After a PhD in Microbiology on bacterial toxin-antitoxin systems at the Free University of Brussels, I joined the Institut Pasteur for a 3 years postdoc in Eduardo Rocha’s lab. During this period, I performed comparative genomics and pylogenetic analysis on bacterial conjugation and type IV secretion systems. Then, I worked 2 years in Olivier Tenaillon’s team on the modelling and evolution of organismal complexity. I joined the HUB in 2015, and I am involved in phylogenetic and comparative genomics projects.
Introduction à la phylogénie moléculaire
Ce cours d’introduction à la phylogénie a pour objectif d’apporter les connaissances théoriques et les bonnes pratiques d’analyse de données par les logiciels de phylogénie. Il est ouvert aux formations doctorales et aux professionnels […]
INTRODUCTION À LA PHYLOGÉNIE MOLÉCULAIRE : CONCEPTS, METHODES ET OUTILS
Nous proposons une formation classique à la phylogénie moléculaire avec des cours théoriques portant sur les trois méthodes de construction d’arbres phylogénétiques : distance, parcimonie et maximum de vraisemblance. Nous expliquerons les concepts généraux […]
C3BI Course: Introduction to Molecular Phylogenetics – Hong Kong 2018
General Information: This introductory course aims to give the basic theoretical and practical concepts, best practices, and software necessary to start working on molecular phylogenetics and its applications to epidemiology. The course will have […]
Evolutionary relationships between giant viruses and eukaryotes
Project context and summary : The phylogenetic position and status of “giant viruses”, formerly called NucleoCytoplasmic Large DNA viruses (NCLDV) or putative order Megavirales, are controversial. Many preliminary phylogenetic analyses have been published, but […]
ANR TransLeish – Discovery of druggable protein kinases in the protozoan parasite Leishmania donovani using hit compounds identified by phenotypic screening
The protozoan parasite Leishmania donovani causes fatal visceral leishmaniasis, one of the most neglected tropical diseases. In the absence of economic incentive, serious Research and Development (R&D) investments into anti-leishmanial drug development lack from […]
Genomic databases for bacterial epidemiology, population biology and strain nomenclature
High-throughput sequencing has revolutionized our abilities to track and characterize novel bacterial strains as they emerge and disseminate globally. Genome-based typing systems are being developed to replace or complement classical epidemiological markers and have […]
Bioinformatics developments for whole-genome sequencing of microbial agents for epidemiological surveillance
The PIBnet initiative is a large collaborative program that aims at reinforcing microbial strain collection management and characterization approaches and technologies. It involves National Reference Centers, WHO-collaborative centers, biological resources centers and other microbiological expertise laboratories, together […]
TXSScan – models and profiles for protein secretion systems
Protein secretion systems are key virulence factors of all major bacterial pathogens with an LPS-containing outer membrane: Shigella, Escherichia coli, Yersinia pestis, Salmonella, Pseudomonas aeruginosa, Helicobacter pylori, Vibrio cholerae, etc. Protein secretion systems are […]
ConjDB – a database of conjugative & mobilization systems and T4SS
This website allows to query a dataset of 947 conjugative systems, 646 non-conjugative T4SS and 1,180 mobilization systems retrieved from 2,269 complete genome sequences. These systems were detected with protein profiles of T4SS components, […]
2019Diversification of giant and large eukaryotic dsDNA viruses predated the origin of modern eukaryotes, Proc. Natl. Acad. Sci. U.S.A. 2019 Sep;.
2019Role of a patatin-like phospholipase in gametogenesis and malaria transmission, Proc. Natl. Acad. Sci. U.S.A. 2019 Aug;116(35):17498-17508.
2019Simulation data for the estimation of numerical constants for approximating pairwise evolutionary distances between amino acid sequences, Data Brief 25:104212.
2019Genus-wide Leptospira core genome multilocus sequence typing for strain taxonomy and global surveillance, PLoS Negl Trop Dis 2019 Apr;13(4):e0007374.
2018Genomic Sequencing of Bordetella pertussis for Epidemiology and Global Surveillance of Whooping Cough, Emerging Infect. Dis. 2018 Jun;24(6):988-994.
2017Proteome remodelling by the stress sigma factor RpoS/σ in Salmonella: identification of small proteins and evidence for post-transcriptional regulation, Sci Rep 2017 May;7(1):2127.
2016Identification of protein secretion systems in bacterial genomes, Scientific Reports 6, 23080 (2016).
2016Genome Analysis of Kingella kingae Strain KWG1 Reveals How a β-Lactamase Gene Inserted in the Chromosome of This Species, Antimicrob. Agents Chemother. 2015;60(1):703-8.
2015Eco-Evolutionary Dynamics of Episomes among Ecologically Cohesive Bacterial Populations, MBio 2015;6(3):e00552-15.
2014A systematic and functional classification of Streptococcus pyogenes that serves as a new tool for molecular typing and vaccine development, J. Infect. Dis. 2014 Oct;210(8):1325-38.
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