Postdoctoral scientist


Phone: (34) 93 230 95 00

Jean-François Mangot

I am particularly interested in the ecology and evolution of protists in aquatic environments, with a specific focus on the heterotrophic flagellate communities. My main research lines are focused on understanding the patterns of temporal and spatial variation of these microbes in freshwater, coastal and marine systems and exploring the role of these unpigmented protists in aquatic food webs as bacterial grazers, nutrient remineralizers or parasites.

I completed my PhD at the University of Grenoble (France) in October 2011, working on the diversity and spatio-temporal dynamics of lacustrine eukaryotic picoplankton. Later on, I did a 16-months postdoctoral stay at the University of Oslo (Department of Biosciences, IBV, Norway) from 2012 to 2014, where I started up and developed a new project (NFR grant, Norway) on an unknown eukaryotic parasite of marine fish called “X-cell”. In 2014, I moved to Barcelona (Spain), to the department of Marine Biology and Oceanography of the Institut de Ciències del Mar (ICM, CSIC) with a Marie Curie Fellowship (PF7 grant, EU) to work with the dynamics and functional significance of uncultured marine protists. In this project, I aimed to pursue the acquisition of knowledge about the dynamics of abundance and functional role of one of the most important lineages of the small protist community, the marine stramenopiles (MASTs) through their quantification at largest spatial scales using a newly optimized automatic cell counting approach and the first acquisition of genomes of these uncultured taxa using single-cell genomics (SCG). More recently, as contractual researcher (MINECO grant, Spain) at the ICM (CSIC) from 2016 to 2017, I investigated the potential of SCG to provide new in situ insights of culture-independent microbial interactions by revealing putative viral-host associations within protist community.


Constant abundances of ubiquitous uncultured protists in the open sea assessed by automated microscopy . (2018)

J-F.Mangot, I. Forn, A. Obiol and R. Massana

Environmental Microbiology20(10):3876-3889. DOI: 10.1111/1462‐2920.14408

Single-cell genomics of multiple uncultured stramenopiles reveals underestimated functional diversity across oceans. (2018)

M. Y. Seeleuthner, S. Mondy, V. Lombard, Q. Carradec, E. Pelletier, M. Wessner, J. Leconte, J-F. Mangot, J. Poulain, K. Labadie, R. Logares, S. Sunagawa, V. de Berardinis, M. Salanoubat, C. Dimier, S. Kandels-Lewis, M. Picheral, S. Searson, Tara Oceans Coordinators, N. Poulton, R. Stepanauskas, P. Bork, C. Bowler, D. Iudicone, R. Massana, J-M. Aury, B. Henrissat, E. Karsenti, O. Jaillon, M. Sieracki, C. de Vargas and P.Wincker

Nature Communications, 9:310 DOI:10.1038/s41467-017-02235-3

X-cells are globally distributed, genetically divergent fish parasites related to Perkinsids and Dinoflagellates. (2017)

M.A. Freeman, J. Fuss, Á. Kristmundsson, M.F.M. Bjorbækmo, J-F. Mangot, J. del Campo, P.J. Keeling, K. Shalchian-Tabrizi and D. Bass

Current Biology, 27(11), 1645-1651.e3. DOI:10.1016/j.cub.2017.04.045

Accessing the genomic information of unculturable oceanic picoeukaryotes by combining multiple single cells. (2017)

J-F. Mangot, R. Logares, P. Sanchez, F. Latorre, Y. Seeleuthner, S. Mondy, M.E., Sieracki, O. Jaillon, P. Wincker, C. de Vargas and R. Massana

Scientific Reports, 7, 41498. DOI:10.1038/srep41498

Geographic distance and ecosystem size determine the distribution of smallest protists in lacustrine ecosystems. (2013)

