Beyond Bioinformatics

Title

A comparison of MSA tools

Authors

Nadia Essoussi¹, Khaddouja Boujenfa^1,* and Mohamed Limam¹

Affiliation

¹LARODEC, High Institute of Management, University of Tunis, Tunis, Tunisia

Email

Khaddouja.Boujenfa@isg.rnu.tn; * Corresponding author

Article Type

Hypothesis

Date

received May 15, 2008; revised June 13, 2008; accepted July 06, 2008; published July 31, 2008

Abstract

Multiple sequence alignment (MSA) is essential in phylogenetic, evolutionary and functional analysis. Several MSA tools are available in the literature. Here, we use several MSA tools such as ClustalX, Align-m, T-Coffee, SAGA, ProbCons, MAFFT, MUSCLE and DIALIGN to illustrate comparative phylogenetic trees analysis for two datasets. Results show that there is no single MSA tool that consistently outperforms the rest in producing reliable phylogenetic trees.

Keywords

multiple sequence alignment methods; phylogenetic trees; Robinson-Foulds distance; Neighbor-Joining method

Citation

Essoussi et al., Bioinformation 2(9): 452-455 (2008)

Edited by

P. Kangueane

ISSN

0973-2063

Publisher

Biomedical Informatics Publishing Group

Copyright

Publisher

Copyright Transfer Agreement

The authors of published articles in Bioinformation automatically transfer the copyright to the publisher upon formal acceptance. However, the authors reserve right to use the information contained in the article for non commercial purposes.

License

This is an open-access article, which permits unrestricted use, distribution, and reproduction in any medium, for non-commercial purposes, provided the original author and source are credited.