Distributed genotyping and clustering of Neisseria strains reveal continual emergence of epidemic meningococcus over a century.

ABSTRACT: Core genome multilocus sequence typing (cgMLST) is commonly used to classify bacterial strains into different types, for taxonomical and epidemiological applications. However, cgMLST schemes require central databases for the nomenclature of new alleles and sequence types, which must be synchronized worldwide and involve increasingly intensive calculation and storage demands. Here, we describe a distributed cgMLST (dcgMLST) scheme that does not require a central database of allelic sequences and apply it to study evolutionary patterns of epidemic and endemic strains of the genus Neisseria. We classify 69,994 worldwide Neisseria strains into multi-level clusters that assign species, lineages, and local disease outbreaks. We divide Neisseria meningitidis into 168 endemic lineages and three ep

SUBMITTER: Zhong L 

PROVIDER: S-EPMC10673917 | biostudies-literature | 2023 Nov

REPOSITORIES: biostudies-literature