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Project #12260
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#12260 : Pasteur MLST: Institut Pasteur genomic taxonomy database of microbial strains
Topics :
Organisms :
Group :
Name of Applicant : Sylvain Brisse
Date of application : 04-10-2018
Unit :
Location : Roux 53 rdc puis Biotop 12 2eme etage (April 2019 -> )
Phone : 8334
@ Mail : sbrisse@pasteur.fr

Project context and summary :

– The Institut Pasteur genomic taxonomy database of microbial strains (“Pasteur MLST”) is a free, publicly-accessible resource that hosts nucleotide sequence-based definitions of microbial strains, along with information on bacterial isolates (provenance data) and their genomic sequences. The Pasteur MLST database provides universal nomenclatures that are largely adopted for important pathogens (Klebsiella, Listeria, …), and represent a unifying language on strains for microbial population biology. – Unified strain taxonomies facilitate the coordinated international surveillance of bacterial pathogens. Several hundred research laboratories and public health agencies worldwide have deposited novel strain types, sequences and provenance data on their bacterial isolates. – Pasteur MLST is powered by the Open source GPL3 BIGSdb web application developed at Oxford University (Keith Jolley & Martin Maiden). (http://bigsdb.pasteur.fr ). Its evolution in terms of functionality is tightly linked to the developments of the software at Oxford U. Its evolution in terms of contents is managed by dedicated international teams of curators for each bacterial pathogenic species, coordinated by the PasteurMLST team. – The genomic taxonomies hosted at Pasteur MLST represent unique, authoritative resources that are highly valued by the community, as testified by the routine use of Pasteur MLST strain tags (e.g., K. pneumoniae ST258) in the scientific literature. Several labs (National Reference Centers or Units) of Institut Pasteur are coordinating the curation of genomic taxonomies (Klebsiella, Listeria, Corynebacteria, Bordetella, Leptospira, Yersinia, …). The aim of the project is to obtain support from the C3BI HUB for the maintenance of the BIGSdb instance at Pasteur: deployment, upgrades, installation of API functionality developed by our partner, coping with future IT evolutions, …


Related team publications :
Multilocus sequence typing of Klebsiella pneumoniae nosocomial isolates. Diancourt L, Passet V, Verhoef J, Grimont PA, Brisse S. J Clin Microbiol. 2005 Aug;43(8):4178-82. PMID: 16081970
A new perspective on Listeria monocytogenes evolution. Ragon M, Wirth T, Hollandt F, Lavenir R, Lecuit M, Le Monnier A, Brisse S. PLoS Pathog. 2008 Sep 5;4(9):e1000146. doi: 10.1371/journal.ppat.1000146. PMID: 18773117
Whole genome-based population biology and epidemiological surveillance of Listeria monocytogenes. Moura A, Criscuolo A, Pouseele H, Maury MM, Leclercq A, Tarr C, Björkman JT, Dallman T, Reimer A, Enouf V, Larsonneur E, Carleton H, Bracq-Dieye H, Katz LS, Jones L, Touchon M, Tourdjman M, Walker M, Stroika S, Cantinelli T, Chenal-Francisque V, Kucerova Z, Rocha EP, Nadon C, Grant K, Nielsen EM, Pot B, Gerner-Smidt P, Lecuit M, Brisse S. Nat Microbiol. 2016 Oct 10;2:16185. doi: 10.1038/nmicrobiol.2016.185. PMID: 27723724
Service Delivery
Project Manager : bryan.brancotte@pasteur.fr
Project Type : Medium
Status : Pending


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