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A well-constrained estimate for the timing of the salmonid whole genome duplication reveals major decoupling from species diversification

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20132881.full.pdf (749.0Kb)
Date
07/03/2014
Author
MacQueen, Daniel John
Johnston, Ian Alistair
Keywords
Whole genome duplication (WGD)
Species diversification
Salmonid fish
Climate change
Evolution
Anadromy
QH301 Biology
BDC
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Abstract
Whole genome duplication (WGD) is often considered to be mechanistically associated with species diversification. Such ideas have been anecdotally attached to a WGD at the stem of the salmonid fish family, but remain untested. Here, we characterized an extensive set of gene paralogues retained from the salmonid WGD, in species covering the major lineages (subfamilies Salmoninae, Thymallinae and Coregoninae). By combining the data in calibrated relaxed molecular clock analyses, we provide the first well-constrained and direct estimate for the timing of the salmonid WGD. Our results suggest that the event occurred no later in time than 88 Ma and that 40–50 Myr passed subsequently until the subfamilies diverged. We also recovered a Thymallinae–Coregoninae sister relationship with maximal support. Comparative phylogenetic tests demonstrated that salmonid diversification patterns are closely allied in time with the continuous climatic cooling that followed the Eocene–Oligocene transition, with the highest diversification rates coinciding with recent ice ages. Further tests revealed considerably higher speciation rates in lineages that evolved anadromy—the physiological capacity to migrate between fresh and seawater—than in sister groups that retained the ancestral state of freshwater residency. Anadromy, which probably evolved in response to climatic cooling, is an established catalyst of genetic isolation, particularly during environmental perturbations (for example, glaciation cycles). We thus conclude that climate-linked ecophysiological factors, rather than WGD, were the primary drivers of salmonid diversification.
Citation
MacQueen , D J & Johnston , I A 2014 , ' A well-constrained estimate for the timing of the salmonid whole genome duplication reveals major decoupling from species diversification ' , Proceedings of the Royal Society B: Biological Sciences , vol. 281 , no. 1778 , 20132881 . https://doi.org/10.1098/rspb.2013.2881
Publication
Proceedings of the Royal Society B: Biological Sciences
Status
Peer reviewed
DOI
https://doi.org/10.1098/rspb.2013.2881
ISSN
0962-8452
Type
Journal article
Rights
Copyright © 2014 The Authors. Published by the Royal Society under the terms of the Creative Commons Attribution License http://creativecommons.org/licenses/by/3.0/, which permits unrestricted use, provided the original author and source are credited.
Description
The study was supported by the Marine Alliance for Science and Technology for Scotland (Scottish Funding Council grant no. HR09011).
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  • University of St Andrews Research
URI
http://hdl.handle.net/10023/4466

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