Title

SSR repeat dynamics in mitochondrial genomes of five domestic animal species

Authors

Sushil Kumar Shakyawar^1,2, Balwindar Kumar Joshi², Dinesh Kumar^2,*

Affiliation

¹Department of Biotechnology, Indian Institute of Technology, Guwahati-781 039, Assam, INDIA; ²Genes & Genetic Resources Molecular Analysis Lab, National Bureau of Animal Genetic Resources, Karnal-132 1001, Haryana, INDIA

Email

dinesh@iastate.edu

Article Type

Hypothesis

Date

Received June 13, 2009; Revised August 03; Accepted September 11, 2009; Published October 15, 2009

Abstract

SSR (simple sequence repeats) are ubiquitously abundant in genomes. In organellar mitochondrial genome of animals, its distribution, size dynamics and effectiveness for phylogenetic relationship have not been understood. Present investigation reveals organisation of SSR in genic and intergenic region, its length and repeat motif dynamics, extent of conservation of flanking regions, appropriateness of these SSR data in establishing phylogenetic relationship. Contrary to eukaryotic nuclear abundance of SSR in non-coding region, we found abundance in coding region. Like nuclear SSR, most hyper mutable repeats were found in non coding region having di nucleotide motifs of mitochondrial genome but contrary to human having high mutable tetra repeats in case of mitochondrial genomes this was found to be with tri-motif repeats. SSR of mitochondrial genomes also show cyclical expansion and shrinkage in pattern of SHM (simple harmonic motion) with respect to time its non- linear thus not appropriate for phylogenetic analysis though the flanking regions of these SSR also conserved like nuclear SSR.

Keywords

Cyclical expansion, Distribution, Dynamics, Phylogenetic relationship, SHM, SSRs.

Citation

Shakyawar et al., Bioinformation 4(4): 158-163 (2009)

Edited by

P. Kangueane

ISSN

0973-2063

Publisher

Biomedical Informatics

License

This is an Open Access article which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly credited. This is distributed under the terms of the Creative Commons Attribution License.