Breakpoint graphs and ancestral genome reconstructions
Breakpoint graphs and ancestral genome reconstructions
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DOI：
10.1101/gr.082784.108
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发表时间：
2009-05-01
期刊：
影响因子：
7
通讯作者：
Pevzner, Pavel A.
中科院分区：
文献类型：
--
作者：
Alekseyev, Max A.;Pevzner, Pavel A.
最近完成的全基因组测序项目标志着从基于基因的系统发育研究过渡到对整个基因组的系统基因组分析。我们开发了一种重建祖先基因组的算法MGRA，并用它研究了七种哺乳动物基因组的重排历史：人、黑猩猩、猕猴、小鼠、大鼠、狗和负鼠。MGRA依赖于多断点图的概念来克服现有祖先基因组重建方法的一些局限性。当系统发育未知时，MGRA还产生基于重排的特征来指导系统发育树的重建。
Recently completed whole-genome sequencing projects marked the transition from gene-based phylogenetic studies to phylogenomics analysis of entire genomes. We developed an algorithm MGRA for reconstructing ancestral genomes and used it to study the rearrangement history of seven mammalian genomes: human, chimpanzee, macaque, mouse, rat, dog, and opossum. MGRA relies on the notion of the multiple breakpoint graphs to overcome some limitations of the existing approaches to ancestral genome reconstructions. MGRA also generates the rearrangement-based characters guiding the phylogenetic tree reconstruction when the phylogeny is unknown.