Journal Article

PADRE: a package for analyzing and displaying reticulate evolution

Martin Lott, Andreas Spillner, Katharina T. Huber and Vincent Moulton

in Bioinformatics

Volume 25, issue 9, pages 1199-1200
Published in print May 2009 | ISSN: 1367-4803
Published online March 2009 | e-ISSN: 1460-2059 | DOI: http://dx.doi.org/10.1093/bioinformatics/btp133
PADRE: a package for analyzing and displaying reticulate evolution

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Summary: Recent advances in gene sequencing for polyploid species, coupled with standard phylogenetic tree reconstruction, leads to gene trees in which the same species can label several leaves. Such multi-labeled trees are then used to reconstruct the evolutionary history of the polyploid species in question. However, this reconstruction process requires new techniques that are not available in current phylogenetic software packages. Here, we describe the software package PADRE (Package for Analyzing and Displaying Reticulate Evolution) that implements such techniques, allowing the reconstruction of complex evolutionary histories for polyploids in the form of phylogenetic networks.

Availability: PADRE is an open-source Java program freely available from http://www.uea.ac.uk/cmp/research/cmpbio/PADRE.

Contact: martin.lott@uea.ac.uk

Journal Article.  1264 words.  Illustrated.

Subjects: Bioinformatics and Computational Biology

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