Whole genome molecular phylogeny of large dsDNA viruses using composition vector method

<p>Abstract</p> <p>Background</p> <p>One important mechanism by which large DNA viruses increase their genome size is the addition of modules acquired from other viruses, host genomes or gene duplications. Phylogenetic analysis of large DNA viruses, especially using met...

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Main Authors: Gao Lei, Qi Ji
Format: Article
Language:English
Published: BMC 2007-03-01
Series:BMC Evolutionary Biology
Online Access:http://www.biomedcentral.com/1471-2148/7/41
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spelling doaj-bca1ccdc55b54aceb800c58e6f07f9672021-09-02T09:04:22ZengBMCBMC Evolutionary Biology1471-21482007-03-01714110.1186/1471-2148-7-41Whole genome molecular phylogeny of large dsDNA viruses using composition vector methodGao LeiQi Ji<p>Abstract</p> <p>Background</p> <p>One important mechanism by which large DNA viruses increase their genome size is the addition of modules acquired from other viruses, host genomes or gene duplications. Phylogenetic analysis of large DNA viruses, especially using methods based on alignment, is often difficult due to the presence of horizontal gene transfer events. The recent composition vector approach, not sensitive to such events, is applied here to reconstruct the phylogeny of 124 large DNA viruses.</p> <p>Results</p> <p>The results are mostly consistent with the biologist's systematics with only a few outliers and can also provide some information for those unclassified viruses and cladistic relationships of several families.</p> <p>Conclusion</p> <p>With composition vector approach we obtained the phylogenetic tree of large DNA viruses, which not only give results comparable to biologist's systematics but also provide a new way for recovering the phylogeny of viruses.</p> http://www.biomedcentral.com/1471-2148/7/41
collection DOAJ
language English
format Article
sources DOAJ
author Gao Lei
Qi Ji
spellingShingle Gao Lei
Qi Ji
Whole genome molecular phylogeny of large dsDNA viruses using composition vector method
BMC Evolutionary Biology
author_facet Gao Lei
Qi Ji
author_sort Gao Lei
title Whole genome molecular phylogeny of large dsDNA viruses using composition vector method
title_short Whole genome molecular phylogeny of large dsDNA viruses using composition vector method
title_full Whole genome molecular phylogeny of large dsDNA viruses using composition vector method
title_fullStr Whole genome molecular phylogeny of large dsDNA viruses using composition vector method
title_full_unstemmed Whole genome molecular phylogeny of large dsDNA viruses using composition vector method
title_sort whole genome molecular phylogeny of large dsdna viruses using composition vector method
publisher BMC
series BMC Evolutionary Biology
issn 1471-2148
publishDate 2007-03-01
description <p>Abstract</p> <p>Background</p> <p>One important mechanism by which large DNA viruses increase their genome size is the addition of modules acquired from other viruses, host genomes or gene duplications. Phylogenetic analysis of large DNA viruses, especially using methods based on alignment, is often difficult due to the presence of horizontal gene transfer events. The recent composition vector approach, not sensitive to such events, is applied here to reconstruct the phylogeny of 124 large DNA viruses.</p> <p>Results</p> <p>The results are mostly consistent with the biologist's systematics with only a few outliers and can also provide some information for those unclassified viruses and cladistic relationships of several families.</p> <p>Conclusion</p> <p>With composition vector approach we obtained the phylogenetic tree of large DNA viruses, which not only give results comparable to biologist's systematics but also provide a new way for recovering the phylogeny of viruses.</p>
url http://www.biomedcentral.com/1471-2148/7/41
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