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A method for investigating relative timing information on phylogenetic trees

机译:一种研究系统发育相关时间信息的方法   树木

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摘要

In this paper we present a new way to understand the timing of branchingevents in phylogenetic trees. Our method explicitly considers the relativetiming of diversification events between sister clades; as such it iscomplimentary to existing methods using lineages-through-time plots whichconsider diversification in aggregate. The method looks for evidence ofdiversification happening in lineage-specific ``bursts'', or the opposite,where diversification between two clades happens in an unusually regularfashion. In order to be able to distinguish interesting events fromstochasticity, we propose two classes of neutral models on trees with timinginformation and develop a statistical framework for testing these models. Ourmodels substantially generalize both the coalescent with ancestral populationsize variation and the global-rate speciation-extinction models. We end thepaper with several example applications: first, we show that the evolution ofthe Hepatitis C virus appears to proceed in a lineage-specific burstingfashion. Second, we analyze a large tree of ants, demonstrating that a periodof elevated diversification rates does not appear to occurred in a burstingmanner.
机译:在本文中,我们提出了一种新的方式来了解系统发生树中分支事件的时间。我们的方法明确考虑了姐妹进化枝之间多样化事件的相对时机。因此,它是对现有方法的补充,该方法使用了沿袭谱系图,考虑了总体上的多样化。该方法寻找在特定世系的``爆发''中发生多样化的证据,或者相反,其中两个进化枝之间的多样化以异常常规的方式发生。为了能够从随机性中区分出有趣的事件,我们提出了两类具有时序信息的树木中性模型,并开发了用于测试这些模型的统计框架。我们的模型充分概括了具有祖先种群规模变化的合并模型和全局速率物种灭绝模型。我们以几个示例应用程序结束本文:首先,我们显示丙型肝炎病毒的进化似乎是以特定于世系的爆发方式进行的。其次,我们分析了一棵大型蚂蚁树,表明在突发状态下似乎并没有出现提高多样化率的时期。

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