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  • Post-doc
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  • Veterinary
  • Visiting Scientist
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  • Deputy Director of National Reference Center
  • Deputy Head of Facility
  • Director of Center
  • Director of Department
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About

Previously controlled bacterial infections can re-emerge due to antibiotic resistance or vaccine escape. Species of pathogenic bacteria comprise a huge amount of genotypic and phenotypic diversity. Our lab is interested in the diversity, evolution and epidemiology of bacterial pathogens and in the links between the genotypic and phenotypic (ecology, colonization, transmission, virulence, antibiotic resistance, immune response) diversity of the strains within particular species. We focus on three pathogens of high public health importance: Klebsiella pneumoniae, which causes various types of infections including urinary tract, respiratory and blood infections; Bordetella pertussis, the agent of whooping cough; and Corynebacterium diphtheriae, the agent of diphtheria. We combine epidemiological surveillance, microbiology, genomics, proteomics, bioinformatics and immunological approaches as well as in-vivo and in-vitro models of infection. We also develop and maintain genomic libraries of bacterial genotypes and strain nomenclatures that facilitate global collaborative surveillance and population biology of bacterial pathogens.

Members

Sylvain Brisse
Head of Structure
Head
Nathalie Armatys
Technician
Edgar Badell-Ocando
Deputy Director of National Reference Center
Valérie Bouchez
Research Engineer
Sylvie Bremont
Technician
Sebastien Bridel
Post-doc
Annick Carmi-Leroy
Technician
Chiara CRESTANI
Project Manager
Sophie Guillot
Deputy Director of National Reference Center
Mélanie Hennart
PhD Student
Annie Landier
Technician
Marta Lourenço
Post-doc
Soraya Matczak
Physician
Isabelle Moulherat
Administrative Staff
Virginie Passet
Technician
Carla Rodrigues
Post-doc
Julie Toubiana
Deputy Director of National Reference Center
Nora Zidane
Research Engineer

Former Members

2000
2000
Name
Position
2017
2019
Marina Barros
Post-doc
2017
2019
Melody Dazas
Technician
2017
2019
Sandra Corre
Research Engineer
2017
2019
Leonardo-Gabriel Panunzi
Post-doc
2017
2019
Juan Sebastián López Fernández
Post-doc
2017
2019
Nadine Pouradier
Technician
2017
2019
Pierre Tonnerre
Post-doc
2017
2019
Pauline Leroux
Graduate Student
2019
2021
Nadia Fernandes Dawson
Post-doc

Courses

10:00
29
Oct 2018
Course

Bacterial strain nomenclatures applied to international epidemiological surveillance: A Theoretical and Hands-on Course

This two-day course will provide participants both theory and hands-on practical exercises on bacterial strain nomenclatures using the core genome MLST concept. Focus will be put on the BIGSdb software tool and database and […]
Biodiversity and Epidemiology of Bacterial Pathogens
Sylvain Brisse
2018-10-29 10:00:00 2018-10-30 17:00:00 Europe/Paris Bacterial strain nomenclatures applied to international epidemiological surveillance: A Theoretical and Hands-on Course This two-day course will provide participants both theory and hands-on practical exercises on bacterial strain nomenclatures using the core genome MLST concept. Focus will be put on the BIGSdb software tool and database and […] 25 Rue du Dr Roux, 75015 Paris, France

Projects

Project
Ongoing
8 Members

The SARA project: Surveillance of Antibiotic Resistance in Africa, an integrative project of the Pasteur Network

Sylvain Brisse (PI)

Antibiotic resistance is one of the most serious threats to global health. The consequences for human health are particularly severe in low-resource countries, and in Africa in particular. The SARA project is funded by […]
Project
Ongoing
8 Members

Oxford Nanopore sequencing for detection and surveillance of pathogens

Sylvain Brisse (PI)

