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Courses

09:00
06
Jun 2016
Course

Workshop: Bacterial RNAseq

We propose a skills training for PhD students on Bacterial RNAseq experiments Using total RNAs, we will i) enrich the mRNAs by depleting the rRNAs ; ii) prepare and sequence cDNA library and iii) analyse […]
Pathogenesis of Bacterial Anaerobes
Biomics
Microbiology
Marc Monot
Isabelle Martin-Verstraete
Olga Soutourina
Bruno Dupuy
Odile Sismeiro
Rachel Legendre
Fabien Mareuil
Olivia Doppelt-Azeroual
2016-06-06 09:00:00 2016-06-10 17:00:00 Europe/Paris Workshop: Bacterial RNAseq We propose a skills training for PhD students on Bacterial RNAseq experiments Using total RNAs, we will i) enrich the mRNAs by depleting the rRNAs ; ii) prepare and sequence cDNA library and iii) analyse […] 28 Rue du Docteur Roux, Paris, France

Projects

project
Ongoing
3 Members

Bacteriophage gene expression by RNA-Seq

Laurent Debarbieux (PI)

Analyses of RNA-Seq data from two related virulent bacteriophages, PAK_P3 and PAK_P4 infecting the bacterium Pseudomonas aeruginosa.
project
Ongoing
5 Members

Prophage elements as a significant source of genetic diversity among epidemic C. difficile 027 strains

Marc Monot (PI)

The capacity to rapidly and accurately identify virulent strains of C. difficile in order to prevent severe and fatal infections remains a major chal- lenge for clinicians and investigators. Also, the evolution of an […]
project
Completed
7 Members

Evolution of the Pathogenicity Locus of C. difficile

Bruno Dupuy (PI)

The major virulence factors of Clostridium difficile are toxins A and B. These toxins are encoded by tcdA and tcdB genes, which form a pathogenicity locus (PaLoc) together with three additional genes that have been […]
project
Completed
4 Members

Role of ncRNAs in C. difficile physiology and regulatory networks

Olga Soutourina (PI)

In bacteria, it is increasingly recognized that ncRNAs play a critical role in adaptive responses and in various metabolic, physiological and pathogenic processes. In Clostridium difficile, by combining in silico analysis, RNAseq and genome-wide […]
project
Completed
5 Members

Biology of anaerobic biofilm formed by C. difficile and their role in the CD infections

Bruno Dupuy (PI)

Biofilms are universal traits of bacteria defined as mixed species communities characterized by high cell density, reduced diffusion and heterogeneous structures. These characteristics induce behaviors and phenotype that are not observed in planktonic microorganisms […]
project
Completed
3 Members

The regulatory network controlling spore formation in Clostridium difficile

Isabelle Martin-Verstraete (PI)

Clostridium difficile, a Gram-positive, anaerobic, spore-forming bacterium, is a major cause of nosocomial infections such as antibiotic-associated diarrhea. Spores are the vector of its transmission and persistence in the environment. Despite the importance of […]
project
Ongoing
3 Members

Comparative genomics clostridium strains involved in necrotizing enterocolitis of the preterm newborn

Julio Aires (PI)

Necrotizing enterocolitis (NEC) is the most common and serious gastrointestinal disorder among preterm neonates. We aimed to assess specific gut microbes associated with NEC. In 2002, an outbreak of NEC occurred in six neonates within […]
project
Completed
8 Members

Characterization of the SigmaS network by RNA sequencing and identification of SigmaS-controlled small regulatory RNAs in Salmonella

Françoise Norel-Bozouklian (PI)

We have used directional RNA-sequencing and complementary assays to explore the SigmaS-dependent transcriptome of Salmonella enterica serovar Typhimurium. This study confirms the large regulatory scope of SigmaS and provides insights into its physiological functions […]
project
Ongoing
3 Members

C. difficile toxin synthesis and secretion

Bruno Dupuy (PI)

The variable spectrum of diseases caused by C. difficile (CD) is correlated for the severe forms to the level of toxins produced during host infection. This strengthened the idea that regulation of toxin synthesis […]
project
Ongoing
5 Members

Global regulation of C. difficile toxin production

Bruno Dupuy (PI)

We elucidated the role of the carbon catabolite repression system (CCR) in the control of CD toxin synthesis and demonstrated that CcpA, the global regulator of the CCR, is a key factor controlling in […]
project
Completed
4 Members

Pathogenomic analysis of high potential virulent strains of C. difficile

Bruno Dupuy (PI)

Clostridium difficile is increasingly associated with infections in hospitals and in the community, and hypervirulent types are emerging. Six research groups from 5 countries undertook this project, aiming to use genomic approaches to study […]
project
Completed
3 Members

C. difficile toxin B detection by real-time PCR

Frederic Barbut (PI)

Rapid detection of toxigenic Clostridium difficile strains is crucial for optimal management of patient with C. difficile infection (CDI). Currently, the « gold standards » for the diagnosis of CDI are the cytotoxicity assay […]

Software

software
Completed
5 Members

PhageTerm

Marc Monot (PI)

Bacteriophages are the most abundant viruses on earth and display an impressive genetic as well as morphologic diversity. Among those, the most common order of phages is the Caudovirales, whose viral particles packages linear […]
software
Completed
3 Members

COV2HTML

Marc Monot (PI)

COV2HTML is an interactive web interface, which is addressed to biologists, and allows performing both coverage visualization and analysis of NGS alignments performed on prokaryotic organisms (bacteria and phages). It combines two processes: a […]

CV

Professional Experiences

Since 2018   Permanent Scientist (Institut Pasteur, Paris, FR)

2016-19        Adjunct Professor (Université de Sherbrooke, Quebec, CA)
Prophage elements as a source of diversity among C. difficile strains
                            Department of microbiology and infectiology

2011-17         Research Engineer (Institut Pasteur, Paris, FR)
Pathogenomic study of increased Clostridium difficile virulence
                            Labo. Pathogenèse des Batéries Anaérobies headed by Dr B. Dupuy
2001-10         Research Technician (Institut Pasteur, Paris, FR)
Construct of a BAC library of Candida glabrata
                            Unité Génétique Moléculaire des levures headed by Pr B. Dujon
Post-genomic analysis of Mycobacterium leprae
                            Unité Génétique Moléculaire Bactérienne headed by Pr S. T. Cole.
Reannotation of the genome sequence of C. difficile
                            Labo. Pathogenèse des Batéries Anaérobies headed by Dr B. Dupuy

1996-97       Quality Technician (Métayer Aromatique Industrie, St Maur, FR)
Control of the organoleptic quality of products

Education/Training
1999              BTS Biochemistry           Ecole National de Biologie            Paris, FR
2000               B.Sc Biochemistry          Preston University                             Preston, UK
2009              MsC Bioinformatic         Université Denis Diderot                 Paris, FR
2013               PhD Microbiologie         Université Denis Diderot                 Paris, FR

Publications

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