Consistency Properties of Species Tree Inference by Minimizing Deep Coalescences
Consistency Properties of Species Tree Inference by Minimizing Deep Coalescences
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DOI：
10.1089/cmb.2010.0102
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发表时间：
2011-01-01
影响因子：
1.7
通讯作者：
Rosenberg, Noah A.
中科院分区：
文献类型：
--
作者：
Than, Cuong V.;Rosenberg, Noah A.
从基因树集合推断物种树的方法需要考虑基因树之间不一致的可能性。假设不一致是由不完整的谱系排序引起的，物种树估计可以通过找到那些使给定基因树集合所需的“深度”聚结事件的数量最小化的物种树来获得。有效的算法，现在存在应用最小化深度聚结（MDC）标准，和模拟实验已经证明了其有前途的性能。然而，从模拟结果中也注意到，MDC标准并不总是保证推断出正确的树种树估计。在这篇文章中，我们调查的一致性的MDC准则。使用multipscies合并模型，我们表明，确实有异常区的MDC标准不对称的四个类群的物种树的拓扑结构，并为所有物种树的拓扑结构与五个或更多的类群。
Methods for inferring species trees from sets of gene trees need to account for the possibility of discordance among the gene trees. Assuming that discordance is caused by incomplete lineage sorting, species tree estimates can be obtained by finding those species trees that minimize the number of "deep'' coalescence events required for a given collection of gene trees. Efficient algorithms now exist for applying the minimizing-deep-coalescence (MDC) criterion, and simulation experiments have demonstrated its promising performance. However, it has also been noted from simulation results that the MDC criterion is not always guaranteed to infer the correct species tree estimate. In this article, we investigate the consistency of the MDC criterion. Using the multipscies coalescent model, we show that there are indeed anomaly zones for the MDC criterion for asymmetric four-taxon species tree topologies, and for all species tree topologies with five or more taxa.