Dating Tips for Divergence-Time Estimation.

@article{OReilly2015DatingTF,
  title={Dating Tips for Divergence-Time Estimation.},
  author={Joseph E. O’Reilly and Mario dos Reis and Philip C. J. Donoghue},
  journal={Trends in genetics : TIG},
  year={2015},
  volume={31 11},
  pages={
          637-650
        }
}
The evolution of methods for establishing evolutionary timescales
  • P. Donoghue, Ziheng Yang
  • Environmental Science, Geography
    Philosophical Transactions of the Royal Society B: Biological Sciences
  • 2016
TLDR
The utility of time information from fossils in phylogeny estimation and the search for ancestors in the fossil record is discussed, including node-calibrations where lineage divergence times are constrained using probability densities and tip-cal calibrations where fossil species at the tips of the tree are assigned dates from dated rock strata.
Tips and nodes are complementary not competing approaches to the calibration of molecular clocks
TLDR
It is shown that node and tip calibrations are complementary, producing meaningful age estimates, with node minima enforcing realistic ages and fossil tips interacting with node calibrations to objectively define maximum age constraints on clade ages.
Ignoring Fossil Age Uncertainty Leads to Inaccurate Topology and Divergence Time Estimates in Time Calibrated Tree Inference
Time calibrated trees are challenging to estimate for many extinct groups of species due to the incompleteness of the rock and fossil records. Additionally, the precise age of a sample is typically
Bayesian Node Dating based on Probabilities of Fossil Sampling Supports Trans-Atlantic Dispersal of Cichlid Fishes
TLDR
A flexible new approach to Bayesian node dating that combines advantages of traditional node dating and the fossilized birth-death model is developed, and reliable age estimates that are robust to model violation are found.
The impact of fossil stratigraphic ranges on tip‐calibration, and the accuracy and precision of divergence time estimates
The molecular clock provides the only viable means of establishing realistic evolutionary timescales but it remains unclear how best to calibrate divergence time analyses. Calibrations can be applied
Bayesian Phylogenetic Estimation of Clade Ages Supports Trans-Atlantic Dispersal of Cichlid Fishes.
TLDR
This work develops a flexible new approach to Bayesian age estimation that combines advantages of node dating and the FBD model, and defines calibration densities on the basis of first fossil occurrences and sampling rate estimates that can be specified separately for all clades.
Dating placentalia: Morphological clocks fail to close the molecular fossil gap
TLDR
The results suggest that tip calibration may result in estimated dates that are more ancient than those obtained from other sources of data, and that results obtained using tip calibration, and possibly morphological dating more generally, should be treated with caution.
Bayesian Phylogenetic Estimation of Clade Ages Supports Trans‐Atlantic Dispersal of Cichlid Fishes
TLDR
A flexible new approach to Bayesian age estimation that combines advantages of node dating and the FBD model is developed, and calibration densities are defined on the basis of first fossil occurrences and sampling rate estimates that can be specified separately for all clades.
Impacts of Taxon-Sampling Schemes on Bayesian Molecular Dating under the Unresolved Fossilized Birth-Death Process
TLDR
It is found that including all relevant fossils without pruning off those inappropriate for the FBD process can lead to underestimation of divergence times, and the interplay of taxon-sampling density and other factors is highlighted.
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TLDR
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TLDR
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TLDR
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