MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment
MEGA3: Integrated software for molecular evolutionary genetics analysis and sequence alignment
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DOI：
10.1093/bib/5.2.150
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发表时间：
2004-06-01
影响因子：
9.5
通讯作者：
Nei, M
中科院分区：
文献类型：
--
作者：
Kumar, S;Tamura, K;Nei, M
比较DNA和蛋白质序列分析是分子进化和种群遗传学的理论基础，在重建物种和多基因家族的进化史、估计分子进化速度、推断影响基因和基因组进化的选择性作用力的性质和程度方面发挥着核心作用。由于高通量测序技术和新的统计和计算方法的发展，这些研究的范围现在已经大大扩大。这些方法需要易于使用的计算机程序。其中一项工作是开发分子进化遗传学分析(MEGA)软件，其重点是从进化的角度促进对DNA和蛋白质序列变异的探索和分析。目前，在其第三个主要版本中，MEGA3包含用于自动和手动序列比对、基于网络的数据库挖掘、系统发生树推断、进化距离估计和验证进化假说的工具。本文概述了用于数据输入的统计方法、计算工具和可视化探索模块以及在MEGA中可获得的结果。
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.