POLLET Thomas

Thomas POLLET, PhD
Postdoctoral researcher
MAPIEM laboratory, University of Toulon
Toulon, France
Tel: (+33) 04 94 14 67 19
Email : thomas.pollet@univ-tln.fr
RESEARCH INTERESTS – Aquatic Microbial Community Ecology
Description of the microbial (including bacteria and archaea) community biodiversity,
dynamics and ecology in aquatic ecosystems (benthic and pelagic).
Understanding processes (space, time, environmental conditions, pollutants) shaping aquatic
microbial communities.
Understanding the influence of disturbances (natural and/or anthropogenic) on biodiversity
and ecosystem functioning using microbial communities.
Keywords: Aquatic microbial ecology; Bacteria; Archaea; Dynamics, diversity and driving
factors; Disturbance ecology.
UNIVERSITY EDUCATION AND SCIENTIFIC EXPERIENCE
2015-
:
Postdoctoral researcher
«Influence of antifouling on microbial community diversity and composition
in marine biofilms »
DGA fellowship (Direction générale de la défense, ministère français de la
défense)
MAPIEM laboratory, University of Toulon, Toulon, France
Supervisor: Pr. JF. Briand.
2013-2015 :
Postdoctoral researcher
«Influence of organic enrichments on benthic microbial communities and
microbial ecology of benthic nitrous oxide production»
RAQ-FONCER fellowship (Natural Sciences and Engineering Research
Council of Canada)
Marine science institute, University of Quebec at Rimouski, Canada
Supervisors: Pr. P. Archambault (UQAR)- Dr. CW McKindsey (MPO).
2014-2015: Collaboration with the Marine and Environmental biology
department, University of Southern California, USA. Co-supervisor: Pr. W.
Ziebis (USC).
2012-2013 :
Postdoctoral researcher
« Natural bioremediation of atrazine (and derivatives) by indigenous
environmental bacterial strains isolated from sediments»
Marine science institute, University of Quebec at Rimouski, CANADA
Supervisor : Pr. Karine Lemarchand
2007- 2011 :
PhD (April 26, 2011): Aquatic Microbial Ecology
Dynamics and diversity of Planctomycetes in lakes: a case study to better
understand the ecology of the rare microbial phyla in aquatic ecosystems..
INRA-UMR CARRTEL (Thonon-les-Bains), Savoie University (France)
Supervisors: Dr. Rémy Tadonléké, Dr. Humbert Jean-François
2006-2007 :
Research assistant
Prokaryotic aminopeptidase activity along a continuous salinity gradient in a
hypersaline coastal lagoon (the Coorong, South Australia).
Flinders University, Adelaide, Australia.
Supervisor: Pr. Laurent Seuront
2004-2006 :
Master degree in Oceanography
Speciality Oceanography.
Lille University (France).
ADDITIONAL EDUCATION
November 2007 : Molecular biology course (INRA, Rennes, France)
February 2014 : MOTHUR course (IBIS-Laval University, Quebec, CANADA)
COMMUNICATIONS
 Published articles
Pollet T, Cloutier O, Nozais C, Mc Kindsey C and Archambault P. (2015). Metabolic activity
and functional diversity changes in sediment bacterial communities organically
enriched with mussel biodeposits. PlosOne. 10(4): doi:10.1371/journal.pone.
0123681
Pollet T, Humbert JF and Tadonléké RD. (2014). Planctomycetes in lakes: poor or strong
competitors for phosphorus? Applied and Environmental Microbiology. 80:819-828
Berdjeb L*, Pollet T*, Chardon C and Jacquet S. (2013) Spatio-temporal changes in the
structure of archaeal communities in two deep freshwater lakes. FEMS
Microbiology Ecology. 86:215-230.* These authors contributed equally to this
work
Pollet T, Tadonléké RD and Humbert JF. (2011). Spatiotemporal changes in the structure and
composition of a less abundant bacterial phylum (Planctomycetes) in two peri-alpine
lakes. Applied and Environmental Microbiology. 77:4811-4821
Pollet T, Tadonléké RD and Humbert JF. (2011). Comparison of primer sets for the study of
Planctomycetes communities in lentic freshwater ecosystems. Environmental
Microbiology Reports. 3:254-261
Berdjeb L, Pollet T, Domaizon I, Jacquet S. (2011). Effect of grazers and viruses on bacterial
community structure and production in two contrasting trophic lakes. BMC
Microbiology. 11: 88
Pollet T, Schapira M, Buscot MJ, Leterme SC, Mitchell JG and Seuront L. (2010). Prokaryotic
aminopeptidase activity along a continuous salinity gradient in a hypersaline coastal
lagoon (the Coorong, South Australia). Aquatic Biosystems. 6:5
Schapira M, Buscot MJ, Pollet T, Leterme SC and Seuront L. (2010). Distribution of
picophytoplankton communities from brackish to hypersaline waters in a South
Australian coastal lagoon. Aquatic Biosystems. 6:2
Leterme SC, Ellis AV, Mitchell JG, Buscot MJ, Pollet T, Schapira M and Seuront L. (2010).
