Charlotte Nef

PostDoc, CNRS, France


  • Microbial ecology

  • Microbial interactions

  • Population genomics

  • Diatoms

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Short BIO

I completed my Ph.D. in 2019 at the IFREMER (French Institute for Marine Research) with a degree from the University of Nantes, during which I focussed on deciphering interactions between B12-dependent microalgae and B12-producing bacteria by using biochemical and molecular-based methods. After this, I decided to challenge myself by joining the IBENS to improve my skills in managing big data originating from the Tara Oceans expeditions. I have a deep interest in studying how marine phytoplankton communities interact and how these interactions are shaped by environmental factors. I currently focus on diatom genomic diversity, particularly of Chaetoceros, the most abundant and cosmopolitan diatom genus in modern ocean. I investigate population connectivity and the effect of environmental factors on genomic differentiation using the metagenomic dataset generated by the Tara Oceans expeditions with a particular focus on the Arctic Ocean.

Besides research, I like to be involved in scientific education. I contributed to different events (Fête de la Science, European Researchers' Night, Scientific Days of Nantes University, "Sea XXL") during which I communicated my enthusiasm to the general public.

Role in AtlantECO

I am an AtlanECO collaborator, not directly funded by it (my work is funded by an ERC project named Diatomic)  and I work within the Tara Oceans consortium. My analyses are relevant for the WP2. My interests are mostly about diatoms (photosynthetic plankton) as I am working on describing patterns of diatom associations with other plankton members using a previously released "Social Network of Plankton" to be able to tell how important diatoms are in plankton communities. I also study diatom population genomics through the analysis of their genomic variants and the correlation between these and environmental factors. I'm mostly using computational-based methods (R and command-line).