Use of quantitative molecular diagnostic methods to identify causes of diarrhoea in children: a reanalysis of the GEMS case-control study, Lancet, vol.388, issue.16, p.31529, 2016. ,
Global burden of Shigella infections: implications for vaccine development and implementation of control strategies, Bulletin of the World Health Organization, vol.77, pp.651-666, 1999. ,
Letter: Shigella enteritis venereally transmitted, The New England journal of medicine, vol.291, p.1194, 1974. ,
Clinical infectious diseases: an official publication of the Infectious Diseases Society of America, vol.59, pp.933-941, 2014. ,
Ongoing outbreak of Shigella flexneri serotype 3a in men who have sex with men in England and Wales, data from, Euro surveillance: bulletin europeen sur les maladies transmissibles = European communicable disease bulletin, p.17, 2009. ,
Shigella sonnei genome sequencing and phylogenetic analysis indicate recent global dissemination from Europe, Nature genetics, vol.44, pp.1056-1059, 2012. ,
URL : https://hal.archives-ouvertes.fr/pasteur-01117702
Whole genome sequencing of Shigella sonnei through PulseNet Latin America and Caribbean: advancing global surveillance of foodborne illnesses. Clinical microbiology and infection: the official publication of the European Society of, Clinical Microbiology and Infectious Diseases, 2017. ,
Species-wide whole genome sequencing reveals historical global spread and recent local persistence in Shigella flexneri, Elife, vol.4, 2015. ,
URL : https://hal.archives-ouvertes.fr/pasteur-01419293
Tracking the establishment of local endemic populations of an emergent enteric pathogen, Proceedings of the National Academy of Sciences of the United States of America, vol.110, pp.17522-17527, 2013. ,
Travel-and Community-Based Transmission of Multidrug-Resistant Shigella sonnei Lineage among International Orthodox Jewish Communities, Emerging infectious diseases, vol.22, pp.1545-1553, 2016. ,
URL : https://hal.archives-ouvertes.fr/pasteur-01421099
Introduction and establishment of fluoroquinolone-resistant Shigella sonnei into Bhutan. Microb Genom 1, e000042, 2015. ,
Genomic Portrait of the Evolution and Epidemic Spread of a Recently Emerged Multidrug-Resistant Shigella flexneri Clone in China, Journal of clinical microbiology, vol.52, pp.1119-1126, 2014. ,
Intercontinental dissemination of azithromycin-resistant shigellosis through sexual transmission: a cross-sectional study. The Lancet infectious diseases 15, p.2, 2015. ,
URL : https://hal.archives-ouvertes.fr/pasteur-02042957
South Asia as a Reservoir for the Global Spread of Ciprofloxacin-Resistant Shigella sonnei: A Cross-Sectional Study, PLoS medicine, vol.13, 2016. ,
, , 2018.
Global phylogeography and evolutionary history of Shigella dysenteriae type 1, Nat Microbiol, vol.1, 2016. ,
URL : https://hal.archives-ouvertes.fr/pasteur-01422023
The extant World War 1 dysentery bacillus NCTC1: a genomic analysis, Lancet, vol.384, issue.14, p.61789, 2014. ,
Nested deletions of the SRL pathogenicity island of Shigella flexneri 2a, Journal of bacteriology, vol.183, pp.5535-5543, 2001. ,
, World Helath Organisation, Guidelines for the control of shigellosis, including epidemics due to Shigella dysenteriae type 1. 70 (WHO Document Production Services, 2005.
Ciprofloxacin-resistant Shigella sonnei among men who have sex with men, Emerging infectious diseases, vol.17, pp.1747-1750, 2010. ,
Use of whole-genome sequencing for the public health surveillance of Shigella sonnei in England and Wales, Journal of medical microbiology, vol.65, pp.882-884, 2015. ,
Intensified shigellosis epidemic associated with sexual transmission in men who have sex with men-Shigella flexneri and S. sonnei in England, Euro surveillance: bulletin europeen sur les maladies transmissibles = European communicable disease bulletin, p.20, 2004. ,
Sex, drugs and smart phone applications: findings from semistructured interviews with men who have sex with men diagnosed with Shigella flexneri 3a in England and Wales, Sex Transm Infect, vol.91, pp.598-602, 2015. ,
Horizontal antimicrobial resistance transfer drives epidemics of multiple Shigella species, Nature communications In press, 2018. ,
URL : https://hal.archives-ouvertes.fr/pasteur-02005961
Complete genome sequence and comparative genomics of Shigella flexneri serotype 2a strain 2457T, Infection and immunity, vol.71, pp.2775-2786, 2003. ,
Rapid phylogenetic analysis of large samples of recombinant bacterial whole genome sequences using Gubbins, Nucleic acids research, vol.43, 2015. ,
SNP-sites: rapid efficient extraction of SNPs from multi-FASTA alignments. Microb Genom 2, e000056, 2016. ,
RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models, Bioinformatics, vol.22, pp.2688-2690, 2006. ,
Identification of acquired antimicrobial resistance genes, The Journal of antimicrobial chemotherapy, vol.67, pp.2640-2644, 2012. ,
Robust high-throughput prokaryote de novo assembly and improvement pipeline for Illumina data, Microbial Genomics, vol.2, 2016. ,
Whole genome sequencing revealed concurrent outbreaks of shigellosis in the English Orthodox Jewish Community caused by multiple importations of Shigella sonnei from Israel, Microbial Genomics, vol.4, 2018. ,
Emergence of Plasmid-Borne dfrA14 Trimethoprim Resistance Gene in Shigella sonnei, Front Cell Infect Microbiol, vol.6, 2016. ,
Genome dynamics and diversity of Shigella species, the etiologic agents of bacillary dysentery, Nucleic acids research, vol.33, pp.6445-6458, 2005. ,
Emergence of a new multidrug-resistant serotype X variant in an epidemic clone of Shigella flexneri, Journal of clinical microbiology, vol.48, pp.419-426, 2010. ,