Constructing genome phylogenetic tree of large dsDNA viruses using log-correlation distance

Author

Zhou, L.Q. ; Bai, J.M.

Author_Institution

Sch. of Math. & Comput. Sci., Xiangtan Univ., Xiangtan, China

Volume

5

fYear

2010

fDate

10-12 Aug. 2010

Firstpage

2182

Lastpage

2185

Abstract

The taxonomy of the large dsDNA viruses has been provided in the VIIIth report of ICTV. The phylogenetic tree of large dsDNA viruses has been constructed using CVTree method (Gao and Qi, BMC Evol. Biol.7(2007)41). In this paper, we use the log-correlation distance method analyze the complete genome of the 124 large dsDNA viruses and construct phylogenetic trees based on compositional vectors of DNA sequences or protein sequences. The phylogenetic trees show the large dsDNA virus genomes are separated into nine families. The structures of the trees based on log-correlation distance are mostly consistent with the result of CVTree method and the taxonomy of the VIIIth report of ICTV.

Keywords

DNA; evolution (biological); genetics; genomics; microorganisms; molecular biophysics; proteins; CVTree method; DNA sequence; compositional vectors; genome phylogenetic tree; large dsDNA virus; log-correlation distance; log-correlation distance method; protein sequence; Bioinformatics; DNA; Genomics; Phylogeny; Proteins; Taxonomy; Viruses (medical); complete genomes; log- correlation distance; phylogeny of large dsDNA viruses;

fLanguage

English

Publisher

ieee

Conference_Titel

Fuzzy Systems and Knowledge Discovery (FSKD), 2010 Seventh International Conference on

Conference_Location

Yantai, Shandong

Print_ISBN

978-1-4244-5931-5

Type

conf

DOI

10.1109/FSKD.2010.5569769

Filename

5569769