Genome-scale approaches to resolving incongruence in molecular phylogenies
Genome-scale approaches to resolving incongruence in molecular phylogenies
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DOI：
10.1038/nature02053
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发表时间：
2003-10-23
期刊：
影响因子：
64.8
通讯作者：
Carroll, SB
中科院分区：
文献类型：
--
作者：
Rokas, A;Williams, BL;Carroll, SB
分子遗传学中最普遍的挑战之一是使用不同数据集（如单个基因）获得的遗传学之间的不一致性。为了系统地研究不一致的程度，以及解决它的潜在方法，我们筛选了8种酵母菌的基因组序列，并选择了106个广泛分布的直向同源基因进行系统发育分析，单独和串联。我们的研究结果表明，由单个或少量串联基因组成的数据集具有支持冲突拓扑的显著概率。相比之下，对整个串联基因数据集的分析产生了具有最大支持度的单个完全解析的物种树。用最少20个基因的串联获得了可比较的结果;比通常使用的基因多得多，但是任何基因组的一小部分。这些结果对解决生命之树的分支具有重要意义。
One of the most pervasive challenges in molecular phylogenetics is the incongruence between phylogenies obtained using different data sets, such as individual genes. To systematically investigate the degree of incongruence, and potential methods for resolving it, we screened the genome sequences of eight yeast species and selected 106 widely distributed orthologous genes for phylogenetic analyses, singly and by concatenation. Our results suggest that data sets consisting of single or a small number of concatenated genes have a significant probability of supporting conflicting topologies. By contrast, analyses of the entire data set of concatenated genes yielded a single, fully resolved species tree with maximum support. Comparable results were obtained with a concatenation of a minimum of 20 genes; substantially more genes than commonly used but a small fraction of any genome. These results have important implications for resolving branches of the tree of life.