Detecting individual sites subject to episodic diversifying selection

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dc.contributor.authorMurrell, Benen_ZA
dc.contributor.authorWertheim, Joel O.en_ZA
dc.contributor.authorMoola, Sashaen_ZA
dc.contributor.authorWeighill, Thomasen_ZA
dc.contributor.authorScheffler, Konraden_ZA
dc.contributor.authorPond, Sergei L. Kosakovskyen_ZA
dc.date.accessioned2012-08-17T12:41:50Z
dc.date.available2012-08-17T12:41:50Z
dc.date.issued2012-07-02
dc.descriptionCITATION: Murrell, B. et a. 2012. Detecting individual sites subject to episodic diversifying selection. PLoS Genetics, 8(7): e1002764, doi:10.1371/journal.pgen.1002764.
dc.descriptionThe original publication is available at http://journals.plos.org/plosgenetics
dc.description.abstractThe imprint of natural selection on protein coding genes is often difficult to identify because selection is frequently transient or episodic, i.e. it affects only a subset of lineages. Existing computational techniques, which are designed to identify sites subject to pervasive selection, may fail to recognize sites where selection is episodic: a large proportion of positively selected sites. We present a mixed effects model of evolution (MEME) that is capable of identifying instances of both episodic and pervasive positive selection at the level of an individual site. Using empirical and simulated data, we demonstrate the superior performance of MEME over older models under a broad range of scenarios. We find that episodic selection is widespread and conclude that the number of sites experiencing positive selection may have been vastly underestimated.
dc.description.urihttp://journals.plos.org/plosgenetics/article?id=10.1371/journal.pgen.1002764
dc.description.versionPublisher's version
dc.format.extent10 pages
dc.identifier.citationMurrell, B. et a. 2012. Detecting individual sites subject to episodic diversifying selection. PLoS Genetics, 8(7): e1002764, doi:10.1371/journal.pgen.1002764.
dc.identifier.issn1553-7390 (online)
dc.identifier.otherdoi:10.1371/journal.pgen.1002764
dc.identifier.urihttp://hdl.handle.net/10019.1/49293
dc.language.isoen
dc.publisherPublic Library of Science
dc.rights.holderAuthors retain copyright
dc.subjectMixed effects model of evolutionen_ZA
dc.subjectGeneticsen_ZA
dc.subjectGenetics -- Mathematical modelsen_ZA
dc.subjectEvolutionary computationen_ZA
dc.titleDetecting individual sites subject to episodic diversifying selectionen_ZA
dc.typeArticle
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