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Revisiting ancestral polyploidy in plants

Colin Ruprecht, Rolf Lohaus UGent, Kevin Vanneste, Marek Mutwil, Zoran Nikoloski, Yves Van de Peer UGent and Staffan Persson (2017) SCIENCE ADVANCES. 3(7).
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.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
MOLECULAR-CLOCK, EVOLUTION, GENOME, ANGIOSPERMS, ORIGIN, RATES
journal title
SCIENCE ADVANCES
Sci. Adv.
volume
3
issue
7
article number
e1603195
pages
6 pages
Web of Science type
Article
Web of Science id
000411588000004
ISSN
2375-2548
DOI
10.1126/sciadv.1603195
project
Bioinformatics: from nucleotids to networks (N2N)
language
English
UGent publication?
yes
classification
A1
additional info
the first two authors contributed equally to this work
copyright statement
Creative Commons Attribution 4.0 International Public License (CC-BY 4.0)
id
8536573
handle
http://hdl.handle.net/1854/LU-8536573
date created
2017-11-08 12:44:02
date last changed
2017-12-05 09:48:00
@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},
}

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.