Dr. Guillaume Lentendu

Contact / Address

Dr. Guillaume Lentendu

Department of Soil Ecology
Helmholtz Centre for Environmental Research - UFZ
Theodor-Lieser-Str. 4 | 06120 Halle/Saale

current address:

Laboratory of Soil Biodiversity
University of Neuchâtel
Rue Emile-argand 11
CH-2000 Neuchâtel


+41 32 718 22 61   
+41 32 718 30 01
Guillaume Lentendu

Research interest

  • Microbial cross-kingdom interactions in the rhizosphere
  • Bioinformatic development of amplicon pipeline for microbial diversity meta-barcoding
  • Fertilisation as driver of soil microbial diversity assemblages
  • Intra-specific plant genome variations effects on soil microbial communities
  • Method development for flow cytometry cell sorting of soil uncultured eukaryotic microbes


2020 (1)

2019 (1)

2018 (5)

2017 (2)

2016 (2)

2015 (2)

2014 (1)

2013 (1)

2011 (1)

PhD thesis

My thesis intended to develop methods to facilitate the study of soil eukaryotic microbes as well as to enhance the understanding of their ecological role in the soil food web and nutrient cycles of agroecosystems. A cell extraction method was first developed and evaluated for its quantitative and qualitative ability to recover eukaryotic microbial cells in a particle free suspension. Cells were sorted based on their natural fluorescence by mean of flow cytometry, thus allowing the separation of photo-autotrophic and heterotrophic organisms. Deep molecular characterisation based on a multiple barcoding approach was also applied to assess the long term effect of crop fertilisation on the diversity and community composition of different groups of soil eukaryotic microbes. The comparison between group specific barcodes and a universal eukaryotic barcode further aimed to challenge the accuracy of the latter approach to measure soil microbial eukaryotic diversity. At a final stage, the diversity and community composition of micro-algae and fungi in the sorted cell fractions were compared to their originated soil. Micro-algal and fungal biomarkers associated with the different organic and mineral long term fertilisation treatments were uncovered and their co-occurrence patterns in relation to fertilisation were assessed.

Review activities

Journals: Systematics and Biodiversity, Cytometry Part A, Molecular Ecology, Molecular Ecology Ressources, Scientific Reports

Expertises: microbial diversity, NGS, meta-barcoding, soil biodiversity

Invited talks

Lentendu G. (2015) High-throughput single cell and molecular methods to analyse soil eukaryotic microbes and their long term changes in response to soil fertilisation, Ecological Symposium, University of Köln, Feb. 14

Lentendu G. (2014) Metagenomics and amplicon sequencing for species and phylogenetic diversity assessment of complex communities, iSEQ workshop, iDiv Leipzig, Nov. 13-14

Lentendu G. (2013) Effect of long term differential fertilization on the soil microbial eukaryotic community, Laboratoire Ampère, Ecole Centrale de Lyon, Oct. 14

Lentendu G. (2013) Effect of long term differential fertilization on the soil microbial eukaryotic community, Molecular Systematics Group, University of Geneva, Oct 15

Congress contributions


Submission of raw amplicon sequences and their associated metadata to Short Read Archives databases, UFZ Soil Ecology bioinformatic courses, Halle/Salle, Germany, Jan. 2015

Introduction to unix bash language, OBITools and virtual In silico PCR, UFZ Soil Ecology bioninformatic courses, Halle/Salle - Germany, June 2011


since 2015

PostDoc at the Department of Soil Ecology – UFZ Halle

Mar. 2010 - Dec. 2014

PhD Student at the Department of Soil Ecology – UFZ, the Plant Physiology Laboratory – University of Leipzig, and the Molecular Evolution & Animal Systematic Laboratory – University of Leipzig

Jan. 2009 - Feb. 2010

MSc. thesis and assistantship in microbial ecology: “Use of new molecular and statistical tools to improve estimation of soil microbial diversity”

June 2008

Field internship : determination of birth pick of izard (Rupicapra pyrenaica) in the RNCFS of Orlu (French Pyrenees)

Feb. 2008 - Apr. 2008

Research internship: « Inferring historical evolution of male macaque populations with SNPs », in the laboratory Evolution et Diversité Biologique (EDB) in Toulouse

Sep. 2007 - Dec. 2008

Master of science courses in ecology, evolution and biodiversity at the Toulouse 3 University, faculty of biology

Sep. 2006 - Jun. 2007

BSc. in organisms, populations and ecosystems biology at the Toulouse 3 University, faculty of biology

Sep. 2004 - Jun. 2006

2 first year of BSc. in biology sciences at the University Paul Verlaine of Metz, faculty of biology/environment