| URL: | https://bigsdb.pasteur.fr/bordetella |
| Full name: | an integrated resource for genomic-based strain taxonomy, offering reference nomenclature databases, genomic libraries and comparative genomics tools |
| Description: | BIGSdb-Pasteur hosts a collection of curated multilocus sequence typing (MLST), whole-genome based typing (core genome cgMLST) and supplementary schemes (antimicrobial resistance, virulence, ...) for bacterial pathogens of public health importance, including Klebsiella pneumoniae and Listeria monocytogenes. |
| Year founded: | 2021 |
| Last update: | 2022-04-19 |
| Version: | v1.35.1 |
| Accessibility: |
Accessible
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| Country/Region: | France |
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| University/Institution: | Université Paris Cité |
| Address: | Institut Pasteur, Université Paris Cité, Biodiversity and Epidemiology of Bacterial Pathogens, Paris, France |
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| Country/Region: | France |
| Contact name (PI/Team): | Sylvain Brisse |
| Contact email (PI/Helpdesk): | sylvain.brisse@pasteur.fr |
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A comprehensive resource for Bordetella genomic epidemiology and biodiversity studies. [PMID: 35778384]
The genus Bordetella includes bacteria that are found in the environment and/or associated with humans and other animals. A few closely related species, including Bordetella pertussis, are human pathogens that cause diseases such as whooping cough. Here, we present a large database of Bordetella isolates and genomes and develop genotyping systems for the genus and for the B. pertussis clade. To generate the database, we merge previously existing databases from Oxford University and Institut Pasteur, import genomes from public repositories, and add 83 newly sequenced B. bronchiseptica genomes. The public database currently includes 2582 Bordetella isolates and their provenance data, and 2085 genomes ( https://bigsdb.pasteur.fr/bordetella/ ). We use core-genome multilocus sequence typing (cgMLST) to develop genotyping systems for the whole genus and for B. pertussis, as well as specific schemes to define antigenic, virulence and macrolide resistance profiles. Phylogenetic analyses allow us to redefine evolutionary relationships among known Bordetella species, and to propose potential new species. Our database provides an expandable resource for genotyping of environmental and clinical Bordetella isolates, thus facilitating evolutionary and epidemiological research on whooping cough and other Bordetella infections. |