Total-evidence dating under the fossilized birth-death process

Bayesian total-evidence dating involves the simultaneous analysis of morphological data from the fossil record and morphological and sequence data from recent organisms, and it accommodates the uncertainty in the placement of fossils while dating the phylogenetic tree. Due to the flexibility of the Bayesian approach, total-evidence dating can also incorporate additional sources of information. Here, we take advantage of this and expand the analysis to include information about fossilization and sampling processes. Our work is based on the recently described fossilized birth-death (FBD) process, which has been used to model speciation, extinction and fossilization rates that can vary over time in a piecewise manner. So far, sampling of extant and fossil taxa has been assumed to be either complete or uniformly at random, an assumption which is only valid for a minority of datasets. We therefore extend the FBD process to accommodate diversified sampling of extant taxa, which is standard pr...

贝叶斯全证据定年（Bayesian total-evidence dating）通过同时分析来自化石记录的形态学数据，以及现生生物的形态学与序列数据，可在对系统发育树开展定年研究的同时，处理化石在系统发育树上的位置不确定性。得益于贝叶斯方法的灵活性，全证据定年框架还可整合额外的信息来源。本研究充分利用这一特性，将分析范围拓展至涵盖化石化与采样过程的相关信息。本研究基于近期提出的化石化出生-死亡（fossilized birth-death, FBD）过程，该模型可用于模拟可随时间分段变化的物种形成、灭绝及化石化速率。迄今为止，相关研究均假设现生与化石类群的采样为完全采样或均匀随机采样，但这一假设仅适用于少数数据集。为此，本研究对FBD过程进行拓展，以适配现生类群的差异化采样——此类采样模式实为多数研究采用的标准……（原文内容未完整给出）