Molecular Biology and Evolution, Vol 14, 1125-1131, Copyright © 1997 by Society for Molecular Biology and Evolution
G McGuire, F Wright and MJ Prentice
Current phylogenetic tree reconstruction methods assume that there is a
single underlying tree topology for all sites along the sequence. The
presence of mosaic sequences due to recombination violates this assumption
and will cause phylogenetic methods to give misleading results due to the
imposition of a single tree topology on all sites. The detection of mosaic
sequences caused by recombination is therefore an important first step in
phylogenetic analysis. A graphical method for the detection of
recombination, based on the least squares method of phylogenetic
estimation, is presented here. This method locates putative recombination
breakpoints by moving a window along the sequence. The performance of the
method is assessed by simulation and by its application to a real data set.
ORIGINAL ARTICLE
A graphical method for detecting recombination in phylogenetic data sets
Department of Mathematics and Statistics, University of Edinburgh, Scotland. grainne@bioss.sari.ac.uk
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