Wilkinson, R.D. orcid.org/0000-0001-7729-7023, Steiper, M.E., Soligo, C. et al. (3 more authors) (2011) Dating Primate Divergences through an Integrated Analysis of Palaeontological and Molecular Data. Systematic Biology, 60 (1). pp. 16-31. ISSN 1063-5157
Abstract
Estimation of divergence times is usually done using either the fossil record or sequence data from modern species. We provide an integrated analysis of palaeontological and molecular data to give estimates of primate divergence times that utilize both sources of information. The number of preserved primate species discovered in the fossil record, along with their geological age distribution, is combined with the number of extant primate species to provide initial estimates of the primate and anthropoid divergence times. This is done by using a stochastic forwards-modeling approach where speciation and fossil preservation and discovery are simulated forward in time. We use the posterior distribution from the fossil analysis as a prior distribution on node ages in a molecular analysis. Sequence data from two genomic regions (CFTR on human chromosome 7 and the CYP7A1 region on chromosome 8) from 15 primate species are used with the birth–death model implemented in mcmctree in PAML to infer the posterior distribution of the ages of 14 nodes in the primate tree. We find that these age estimates are older than previously reported dates for all but one of these nodes. To perform the inference, a new approximate Bayesian computation (ABC) algorithm is introduced, where the structure of the model can be exploited in an ABC-within-Gibbs algorithm to provide a more efficient analysis.
Metadata
Item Type: | Article |
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Authors/Creators: |
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Copyright, Publisher and Additional Information: | © 2010 Oxford University Press, on behalf of the Society of Systematic Biologists. This is an author produced version of a paper subsequently published in Systematic Biology. Uploaded in accordance with the publisher's self-archiving policy. |
Keywords: | Approximate Bayesian computation; molecular phylogeny; palaeontological data; primate divergence |
Dates: |
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Institution: | The University of Sheffield |
Academic Units: | The University of Sheffield > Faculty of Science (Sheffield) > School of Mathematics and Statistics (Sheffield) |
Depositing User: | Symplectic Sheffield |
Date Deposited: | 11 May 2016 09:29 |
Last Modified: | 13 May 2016 18:08 |
Published Version: | http://dx.doi.org/10.1093/sysbio/syq054 |
Status: | Published |
Publisher: | Oxford University Press (OUP): Policy B - Oxford Open Option B |
Refereed: | Yes |
Identification Number: | 10.1093/sysbio/syq054 |
Open Archives Initiative ID (OAI ID): | oai:eprints.whiterose.ac.uk:99544 |