Document Type
Article
Publication Date
2013
College/Unit
Eberly College of Arts and Sciences
Department/Program/Center
Biology
Abstract
Background
The frequent exchange of genetic material among prokaryotes means that extracting a majority or plurality phylogenetic signal from many gene families, and the identification of gene families that are in significant conflict with the plurality signal is a frequent task in comparative genomics, and especially in phylogenomic analyses. Decomposition of gene trees into embedded quartets (unrooted trees each with four taxa) is a convenient and statistically powerful technique to address this challenging problem. This approach was shown to be useful in several studies of completely sequenced microbial genomes.
Results
We present here a web server that takes a collection of gene phylogenies, decomposes them into quartets, generates a Quartet Spectrum, and draws a split network. Users are also provided with various data download options for further analyses. Each gene phylogeny is to be represented by an assessment of phylogenetic information content, such as sets of trees reconstructed from bootstrap replicates or sampled from a posterior distribution. The Quartet Decomposition server is accessible at http://quartets.uga.edu.
Conclusions
The Quartet Decomposition server presented here provides a convenient means to perform Quartet Decomposition analyses and will empower users to find statistically supported phylogenetic conflicts.
Digital Commons Citation
Mao, Fenglou; Williams, David; Zhaxybayeva, Olga; Poptsova, Maria; Lapierre, Pascal; Gogarten, J Peter; and Xu, Ying, "Quartet decomposition server: a platform for analyzing phylogenetic trees" (2013). Faculty & Staff Scholarship. 2675.
https://researchrepository.wvu.edu/faculty_publications/2675
Source Citation
Mao, F., Williams, D., Zhaxybayeva, O. et al. Quartet decomposition server: a platform for analyzing phylogenetic trees. BMC Bioinformatics 13, 123 (2012). https://doi.org/10.1186/1471-2105-13-123
Comments
© 2012 Mao et al.; licensee BioMed Central Ltd. This is an Open Access article distributed under the terms of the Creative Commons Attribution License (http://creativecommons.org/licenses/by/2.0), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited.