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      MEGA3: Integrated software for Molecular Evolutionary Genetics Analysis and sequence alignment

      Briefings in Bioinformatics

      Oxford University Press (OUP)

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          Abstract

          With its theoretical basis firmly established in molecular evolutionary and population genetics, the comparative DNA and protein sequence analysis plays a central role in reconstructing the evolutionary histories of species and multigene families, estimating rates of molecular evolution, and inferring the nature and extent of selective forces shaping the evolution of genes and genomes. The scope of these investigations has now expanded greatly owing to the development of high-throughput sequencing techniques and novel statistical and computational methods. These methods require easy-to-use computer programs. One such effort has been to produce Molecular Evolutionary Genetics Analysis (MEGA) software, with its focus on facilitating the exploration and analysis of the DNA and protein sequence variation from an evolutionary perspective. Currently in its third major release, MEGA3 contains facilities for automatic and manual sequence alignment, web-based mining of databases, inference of the phylogenetic trees, estimation of evolutionary distances and testing evolutionary hypotheses. This paper provides an overview of the statistical methods, computational tools, and visual exploration modules for data input and the results obtainable in MEGA.

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          Author and article information

          Journal
          Briefings in Bioinformatics
          Briefings in Bioinformatics
          Oxford University Press (OUP)
          1467-5463
          1477-4054
          January 01 2004
          January 01 2004
          : 5
          : 2
          : 150-163
          Article
          10.1093/bib/5.2.150
          15260895
          © 2004

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