Effect of site-specific heterogeneous evolution on phylogenetic reconstruction: A simple evaluation
文献类型： 外文期刊
作者： Cheng, Qiqun 3 ; Su, Zhixi 1 ; Zhong, Yang 1 ; Gu, Xun 1 ;
作者机构： 1.Fudan Univ, Sch Life Sci, Shanghai 200433, Peoples R China
2.Fudan Univ, Ctr Evolutionary Biol, Shanghai 200433, Peoples R China
3.Fudan Univ, Inst Biomed Sci, Shanghai 200433, Peoples R China
4.Chinese Acad Fishery Sci, Key Lab Marine & Estuarine Fisheries, Minist Agr, E China Sea Fisheries Res Inst, Shanghai 200090, Peoples R China
5.Iowa State Univ, Dept Genet Dev & Cell Biol, Ames, IA 50011 USA
关键词： DIVERGE;Heterogeneous evolution;Phylogenetic reconstruction
期刊名称：GENE （ 影响因子：3.688； 五年影响因子：3.329 ）
ISSN： 0378-1119
年卷期： 2009 年 441 卷 1-2 期
页码：
收录情况： SCI
摘要： Recent studies have shown that heterogeneous evolution may mislead phylogenetic analysis, which has been neglected for a long time. We evaluate the effect of heterogeneous evolution on phylogenetic analysis, using 18 fish mitogenomic coding sequences as an example. Using the software DIVERGE, we identify 198 amino acid sites that have experienced heterogeneous evolution. After removing these sites, the rest of sites are shown to be virtually homogeneous in the evolutionary rate. There are some differences between phylogenetic trees built with heterogeneous sites ("before tree") and without heterogeneous sites ("after tree"). Our study demonstrates that for phylogenetic reconstruction, an effective approach is to identify and remove sites with heterogeneous evolution, and suggests that researchers can use the software DIVERGE to remove the influence of heterogeneous evolution before reconstructing phylogenetic trees. (C) 2008 Elsevier B.V. All rights reserved.
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