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Clades, clans, and reciprocal monophyly under neutral evolutionary models

Author

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  • Zhu, Sha
  • Degnan, James H.
  • Steel, Mike

Abstract

The Yule model and the coalescent model are two neutral stochastic models for generating trees in phylogenetics and population genetics, respectively. Although these models are quite different, they lead to identical distributions concerning the probability that pre-specified groups of taxa form monophyletic groups (clades) in the tree. We extend earlier work to derive exact formulae for the probability of finding one or more groups of taxa as clades in a rooted tree, or as ‘clans’ in an unrooted tree. Our findings are relevant for calculating the statistical significance of observed monophyly and reciprocal monophyly in phylogenetics.

Suggested Citation

  • Zhu, Sha & Degnan, James H. & Steel, Mike, 2011. "Clades, clans, and reciprocal monophyly under neutral evolutionary models," Theoretical Population Biology, Elsevier, vol. 79(4), pages 220-227.
    • Handle: RePEc:eee:thpobi:v:79:y:2011:i:4:p:220-227
    DOI: 10.1016/j.tpb.2011.03.002
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    Cited by:

    1. Disanto, Filippo & Wiehe, Thomas, 2020. "Measuring the external branches of a Kingman tree: A discrete approach," Theoretical Population Biology, Elsevier, vol. 134(C), pages 92-105.
    2. Wu, Taoyang & Choi, Kwok Pui, 2016. "On joint subtree distributions under two evolutionary models," Theoretical Population Biology, Elsevier, vol. 108(C), pages 13-23.
    3. Di Nunzio, Antonio & Disanto, Filippo, 2024. "Clade size distribution under neutral evolutionary models," Theoretical Population Biology, Elsevier, vol. 156(C), pages 93-102.
    4. Eldon, Bjarki & Degnan, James H., 2012. "Multiple merger gene genealogies in two species: Monophyly, paraphyly, and polyphyly for two examples of Lambda coalescents," Theoretical Population Biology, Elsevier, vol. 82(2), pages 117-130.

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