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Separate the wheat from the chaff: genomic scan for local adaptation in the red coral Corallium rubrum

M. Pratlong, A. Haguenauer, K. Brener, View ORCID ProfileG. Mitta, E. Toulza, J. Garrabou, N. Bensoussan, View ORCID ProfileP. Pontarotti, View ORCID ProfileD. Aurelle
doi: https://doi.org/10.1101/306456
M. Pratlong
1Aix Marseille Univ, Avignon Université, CNRS, IRD, IMBE, Marseille, France
2Aix Marseille Univ, CNRS, Centrale Marseille, I2M, Marseille, France, Equipe Evolution Biologique et Modélisation, Marseille, France
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  • For correspondence: marine.pratlong@gmail.com didier.aurelle@univ-amu.fr
A. Haguenauer
1Aix Marseille Univ, Avignon Université, CNRS, IRD, IMBE, Marseille, France
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K. Brener
3Perpignan Via Domitia Univ., IHPE UMR 5244, CNRS, IFREMER, Montpellier Univ., Perpignan, France
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G. Mitta
3Perpignan Via Domitia Univ., IHPE UMR 5244, CNRS, IFREMER, Montpellier Univ., Perpignan, France
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  • ORCID record for G. Mitta
E. Toulza
3Perpignan Via Domitia Univ., IHPE UMR 5244, CNRS, IFREMER, Montpellier Univ., Perpignan, France
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J. Garrabou
4Institute of Marine Sciences (ICM-CSIC), Barcelona, 08003, Spain
5Aix Marseille Univ., Université de Toulon, CNRS, IRD, MIO UM 110, 13288, Marseille, France
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N. Bensoussan
6IPSO FACTO, SCOPArl, Pole Océanologie, Marseille, 13001, France
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P. Pontarotti
2Aix Marseille Univ, CNRS, Centrale Marseille, I2M, Marseille, France, Equipe Evolution Biologique et Modélisation, Marseille, France
7Aix Marseille Univ, IRD, APHM, Microbe, Evolution, PHylogénie, Infection IHU Méditerranée Infection, Marseille France
8CNRS
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D. Aurelle
1Aix Marseille Univ, Avignon Université, CNRS, IRD, IMBE, Marseille, France
5Aix Marseille Univ., Université de Toulon, CNRS, IRD, MIO UM 110, 13288, Marseille, France
9Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum national d’Histoire naturelle, CNRS, Sorbonne Université, EPHE, 57 rue Cuvier, 75005 Paris, France
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  • ORCID record for D. Aurelle
  • For correspondence: marine.pratlong@gmail.com didier.aurelle@univ-amu.fr
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ABSTRACT

Genomic data allow an in-depth and renewed study of local adaptation. The red coral (Corallium rubrum, Cnidaria) is a highly genetically structured species and a promising model for the study of adaptive processes along an environmental gradient. Here, we used RAD-Sequencing in order to study the vertical genetic structure of this species and to search for signals of local adaptation to depth and thermal regime in the red coral. Previous studies have shown different thermotolerance levels according to depth in this species which could correspond to genetic or environmental differences. We designed a sampling scheme with six pairs of ‘shallow vs deep’ populations distributed in three geographical regions as replicates. Our results showed significant differentiation among locations and among sites separated by around 20 m depth. The tests of association between genetics and environment allowed the identification of candidate loci under selection but with a potentially high rate of false positive. We discuss the methodological obstacles and biases encountered for the detection of selected loci in such a strongly genetically structured species. On this basis, we also discuss the significance of the candidate loci for local adaptation detected in each geographical region and the evolution of red coral populations along environmental gradients.

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A colony of red coral, Corallium rubrum, near Marseille. Photo: F. Zuberer / OSU Pythéas / CNRS

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Posted December 13, 2018.
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Separate the wheat from the chaff: genomic scan for local adaptation in the red coral Corallium rubrum
M. Pratlong, A. Haguenauer, K. Brener, G. Mitta, E. Toulza, J. Garrabou, N. Bensoussan, P. Pontarotti, D. Aurelle
bioRxiv 306456; doi: https://doi.org/10.1101/306456
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Separate the wheat from the chaff: genomic scan for local adaptation in the red coral Corallium rubrum
M. Pratlong, A. Haguenauer, K. Brener, G. Mitta, E. Toulza, J. Garrabou, N. Bensoussan, P. Pontarotti, D. Aurelle
bioRxiv 306456; doi: https://doi.org/10.1101/306456

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