Morphological flexibility of Cocconeis placentula (Bacillariophyceae) nanostructure
to changing salinity levels. Journal of Phycology. 46: 715-719
Schapira M, Pollet T, Mitchell JG and Seuront L. (2009). Respiration rates in marine
heterotrophic bacteria relate to the cytometric characteristics of bacterioplankton
communities. Journal of Marine Biological Association of the United Kingdom.
89(6): 1161-1169
Schapira M, Buscot MJ, Leterme SC, Pollet T, Chapperon C and Seuront L. (2009).
Distribution of heterotrophic bacteria and Virus-Like Particles along a salinity
gradient in a hypersaline coastal lagoon. Aquatic Microbial Ecology. 54(2): 171-183
 Submitted articles or in prep
Tadonléké RD, Pollet T, Van Rijswik P, Leberre B and Middelburg JJ. Effects of oxygen
loss on carbon processing and bacterioplankton from an estuarine ecosystem.
Journal of Plankton research. Submitted.
Pollet T, Cloutier O, Nozais C, Mc Kindsey C and Archambault P. Let’s do not neglect the
“cumulative” intensity in disturbance ecology. Nature communications. In prep
Pollet T*, Berdjeb L*, Chardon C, Jacquet S. Seasonal and vertical distribution of ammoniaoxidizing archaeal communities in two peri-alpine lakes. *These authors
contributed equally to this work. In prep.
 Scientific reports
Pollet T, Lemarchand K. (2013). Natural bioremediation of atrazine (and derivatives) by
indigenous environmental bacterial strains isolated from sediments. Scientific
report to Sani-Marc Inc. company. 40p.
 Book chapters
Lemarchand K, Pollet T, Lessard V and Badri A. (2014). Preparation of nucleic acids from
marine samples: application to microbial analyses. Springer. *All the authors
contributed equally to this work. In press.
 Popular articles
Allaoui A, Pollet T, Roland J. (2009). Quel équilibre entre cours magistral et travaux dirigés
pour un enseignement scientifique efficace ? Rapport CIES Grenoble (France). *All
the authors contributed equally to this work. http://www-cies.ujfgrenoble.fr/publications/articles0809/articleO_2009.pdf.
 Talks (the name of the person who presented is underlined)
Pollet T, Cloutier O, Nozais C, Mc Kindsey C and Archambault P. Let’s not neglect the
“cumulative intensity” in disturbance ecology. Resources aquatiques Quebec meeting.
November. 13-14, 2014. Quebec, Canada.
Pollet T, Cloutier O, Nozais C, Mc Kindsey C and Archambault P. Influence of disturbance
regimes on the metabolic activity and diversity of benthic bacterial communities. Ecological
Society of America meeting. August 10-15, 2014. Sacramento, USA.
Pollet T, Cloutier O, Nozais C, Mc Kindsey C and Archambault P. Influence of mytiliculture
on the metabolic activity of benthic bacterial communities. Ressources Aquatiques Quebec
meeting. November 20-21, 2013. Rimouski, Canada.
Tadonléké RD, Pollet T, Van Rijswik P, Leberre B and Middelburg JJ. Effects of strong
oxygen depletion on bacterial composition and phosphorus dynamics. ISME Meeting August
19-24, 2012. Copenhagen, Denmark.
Pollet T, Tadonléké RD, Humbert JF. Dynamics and diversity of Planctomycetes in lakes: a
case study to better understand the ecology of the rare microbial phyla in aquatic ecosystems.
Invited conference speaker. University of Montreal. December 19, 2011. Montreal, Canada.
Pollet T, Tadonléké RD, Humbert JF. What about the dynamics and the diversity of nondominant bacterial communities in freshwater ecosystems? A study on Planctomycetes in
peri-alpine lakes. Journées Internationales de Limnologie, October 5-8, 2010. Thonon les
Bains, France.
