Title: Molecular phylogeny analysis using correlation distance and spectral distance

Authors: R. Anu Sabarish; Tessamma Thomas

Addresses: Department of Electronics, Cochin University of Science and Technology, Kerala, India ' Department of Electronics, Cochin University of Science and Technology, Kerala, India

Abstract: A wide range of methods with or without sequence alignment have been used to study molecular phylogeny for information on the evolution of species. Two approaches to construct the phylogenetic tree using (a) direct correlation of protein sequences and (b) difference between the Discrete Fourier Transform coefficients are described. The proposed methods use a transformation where each amino acid is represented by its Electron-Ion Interaction Potential (EIIP) value. Phylogenetic tree of two mammalian orders, primates and cetacea, is generated based on Fitch-Margoliash, Neighbour-Joining and UPGMA methods and compared. The phylogenetic tree of evolutionary relationships thus obtained can be used for comparison of species and gene sequences. The information thus gathered provide meaningful insights into the pattern and process of evolution which will help researchers in developing new breeds of animals and plants.

Keywords: genomic signal processing; DFT; discrete Fourier transform; discrete wavelet transform; DWT; correlation distance; electron-ion interaction potential; EIIP; phylogenetic tree; molecular phylogeny; spectral distance; bioinformatics; protein sequences; species comparison; gene sequences; species evolution.

DOI: 10.1504/IJDMB.2014.064890

International Journal of Data Mining and Bioinformatics, 2014 Vol.10 No.4, pp.391 - 406

Received: 05 Apr 2012
Accepted: 23 Jul 2012
Published online: 21 Oct 2014 *

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