Project #17976
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#17976 : Fast and accurate identification of the medoid of a set of genomes
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Name of Applicant : Olivier CHESNEAU
Date of application : 02-03-2022
Unit : Collection of the Institut Pasteur (CIP)
Location : Duclaux - Aile Fourneau - pièce 30A - 2e étage
Phone : 32.85
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@ PI-Mail :

Project context and summary :

Because of the fast-growing number of assembled genomes available in the public repositories (GenBank/RefSeq), it is now quite common to end up with many genome assemblies that belong to the same species. In this current context, determining the type strain/species of any new species/genus requires to identify the representive one(s) within a large collection of genomes. The medoid of a genome collection being the one(s) whose sum of distances to all other genomes is minimal, it is an excellent candidate to be the representative genome of a collection. We therefore aim at procuring a bioinformatic tool able to quickly and accurately identify the medoid of any genome collections.

Related team publications :
Kämpfer P, McInroy JA, Clermont D, Neumann-Schaal M, Criscuolo A, Busse HJ, Glaeser SP (2021) Leucobacter soli sp. nov., from soil amended with humic acid. Int J Syst Evol Microbiol. doi:10.1099/ijsem.0.005156.
Mühle E, Abry C, Leclerc P, Goly GM, Criscuolo A, Busse HJ, Kämpfer P, Bernardet JF, Clermont D, Chesneau O (2020) Flavobacterium bizetiae sp. nov., isolated from diseased freshwater fish in Canada at the end of the 1970s. Int J Syst Evol Microbiol. doi:10.1099/ijsem.0.004576.
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Project Type : Short
Status : Awaiting Publication

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