Pollet T, Tadonléké RD, Humbert JF. Test of some Planctomycetes specific primer sets and
comparative analysis of the Planctomycetes composition in four lakes with differing trophic
status. Séminaire station d’hydrobiologie lacustre. January, 2009. Thonon-les-Bains, France.
 Posters
Berdjeb L, Pollet T, Chardon C and Jacquet S. Spatio-temporal changes in the structure and
composition of archaeal communities in two large and deep freshwater lakes. SAME13.
September 8-13, 2013. Stresa, Italie.
Pollet T, Tadonléké RD, Humbert JF. Comparaison de l’efficacité et de la spécificité de trois
couples d’amorces à PCR pour l’étude des Planctomycetes en milieu lacustre. Congrès AFEM
August 30- September 2, 2009. Lyon, France.
Pollet T, Tadonléké RD, Humbert JF. Test of some Planctomycetes specific primer sets and
comparative analysis of the Planctomycetes composition in four lakes with differing trophic
status. ASLO Aquatic Meeting January 25-30, 2009. Nice, France.
Pollet T, Tadonléké RD, Humbert JF. Les Planctomycetes en milieu lacustre : distribution,
facteurs de contrôle et implication dans le cycle de l’azote. Colloque réseaux trophiques
aquatiques, CNRS-GDR 2476 November 29-30, 2007. Montpellier, France.
Seuront L, Schapira M, Doubell MJ, Pollet T, Paterson JS and Mitchell JG. Turbulence rerevisited: intermittency and marine ecosystems structure and function “Turbulence and the
marine ecosystem” 39th Liège Colloquium “Marine Turbulence Re-Revisited”, May 7-11,
2007, Liège, Belgique.
SKILLS
 Bacterial and archaeal communities
Bacterial cultures:
 Isolation, culturing and conservation
Abundances:
 Flow cytometry
 Epifluoresceence microscopy (DAPI, FISH, CARD-FISH)
 Quantitative PCR
Production:
 3H-leucine incorporation
Bacterial enzymatic activities:
 Aminopeptidase activity
Genetic diversity and composition:
 DNA extraction and purification
 PCR amplifications
 Fingerprinting approaches (i.e. DGGE)
 Cloning-sequencing
 High throughput sequencing
 Phylogeny
Metabolic activities and functional diversity
 Ecoplates, Biolog
 Sediment geochemistry
 Micro-sensors: nitrous oxide, oxygen, redox potential.
 Statistical analysis
 Univariates, multivariates
 Software
 Diversity, phylogeny, bioinformatics softwares: Mothur, BioEdit, Genedoc, Gelcompare II, MEGA
 General softwares: Word, Excel, Powerpoint
 Statistical softwars : Statistica, Past, XLstat, Primer
TEACHING EXPERIENCE
2007- 2010 :
Teaching assistant (196h)
Aquatic ecology
Centre of superior teaching initiation (Grenoble, France)
Savoie University, Bourget du lac (France)
HONORS AND AWARDS
2007-2010 : MENRT scholarship from the French Ministry of Education and Research:
PhD scholarship
2013-2015 : RAQ-FONCER : (Natural Sciences and Engineering Research Council of
Canada) : Merit postdoctoral fellowship.
SUPERVISION
Olivier Cloutier (Licence level), 2013: supervisor : Philippe Archambault,
co-supervisor : Thomas Pollet
PROFESSIONAL AFFILIATIONS
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International Society for Microbial Ecology (ISME)
Association for the Sciences of Limnology and Oceanography (ASLO)
Ressources Aquatiques Quebec (RAQ)
Association Francophone d’Ecologie Microbienne (AFEM)
Association Française de Limnologie
OTHERS
2008-2010: - representative of PhD students at INRA-UMR CARRTEL
2008-2010: - Organizer of the annual PhD student meeting at INRA-UMR CARRTEL
REFERENCES
Dr TADONLEKE R: INRA, Thonon-les-Bains (France). tadonlek@thonon.inra.fr
Dr HUMBERT JF: Ecole normale supérieure-BIOEMCO, Paris. humbert@biologie.ens.fr
Pr SEURONT L : Flinders University, Adelaide (Australia). laurent.seuront@flinders.edu.au
Pr ARCHAMBAULT P : ISMER, Rimouski (Canada). philippe_archambault@uqar.ca
Dr JACQUET S : INRA, Thonon-les-Bains (France). Stephan.jacquet@thonon.inra.fr