No substitute for real data: phylogenies from birth-death polytomy resolvers should not be used for many downstream comparative analyses
No substitute for real data: phylogenies from birth-death polytomy resolvers should not be used for many downstream comparative analyses
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无法替代真实数据：出生-死亡多态解析器的系统发育不应用于许多下游比较分析
DOI：
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发表时间：
2015
期刊：
影响因子：
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通讯作者：
D. Rabosky
中科院分区：
文献类型：
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作者：
D. Rabosky
系统发育的统计估计总是伴随着不确定性，适应这种不确定性是现代系统发育比较分析的重要组成部分。出生-死亡多项分解器（英语：birth-death polytomy resolver）是一种解释系统发育不确定性的方法，它将缺失的（未采样的）分类单元放在系统发育树上，仅使用分类信息。最近对鸟类和哺乳动物的研究已经使用这种方法来生成在物种水平上完整的系统发育树的伪后验分布，即使在缺乏许多物种的遗传数据的情况下。许多研究人员已经使用这些分布的遗传学下游的进化分析，涉及的表型进化，地理和社区集会的推论。我证明，使用以这种方式构建的遗传学是不合适的许多问题，涉及性状。由于物种被随机放置在树上的性状值，出生-死亡多分割分解器打破了性状系统发育结构的自然模式。基于这些树的推论是可预测的，并且通常会严重偏向于一个方向，这个方向取决于性状中系统发育结构的潜在（真实）模式。我说明了连续和离散性状的现象的严重性，使用的例子从全球鸟类遗传学。
The statistical estimation of phylogenies is always associated with uncertainty, and accommodating this uncertainty is an important component of modern phylogenetic comparative analysis. The birth-death polytomy resolver is a method of accounting for phylogenetic uncertainty that places missing (unsampled) taxa onto phylogenetic trees, using taxonomic information alone. Recent studies of birds and mammals have used this approach to generate pseudo-posterior distributions of phylogenetic trees that are complete at the species level, even in the absence of genetic data for many species. Many researchers have used these distributions of phylogenies for downstream evolutionary analyses that involve inferences on phenotypic evolution, geography, and community assembly. I demonstrate that the use of phylogenies constructed in this fashion is inappropriate for many questions involving traits. Because species are placed on trees at random with respect to trait values, the birth-death polytomy resolver breaks down natural patterns of trait phylogenetic structure. Inferences based on these trees are predictably and often drastically biased in a direction that depends on the underlying (true) pattern of phylogenetic structure in traits. I illustrate the severity of the phenomenon for both continuous and discrete traits using examples from a global bird phylogeny.
影响因子：
64.8
作者：
Jetz, W.;Thomas, G. H.;Mooers, A. O.
通讯作者：
Mooers, A. O.