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New methods of identifying fast-evolving sites in aligned sequence data

Presented by: 
L Jermiin CSIRO Ecosystem Sciences (CES)
Date: 
Tuesday 21st June 2011 - 16:50 to 17:10
Venue: 
INI Seminar Room 1
Abstract: 
Rate-heterogeneity across sites is a widely recognized problem in molecular phylogenetic studies. Attempts to overcome the problem involve deleting the fastest-evolving sites from the data before the phylogenetic analysis and/or using phylogenetic methods that assume rate-heterogeneity across sites can be modeled by a distribution of probabilities. Each of these methods has its advantages and limitations. Here, we describe and compare five metrics that may be used to identify the fast-evolving sites. One of these metrics (i.e., the probability of compatibility) turned out to be particular good at identifying fast-evolving sites, and when these sites are removed from the data, the result is an increase in the consistency of the alignment and, in some cases, another phylogeny.
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Presentation Material: 
University of Cambridge Research Councils UK
    Clay Mathematics Institute London Mathematical Society NM Rothschild and Sons