Literature DB >> 18171158

Caveats on the use of fossil calibrations for molecular dating: a comment on Near et al.

James F Parham1, Randall B Irmis.   

Abstract

We reassess a study on a fossil-calibrated molecular clock that provides a new method for evaluating the accuracy of calibration points. We address several pitfalls that molecular systematists should be aware of when calculating rates of molecular evolution based on fossil calibrations. These caveats involve the substantiation and accurate use of geologic dates, the inappropriate use of fixed calibration points, and the explicit and objective phylogenetic placement of fossil taxa. Paleontological data, like molecular data, should be treated with the utmost rigor.

Mesh:

Year:  2008        PMID: 18171158     DOI: 10.1086/524198

Source DB:  PubMed          Journal:  Am Nat        ISSN: 0003-0147            Impact factor:   3.926


  14 in total

1.  Phylogenetic analysis of pelecaniformes (aves) based on osteological data: implications for waterbird phylogeny and fossil calibration studies.

Authors:  Nathan D Smith
Journal:  PLoS One       Date:  2010-10-14       Impact factor: 3.240

2.  Calibrating the Tree of Life: fossils, molecules and evolutionary timescales.

Authors:  Félix Forest
Journal:  Ann Bot       Date:  2009-08-08       Impact factor: 4.357

3.  Synthesizing and databasing fossil calibrations: divergence dating and beyond.

Authors:  Daniel T Ksepka; Michael J Benton; Matthew T Carrano; Maria A Gandolfo; Jason J Head; Elizabeth J Hermsen; Walter G Joyce; Kristin S Lamm; José S L Patané; Matthew J Phillips; P David Polly; Marcel Van Tuinen; Jessica L Ware; Rachel C M Warnock; James F Parham
Journal:  Biol Lett       Date:  2011-04-27       Impact factor: 3.703

Review 4.  On the age of eukaryotes: evaluating evidence from fossils and molecular clocks.

Authors:  Laura Eme; Susan C Sharpe; Matthew W Brown; Andrew J Roger
Journal:  Cold Spring Harb Perspect Biol       Date:  2014-08-01       Impact factor: 10.005

5.  Macroevolutionary patterns in the Aphidini aphids (Hemiptera: Aphididae): diversification, host association, and biogeographic origins.

Authors:  Hyojoong Kim; Seunghwan Lee; Yikweon Jang
Journal:  PLoS One       Date:  2011-09-15       Impact factor: 3.240

6.  Best practices for justifying fossil calibrations.

Authors:  James F Parham; Philip C J Donoghue; Christopher J Bell; Tyler D Calway; Jason J Head; Patricia A Holroyd; Jun G Inoue; Randall B Irmis; Walter G Joyce; Daniel T Ksepka; José S L Patané; Nathan D Smith; James E Tarver; Marcel van Tuinen; Ziheng Yang; Kenneth D Angielczyk; Jenny M Greenwood; Christy A Hipsley; Louis Jacobs; Peter J Makovicky; Johannes Müller; Krister T Smith; Jessica M Theodor; Rachel C M Warnock; Michael J Benton
Journal:  Syst Biol       Date:  2011-11-21       Impact factor: 15.683

7.  Calibration uncertainty in molecular dating analyses: there is no substitute for the prior evaluation of time priors.

Authors:  Rachel C M Warnock; James F Parham; Walter G Joyce; Tyler R Lyson; Philip C J Donoghue
Journal:  Proc Biol Sci       Date:  2015-01-07       Impact factor: 5.349

8.  A simple method for estimating informative node age priors for the fossil calibration of molecular divergence time analyses.

Authors:  Michael D Nowak; Andrew B Smith; Carl Simpson; Derrick J Zwickl
Journal:  PLoS One       Date:  2013-06-05       Impact factor: 3.240

9.  DNA and morphology unite two species and 10 million year old fossils.

Authors:  Simon F K Hills; James S Crampton; Steven A Trewick; Mary Morgan-Richards
Journal:  PLoS One       Date:  2012-12-20       Impact factor: 3.240

10.  A multi-calibrated mitochondrial phylogeny of extant Bovidae (Artiodactyla, Ruminantia) and the importance of the fossil record to systematics.

Authors:  Faysal Bibi
Journal:  BMC Evol Biol       Date:  2013-08-08       Impact factor: 3.260

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