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Revisiting ancestral polyploidy in plants

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Bioinformatics: from nucleotids to networks (N2N)
Abstract
Whole-genome duplications (WGDs) or polyploidy events have been studied extensively in plants. In a now widely cited paper, Jiao et al. presented evidence for two ancient, ancestral plant WGDs predating the origin of flowering and seed plants, respectively. This finding was based primarily on a bimodal age distribution of gene duplication events obtained from molecular dating of almost 800 phylogenetic gene trees. We reanalyzed the phylogenomic data of Jiao et al. and found that the strong bimodality of the age distribution may be the result of technical and methodological issues and may hence not be a "true" signal of two WGD events. By using a state-of-the-art molecular dating algorithm, we demonstrate that the reported bimodal age distribution is not robust and should be interpreted with caution. Thus, there exists little evidence for two ancient WGDs in plants from phylogenomic dating.
Keywords
MOLECULAR-CLOCK, EVOLUTION, GENOME, ANGIOSPERMS, ORIGIN, RATES

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Please use this url to cite or link to this publication:

Chicago
Ruprecht, Colin, Rolf Lohaus, Kevin Vanneste, Marek Mutwil, Zoran Nikoloski, Yves Van de Peer, and Staffan Persson. 2017. “Revisiting Ancestral Polyploidy in Plants.” Science Advances 3 (7).
APA
Ruprecht, C., Lohaus, R., Vanneste, K., Mutwil, M., Nikoloski, Z., Van de Peer, Y., & Persson, S. (2017). Revisiting ancestral polyploidy in plants. SCIENCE ADVANCES, 3(7).
Vancouver
1.
Ruprecht C, Lohaus R, Vanneste K, Mutwil M, Nikoloski Z, Van de Peer Y, et al. Revisiting ancestral polyploidy in plants. SCIENCE ADVANCES. 2017;3(7).
MLA
Ruprecht, Colin, Rolf Lohaus, Kevin Vanneste, et al. “Revisiting Ancestral Polyploidy in Plants.” SCIENCE ADVANCES 3.7 (2017): n. pag. Print.
@article{8536573,
  abstract     = {Whole-genome duplications (WGDs) or polyploidy events have been studied extensively in plants. In a now widely cited paper, Jiao et al. presented evidence for two ancient, ancestral plant WGDs predating the origin of flowering and seed plants, respectively. This finding was based primarily on a bimodal age distribution of gene duplication events obtained from molecular dating of almost 800 phylogenetic gene trees. We reanalyzed the phylogenomic data of Jiao et al. and found that the strong bimodality of the age distribution may be the result of technical and methodological issues and may hence not be a {\textacutedbl}true{\textacutedbl} signal of two WGD events. By using a state-of-the-art molecular dating algorithm, we demonstrate that the reported bimodal age distribution is not robust and should be interpreted with caution. Thus, there exists little evidence for two ancient WGDs in plants from phylogenomic dating.},
  articleno    = {e1603195},
  author       = {Ruprecht, Colin and Lohaus, Rolf and Vanneste, Kevin and Mutwil, Marek and Nikoloski, Zoran and Van de Peer, Yves and Persson, Staffan},
  issn         = {2375-2548},
  journal      = {SCIENCE ADVANCES},
  keyword      = {MOLECULAR-CLOCK,EVOLUTION,GENOME,ANGIOSPERMS,ORIGIN,RATES},
  language     = {eng},
  number       = {7},
  pages        = {6},
  title        = {Revisiting ancestral polyploidy in plants},
  url          = {http://dx.doi.org/10.1126/sciadv.1603195},
  volume       = {3},
  year         = {2017},
}

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