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Constraining Whole-Genome Duplication Events in Geological Time

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Polyploidy

Part of the book series: Methods in Molecular Biology ((MIMB,volume 2545))

Abstract

The timing of whole-genome duplication (WGD) events is crucial to understanding their role in evolution and underpins many hypotheses linking WGD to increased diversity and complexity. As such, means of estimating the timing of the WGD events relative to their macroevolutionary outcomes are of considerable importance. Molecular clock methods facilitate direct estimation of the absolute timing of WGD events, integrating information on the rate of sequence evolution between species while accommodating the uncertainty inherent to the fossil record. We present an explanation of the best practice for constructing fossil calibrations and estimating the age of WGD events via molecular clock methods in the program MCMCtree, with an example dataset based on a well-characterized WGD event within the flowering dogwoods (Cornus). The approach presented herein allows for the estimation of the age of WGD events and subsequent speciation events, allowing the relationship between WGD and the macroevolutionary outcomes to be explored. In our example, we show that in the case of flowering dogwoods, the WGD event long predates the end-Cretaceous mass extinction and that the two events may be independent.

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Authors and Affiliations

  1. Bristol Palaeobiology Group, School of Biological Sciences, University of Bristol, Bristol, UK

    James W. Clark

  2. Bristol Palaeobiology Group, School of Earth Sciences, University of Bristol, Bristol, UK

    Philip C. J. Donoghue

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  1. James W. Clark
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  2. Philip C. J. Donoghue
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Correspondence to James W. Clark .

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Editors and Affiliations

  1. Department of Plant Biotechnology and Bioinformatics, Ghent University, Ghent, Belgium

    Yves Van de Peer

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Clark, J.W., Donoghue, P.C.J. (2023). Constraining Whole-Genome Duplication Events in Geological Time. In: Van de Peer, Y. (eds) Polyploidy. Methods in Molecular Biology, vol 2545. Humana, New York, NY. https://doi.org/10.1007/978-1-0716-2561-3_7

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  • DOI: https://doi.org/10.1007/978-1-0716-2561-3_7

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  • Publisher Name: Humana, New York, NY

  • Print ISBN: 978-1-0716-2560-6

  • Online ISBN: 978-1-0716-2561-3

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