This project intends to share expertise, developments, equipement and bioinformatics tools to apply Oxford Nanopore Technology sequencing to the detection, diagnostic and characterization of pathogens of public health importance. It corresponds to a collaboration […]
Project
Ongoing
3 Members

KlebNet: a One Health network bridging science and surveillance on antimicrobial resistant Klebsiella

Sylvain Brisse (PI)

Join us on Google groups! KlebNET e-mail distribution list on Google groups. Please ask for registration, by explaining your interest in Klebsiella research or surveillance and providing your institution, so that the moderators can […]
Project
Ongoing
8 Members

Bordetella and whooping cough: Population Biology and Vaccination

Sylvain Brisse (PI)

Our research on Bordetella ranges from the population biology and epidemiology of various Bordetella species, including Bordetella pertussis (the major agent of whooping cough), to studies of host-pathogen relationships and immunity. Current research lines […]
Project
Ongoing
6 Members

Diphtheria and Corynebacteria: genomics, evolution and epidemiology

Sylvain Brisse (PI)

Our research on Corynebacterium diphtheriae and related bacterial pathogenic species, including Corynebacterium ulcerans,  aims at defining the diversity, evolution and epidemiology of the agents of diphtheria and related infections. We study human and animal clinical […]
Project
Ongoing
7 Members

Population biology of the bacterial pathogen Klebsiella pneumoniae

Sylvain Brisse (PI)

Klebsiella pneumoniae is one of the most urgent threats to public health given its increasing resistance to antimicrobial agents including carbapenems, considered as last-resort antibiotics.  In this project we aim to understand the ecological, epidemiological and […]
Project
Ongoing
15 Members

Genomic taxonomy of bacterial strains: universal nomenclatures for epidemiology and population biology

Sylvain Brisse (PI)

High-throughput sequencing has revolutionized our abilities to track and characterize novel bacterial strains as they emerge and disseminate globally. Genome-based epidemiological typing systems provide ultimate resolution for strain discrimination. Genome sequences may also be […]
Project
Ongoing
3 Members

Bioinformatics of genome sequencing applied to epidemiological surveillance of infectious agents

Sylvain Brisse (PI)

The Institut Pasteur has voluminous activities of microbial strain characterisation, in the context of epidemiological surveillance, biological resource centres collections management, and research. These activities involve National Reference Centers, WHO-collaborative centers, biological resources centers […]

Transversal Project

Emerging Infectious Diseases

Ever since its very early days, the Institut Pasteur has been committed to tackling emerging infections, and its work has left an extraordinary legacy. Many emerging infectious diseases are zoonoses, in which an animal […]

Antimicrobial resistance

Antimicrobial resistance is dramatically increasing worldwide and is becoming one of the most urgent public health threats. There is an urgent need for actions to reverse the curve of antimicrobial resistance dissemination and to […]

LabEx IBEID – Integrative Biology of Emerging Infectious Diseases

Presentation The aim of the Integrative Biology of Emerging Infectious Diseases (IBEID) project, coordinated by Professors Philippe Sansonetti and Pascale Cossart, is to develop a structure to anticipate and tackle emerging infectious diseases (EIDs). […]

Software

Software
Ongoing
19 Members

BIGSdb-Pasteur

Sylvain Brisse (PI)

BIGSdb-Pasteur is the genomic-based strain taxonomy and nomenclature platform of Institut Pasteur, powered by the BIGSdb software developed at Oxford University. This web platform hosts collections of curated, open or private databases of bacterial […]
Software
Completed
2 Members

JolyTree

Alexis Criscuolo (PI)

JolyTree implements an alignment-ƒree distance-based procedure ƒor inferring phylogenetic trees ƒrom genome contig sequences. For each pair of genomes, a dissimilarity measure is ƒirst computed and next transƒormed to obtain an estimation oƒ the […]

Fundings

Publications

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Contact

Phone: +33 1 45 68  80 05 E-mail: isabelle.moulherat@pasteur.fr Address 25-28 Rue du Docteur Roux 75015, Paris France