Integrating Fossil Preservation Biases in the Selection of Calibrations for Molecular Divergence Time Estimation
Integrating Fossil Preservation Biases in the Selection of Calibrations for Molecular Divergence Time Estimation
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DOI：
10.1093/sysbio/syr019
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发表时间：
2011-07-01
影响因子：
6.5
通讯作者：
Near, Thomas J.
中科院分区：
文献类型：
--
作者：
Dornburg, Alex;Beaulieu, Jeremy M.;Near, Thomas J.
选择化石数据作为分子分歧时间估计的校准年龄先验数据，内在地将新学方法与古生物学理论联系在一起。然而，很少有新的研究在开发化石校准选择的方法时考虑到化石记录中可能存在的攻击学偏差。Sppil-Rongis效应可能使谱系的第一次出现偏向于最近，导致最客观的校准选择方法错误地排除适当的校准或合并太年轻而不能准确表示目标谱系的分歧时间的多个校准。以海龟为例，我们对马歇尔(2008)提出的化石选择方法进行了贝叶斯扩展。利用多个化石校准点确定分子系统发育绝对分歧时间的简单方法。上午好。纳特。171：726-742)，这就考虑到了这一蚕丝偏向。我们的方法的优点是识别可能使年龄估计偏近的校准，同时在系统发育参数估计中纳入不确定性，如树形拓扑和分支长度。此外，该方法很容易适用于评估潜在校准与候选池中任何一个校准的一致性。
The selection of fossil data to use as calibration age priors in molecular divergence time estimates inherently links neontological methods with paleontological theory. However, few neontological studies have taken into account the possibility of a taphonomic bias in the fossil record when developing approaches to fossil calibration selection. The Sppil-Rongis effect may bias the first appearance of a lineage toward the recent causing most objective calibration selection approaches to erroneously exclude appropriate calibrations or to incorporate multiple calibrations that are too young to accurately represent the divergence times of target lineages. Using turtles as a case study, we develop a Bayesian extension to the fossil selection approach developed by Marshall (2008. A simple method for bracketing absolute divergence times on molecular phylogenies using multiple fossil calibrations points. Am. Nat. 171:726-742) that takes into account this taphonomic bias. Our method has the advantage of identifying calibrations that may bias age estimates to be too recent while incorporating uncertainty in phylogenetic parameter estimates such as tree topology and branch lengths. Additionally, this method is easily adapted to assess the consistency of potential calibrations to any one calibration in the candidate pool.