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Log-correlation Distance And Fourier Transform With Kullback-Leibler Divergence Distance For Construction Of Vertebrate Phylogeny Using Complete Mitochondrial Genomes

Zhou, Li-Qian, Yu, Zuguo, Nie, P. R., Liao, F. F., Anh, Vo V., & Chen, Y. J. (2007) Log-correlation Distance And Fourier Transform With Kullback-Leibler Divergence Distance For Construction Of Vertebrate Phylogeny Using Complete Mitochondrial Genomes. In Third International Conference on Natural Computation (ICNC 2007), 24-27 August 2007, Haikou, China.

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Abstract

For vertebrate mitochondrial genomes, some phylogenies have been built by various methods with or without sequence alignment. These methods are important for the problem of classification and evolution. In this paper, we propose two approaches to analyze the phylogenetic relationship of 64 vertebrates using complete mitochondrial genomes without sequence alignment. The first approach combines discrete Fourier transform (DFT) with Kullback-Leibler divergence (KLD) distance. The second one directly uses a log-correlation distance. Both methods are based on compositional vectors of DNA sequences or protein sequences from the complete genome. The phylogenetic trees show that the mitochondrial genomes are separated into three major groups. One group corresponds to mammals; one group corresponds to fish; and the other one is Archosauria (including birds and reptiles). In particular, the structure of the tree based on log-correlation distance are roughly in agreement in topology with the current known phylogenies of vertebrates.

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ID Code: 14328
Item Type: Conference Paper
Keywords: DNA, biology computing, discrete Fourier transforms, log normal distribution, proteins
DOI: 10.1109/ICNC.2007.462
ISBN: 9780769528755
Subjects: Australian and New Zealand Standard Research Classification > MATHEMATICAL SCIENCES (010000) > APPLIED MATHEMATICS (010200) > Biological Mathematics (010202)
Australian and New Zealand Standard Research Classification > BIOLOGICAL SCIENCES (060000) > GENETICS (060400) > Molecular Evolution (060409)
Divisions: Past > QUT Faculties & Divisions > Faculty of Science and Technology
Current > Institutes > Institute of Health and Biomedical Innovation
Copyright Owner: Copyright 2007 IEEE
Copyright Statement: Personal use of this material is permitted. However, permission to reprint/republish this material for advertising or promotional purposes or for creating new collective works for resale or redistribution to servers or lists, or to reuse any copyrighted component of this work in other works must be obtained from the IEEE.
Deposited On: 07 Aug 2008
Last Modified: 29 Feb 2012 23:40

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