Method and Practice of Phylogenomics

研究了基因组数据系统发育分析中存在的问题，并提出了解决这些问题的方法。(1)对地球上所有现存物种是否存在共同祖先的检验方法进行了评价。(2)通过种群核基因组遗传分析，为北极熊是从棕熊的一个本地种群进化而来的假说提供了证据，即棕熊不是单系进化的。(3)研究表明，增加分类群取样密度可以减轻真核线粒体基因组树中的一些误导信号。

Problems misleading in the phylogenetic analyses of genome-scale data were studied, and methods to overcome these problems were developed. (1)The method for testing whether there existed the Universal Common Ancestor for all extant species on Earth was evaluated. (2)Based on a population genetic analysis of nuclear genomes, we obtained an evidence for the hypothesis that the polar bear evolved from a local population of the brown bear, that is, the brown bear is not monophyletic. (3)It was shown that several misleading signals in the eutherian tree of mitochondrial genomes are relieved by increasing the density of taxon sampling.