Volume33
Issue1
Pagination268-280
Date Published2015 Oct 6
ISSN1537-1719
Abstract

The quantitative characterization of mutational landscapes is a task of outstanding importance in evolutionary and medical biology: It is, e.g., of central importance for our understanding of the phenotypic effect of mutations related to disease and antibiotic drug resistance. Here we develop a novel inference scheme for mutational landscapes, which is based on the statistical analysis of large alignments of homologs of the protein of interest. Our method is able to capture epistatic couplings between residues, and therefore to assess the dependence of mutational effects on the sequence context where they appear. Compared to recent large-scale mutagenesis data of the beta-lactamase TEM-1, a protein providing resistance against beta-lactam antibiotics, our method leads to an increase of about 40% in explicative power as compared to approaches neglecting epistasis. We find that the informative sequence context extends to residues at native distances of about 20Ã… from the mutated site, reaching thus far beyond residues in direct physical contact.

DOI10.1093/molbev/msv211
Alternate JournalMol. Biol. Evol.
PubMed ID26446903