François-Xavier WEILL
Enteric Bacterial Pathogens Unit
Institut Pasteur 25-28 rue du docteur Roux, 75015 Paris

Research area of the Unit
The “Unité des Bactéries Pathogènes Entériques » (BPE Unit) is a Unit with both Research and Public Health activities. It comprises the French National Reference Center (NRC) for Escherichia coli, Shigella and Salmonella, the NRC for Vibrio and Cholera, and the World Health Organization Collaborating Center for Reference and Research on Salmonella (WHO CC-Salm). The research of the BPE Unit focuses on the biodiversity of enteric bacterial pathogens (population structures of Salmonella, Shiga toxin-producing E. coli, Shigella, and Vibrio, dynamics of particular populations, including those resistant to antibiotics) and on development of new molecular typing or subtyping methods for Public Health purposes.
Contribution to the programme
The BPE Unit will contribute to the present programme by bringing its long-term expertise on enteric bacterial pathogens, such as Salmonella, Shigella, Shiga toxin-producing E. coli and Vibrio. In a context of emergence (foodborne, waterborne or human-to-human outbreaks; bacterial population resistant to antibiotics; bacterial populations with particular virulence traits), for a better characterization of the emerging strain, we will (i) perform molecular and genomic epidemiology, (ii) determine the antimicrobial resistance determinants and (iii) develop molecular tools for rapid identification of the strain of interest. Thanks to the large collection of the BPE Unit (>300,000 strains stored since the 1940s), spatio-temporal evolution of the emerging pathogen could be analyzed in order to get a better understanding of the bacterial key factors involved in this emergence.
References (Maximum 7 major publications over the past 5 years)
1. KE Holt, S Baker, FX Weill, EC Holmes, A Kitchen, J Yu, D J Brown, JE Coia, D Wook Kim, S Young Choi, S Hee Kim, DJ Pickard, JJ Farrar, J Parkhill, G Dougan, NR Thomson. Shigella sonnei genome sequencing and phylogenetic analysis indicate recent global dissemination from Europe. Nat Genet. 2012. online 5 Aug 2012; doi:10.1038/ng.2369. IF=34.3. Cite 1
2. M Achtman*, J Wain*, FX Weill*, S Nair*, Z Zhou, V Sangal, MG Krauland, JL Hale, H Harbottle, A Uesbeck, G Dougan, LH Harrison, S Brisse, and the S. enterica MLST study group. Multilocus sequence typing as a replacement for serotyping in Salmonella enterica.PLoS Pathogens.2012 8(6): e1002776. IF=9,1 (*first authors). Cite 2
3. L Fabre, J Zhang, G Guigon, S Le Hello, V Guibert, M Accou-Demartin, S de Romans, C Lim, C Roux, L Diancourt, S Issenhuth-Jeanjean, M Achtman, S Brisse, C Sola, FX Weill. CRISPR typing and subtyping for improved laboratory surveillance of Salmonella infections. PLoS ONE.2012.7(5): e36995. IF=4,4. Cite 2
4. P Mariani-Kurkdjian, E Bingen, G Gault, N Jourdan-Da Silva, FX Weill. Escherichia coli O104:H4, south-west France, June 2011. Lancet Infect Dis. 2011 ; 11 : 732-733. IF=16.1. Cite 10
5.       M Accou-Demartin, V Gaborieau, Y Song, P Roumagnac, B Marchou, M Achtman, FX Weill. S Le Hello, RS Hendriksen, B Doublet, I Fisher, EM Nielsen, JM Whichard, B Bouchrif, K Fashae, SA Granier, N Jourdan-Da Silva, A Cloeckaert, EJ Threlfall, FJ Angulo, FM Aarestrup, J Wain, FX Weill. International spread of an epidemic population of Salmonella enterica serotype Kentucky ST198 resistant to ciprofloxacin.J Infect Dis.2011 ; 276 : 675-684. IF=6,3. Cite 4
6. KE Holt, J Parkhill, C Mazzoni, P Roumagnac, FX Weill, I Goodhead, R Rance, S Baker, DJ Maskell, J Wain, C Dolecek, M Achtman, G Dougan. High-Throughput sequencing provides insights into genome variation and evolution in Salmonella Typhi. Nat Genet. 2008 ; 40 : 987-993.IF=34.3. Cite 163 P
7. Roumagnac, FX Weill, C Dolecek, S Baker, S Brisse, NT Chinh, TAH Le, CJ Acosta, J Farrar G Dougan, M Achtman.
Evolutionary history of Salmonella Typhi. Science. 2006 ; 314 : 1301-1304. IF=29.7. Cite 110