Caroline DUBÉ

Post Doctorant
Centre National de la Recherche Scientifique (CNRS)

CRIOBE - Moorea
Laboratoire d’Excellence “CORAIL”
Centre de Recherche Insulaire et Observatoire de l'Environnement (CRIOBE)
BP 1013 Moorea
98729 Polynésie française


Domaines de Recherche:

  • Coral reef ecology
  • Symbiosis
  • Microbiome
  • Phenotypic Plasticity
  • Population genetics and dynamics

Sélection de Publications

  • Dubé CE, Ky CL, Planes S (2019) Microbiome of the black-lipped pearl oyster Pinctada margaritifera, a multi-tissue description with functional profiling. Frontiers in Microbiology, 10:1548.
  • Dubé CE, Boissin E, Maynard JA, Planes S (2017) Fire coral clones demonstrate phenotypic plasticity among reef habitats. Molecular Ecology, 26:3860–3869.
  • Dubé CE, Planes S, Zhou Y, Berteaux-Lecellier V, Boissin E (2017) On the occurrence of intracolonial genotypic variability in highly clonal populations of the hydrocoral Millepora platyphylla at Moorea (French Polynesia). Scientific Reports, 7:14861.
  • Dubé CE, Mercière A, Vermeij MJA, Planes S (2017) Population structure of the hydrocoral Millepora platyphylla in habitats experiencing different flow regimes in Moorea, French Polynesia. PLoS ONE, 12:e0173513.
  • Dubé CE, Planes S, Zhou Y, Berteaux-Lecellier V, Boissin E (2017) Genetic diversity and differentiation in reef-building Millepora species, as revealed by cross-species amplification of novel microsatellite loci. PeerJ, 5:e2936.
  • Dubé CE, Boissin E, Planes S (2016) Overgrowth of living scleractinian corals by the hydrocoral Millepora platyphylla  in Moorea, French Polynesia. Marine Biodiversity, 46:329–330.
  • Dubé CE, Boissin E, Mercière A, Planes S (2018) Dispersal limitations of early life stages and sibling aggregations in a broadcasting Millepora hydrocoral, as revealed by parentage analysis. bioRxiv, 413963.
  • Vermeij MJA, Latijnhouwers KRW, Dilrosun F, Chamberland VF, Dubé CE, van Buurt G, Debrot AO (2019) Historical changes (1905-present) in catch size and composition reflect altering fisheries practices on a small Caribbean island. PLoS ONE, 14:e0217589.
  • Doucet-Beaupré H, Dubé CE, Breton S, Pörtner HO, Blier PU (2010) Thermal sensitivity of metabolic enzymes in subarctic and temperate freshwater mussels (Bivalvia: Uniononida). Journal of Thermal Biology, 35:11–20.
  • Boucher P, Ditlecadet D, Dubé CE, Dufresne F (2010) Unusual duplication of the insulin like receptor in the crustacean Daphnia pulex. BMC Evolutionary Biology10:305.


I originally graduated with a BSc in Marine Sciences from the University of Québec at Rimouski in Canada, with a year abroad studying Tropical Marine Ecology and Ecosystems Management at the University of Antilles and Guyana in Guadeloupe. Following this, I completed an MSc in Development, Interaction and Evolution of the living at the University of Perpignan in France. During this time, I worked at the CARMABI Foundation in Curaçao where I undertook research in coral reef ecology. My research concerned the cascading effects of key reef-builders decline on associated fish and coral communities, in addition to leading another project on the effects of nursery habitats on coral reef fish assemblages and grazing pressure. Afterwards, I moved to French Polynesia and worked at the CRIOBE lab to complete my PhD in Biodiversity, Genetics and Evolution. The overarching goal of my PhD project was to evaluate the benefits of asexual versus sexual reproduction, together with phenotypic plasticity, in the population maintenance of fire corals. After completing my PhD I pursued my research as a Postdoctoral Research Fellow (LabEx CORAIL) at the University of La Réunion with an interest into the functional complexity of microbial communities associated with fire corals. My research concerned the co-variation of host genotypes and microbial communities across reef habitats (in situ). I used metabarcoding techniques to assess whether microbial communities change among clone mates that are naturally exposed to variable environments. In March 2018 I joined the CRIOBE where I pursue my research on the microbiome as a CNRS Postdoctoral Researcher, working on the black-lipped pearl oyster Pinctada margaritifera. I rely on ecological approaches, combined with classical population genetics and genomics, to provide new insights into holobiont structure and function.

Research Interests

Since 1970, the pearl industry of P. margaritifera has become a major economic resource in French Polynesia, producing up to 8000 kg of pearls per year. Pearl farming has dropped considerably over the past decade, mainly due to overproduction at the expense of pearl quality. Although recent studies have investigated the genome, transcriptome and phenome associated with pearl quality in P. margaritifera, there is no information on its microbiome. In this context, my work focus on the bacterial dynamics throughout the grafting process to explore the respective contribution from the donor and recipient oyster genomes to the microbiome structure. This work will also provide the very first description of P. margaritifera-associated bacteria that can then be targeted in functional studies to improve pearl quality.


  • PhD, Biodiversity, Genetics & Evolution, École Pratique des Hautes Études, Paris, France 2016
  • MSc, Development, Interaction & Evolution of the living, University of Perpignan, France 2011
  • BSc, Marine Sciences, University of Québec at Rimouski, Canada 2008

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