C. Lepère, I. Domaizon, N. Taïb, J-F. Mangot, G. Bronner, D. Boucher and D. Debroas

FEMS Microbiology Ecology 85(1), 85-94. DOI: 10.1111/1574-6941.12100

Phylogenetic affiliation of SSU rRNA genes generated by massively parallel sequencing, new insights into the freshwater protist diversity. (2013)

N. Taïb, J-F. Mangot, I. Domaizon, G. Bronner and D. Debroas

PloS One, 8(3), e58950 .DOI:10.1371/journal.pone.0058950

Short-term dynamics of diversity patterns, evidence of continual reassembly within lacustrine small eukaryotes. (2013)

J-F. Mangot, I. Domaizon, N. Taïb, N. Marouni, E. Duffaud, G. Bronner and D. Debroas

Environmental Microbiology 15(6), 1745-1758. DOI:10.1111/1462-2920.12065

Perkinsozoa, a well-known marine protozoan flagellate parasite group newly identified in lacustrine systems: a review. (2011)

J-F. Mangot, D. Debroas and I. Domaizon, In Disregarded microbial diversity and ecological potentials in aquatic systems, T. Sime-Ngando & N. Niquil (eds)

Springer, New Yorkpp. 37-48. DOI:10.1007/s10750-010-0268-x

Vertical distribution of small eukaryote diversity in lakes, a quantitative approach. (2010)

C. Lepère, S. Masquelier, J-F. Mangot, D. Debroas and I. Domaizon

The ISME Journal, 4, 1509-1519. DOI:10.1038/ismej.2010.83

Community structure and dynamics of small eukaryotes (< 5 μm) targeted by new oligonucleotide probes, a new insight into the lacustrine microbial food web. (2009)

J-F. Mangot, C. Lepère, C. Bouvier, D. Debroas and I. Domaizon

Applied and Environmental Microbiology 75,6373-6381. DOI:10.1128/AEM.00607-09


MEFISTO – Impact of viruses on marine microbial assemblages using virus-host models and metagenomics.

Funding entity: Spanish ministry of Economy and Competitiveness (MINECO)

Start: 01/01/2014

End: 31/12/2017

DYGEMAST – Dynamics, genomics and functional significance of uncultured marine Stramenopiles.

Funding entity: Marie Curie Actions: Intra-European Fellowships (FP7-PEOPLE-2012-IEF)

Start: 01/04/2014

End: 31/03/2016

X-CELL- X-cell parasites: an emerging threat to marine fish.

Funding entity: HAVKYST Program of the Research Council of Norway (NFR)

Start: 01/12/2012

End: 31/11/2015

PARAPHY – Importance of eukaryotic and viral parasites in planktonic food webs.

Funding entity: “Cible” Program

Start: 01/10/2007

End: 30/09/2010

Diversity and role of eukaryotic parasites in lacustrine systems.

Funding entity:INSU EC2CO program

Start: 01/10/2006

End: 30/09/2009


Cod’s urines constitute a high diverse reservoir of parasites.

Author:Estelle Grønneberg

Supervisors:J-F Mangot, D. Klaveness, J. Fuss

Institution: University of Oslo, Norway

Year: 2016

Protists in the intestinal content of Atlantic cod (Gadus morhua L.), with special emphasis on two parasite groups; the X-cell and Mesomycetozoa.

Author: Torbjørn Gylt

Supervisors:J-F Mangot, D. Klaveness, J. Fuss

Institution: University of Oslo, Norway

Year: 2015


Protist diversity across a marine-freshwater gradient with a special focus on the X-cell parasite.

Author: Arthur Alexander Haraldsen

Supervisors: J-F Mangot, D. Klaveness

Institution:University of Oslo, Norway

Year: 2014


Short-term dynamics of various groups of unicellular heterotrophic eukaryotes in lacustrine systems (< 5 μm).

Author:Nemr Marouni

Supervisors: J-F Mangot, V. Ravet

Institution: Blaise Pascal University of Clermont-Ferrand, France

Year: 2010