Bioinformatics of genome sequencing applied to epidemiological surveillance of infectious agents
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 […]
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 […]
2023Yersiniomics, a Multi-Omics Interactive Database for Yersinia Species., Microbiol Spectr 2023 Feb; (): e0382622.
2022Analytical framework to evaluate and optimize the use of imperfect diagnostics to inform outbreak response: Application to the 2017 plague epidemic in Madagascar., PLoS Biol 2022 Aug; 20(8): e3001736.
2022First Description of a Yersinia pseudotuberculosis Clonal Outbreak in France, Confirmed Using a New Core Genome Multilocus Sequence Typing Method., Microbiol Spectr 2022 Jul; (): e0114522.
2020Is Yersinia bercovieri Surpassing Yersinia enterocolitica in Wild Boars (Sus scrofa)?, Ecohealth 2020 Oct; (): .
2020Yersinia artesiana sp. nov., Yersinia proxima sp. nov., Yersinia alsatica sp. nov., Yersina vastinensis sp. nov., Yersinia thracica sp. nov. and Yersinia occitanica sp. nov., isolated from humans and animals., Int J Syst Evol Microbiol 2020 Oct; 70(10): 5363-5372.
2019Genus-wide Yersinia core-genome multilocus sequence typing for species identification and strain characterization, Microb Genom 2019 Oct;.
2018Isolation of a Yersinia enterocolitica biotype 1B strain in France, and evaluation of its genetic relatedness to other European and North American biotype 1B strains, Emerg Microbes Infect 2018 Jul;7(1):121.
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