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关于在宏观进化研究中使用奥恩斯坦-乌伦贝克模型的警示说明。

A cautionary note on the use of Ornstein Uhlenbeck models in macroevolutionary studies.

作者信息

Cooper Natalie, Thomas Gavin H, Venditti Chris, Meade Andrew, Freckleton Rob P

机构信息

School of Natural SciencesTrinity College DublinDublin 2Ireland; Trinity Centre for Biodiversity ResearchTrinity College DublinDublin 2Ireland; Department of Life SciencesNatural History MuseumCromwell RoadLondonSW7 5BDUK.

Department of Animal and Plant Sciences University of Sheffield Sheffield S10 2TN UK.

出版信息

Biol J Linn Soc Lond. 2016 May;118(1):64-77. doi: 10.1111/bij.12701. Epub 2015 Dec 1.

Abstract

Phylogenetic comparative methods are increasingly used to give new insights into the dynamics of trait evolution in deep time. For continuous traits the core of these methods is a suite of models that attempt to capture evolutionary patterns by extending the Brownian constant variance model. However, the properties of these models are often poorly understood, which can lead to the misinterpretation of results. Here we focus on one of these models - the Ornstein Uhlenbeck (OU) model. We show that the OU model is frequently incorrectly favoured over simpler models when using Likelihood ratio tests, and that many studies fitting this model use datasets that are small and prone to this problem. We also show that very small amounts of error in datasets can have profound effects on the inferences derived from OU models. Our results suggest that simulating fitted models and comparing with empirical results is critical when fitting OU and other extensions of the Brownian model. We conclude by making recommendations for best practice in fitting OU models in phylogenetic comparative analyses, and for interpreting the parameters of the OU model.

摘要

系统发育比较方法越来越多地被用于深入洞察长期性状进化的动态过程。对于连续性状而言,这些方法的核心是一套模型,它们试图通过扩展布朗恒定方差模型来捕捉进化模式。然而,这些模型的性质常常未被充分理解,这可能导致对结果的错误解读。在此,我们聚焦于其中一个模型——奥恩斯坦 - 乌伦贝克(OU)模型。我们表明,在使用似然比检验时,OU模型相较于更简单的模型常常被错误地青睐,而且许多拟合该模型的研究使用的数据集规模较小且容易出现这个问题。我们还表明,数据集中非常少量的误差可能会对从OU模型得出的推断产生深远影响。我们的结果表明,在拟合OU模型以及布朗模型的其他扩展模型时,模拟拟合模型并与实证结果进行比较至关重要。我们通过对系统发育比较分析中拟合OU模型的最佳实践以及解读OU模型参数提出建议来得出结论。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/456d/4949538/5a61bfe70fb5/BIJ-118-64-g001.jpg

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