Molecular diversity of Bacillus anthracis in the Netherlands: investigating the relationship to the wordwide population using whole-genome SNP discovery

S. Derzelle, G. Girault, H.I.J. Roest, M.G.J. Koene

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9 Citations (Scopus)

Abstract

Bacillus anthracis, the causative agent of anthrax, has been widely described as a clonal species. Here we report the use of both canonical SNP analysis and whole-genome sequencing to characterize the phylogenetic lineages of B. anthracis from the Netherlands. Eleven strains isolated over a 25-years period (1968–1993) were paired-end sequenced using parallel sequencing technology. Five canSNP groups or lineages, i.e. A.Br.001/002 (n = 6), A.Br.Aust94 (n = 2), A.Br.008/011 (n = 1), A.Br.011/009 (n = 1) and A.Br.Vollum (n = 1) were identified. Comparative analyses, with a focus on SNPs discovery, were carried out using a total of 52 B. anthracis genomes. A phylogeographic “Dutch” cluster within the dominant A.Br.001/002 group was discovered, involving isolates from a single outbreak. Diagnostic SNPs specific to the newly identified sub-groups were developed into high-resolution melting SNP discriminative assays for the purpose of rapid molecular epidemiology. Phylogenetic relationships with strains from other parts of the world are discussed.
Original languageEnglish
Pages (from-to)370-376
JournalInfection, Genetics and Evolution
Volume32
DOIs
Publication statusPublished - 2015

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Bacillus anthracis
Netherlands
Single Nucleotide Polymorphism
genome
Genome
anthrax
canonical analysis
phylogenetics
epidemiology
Population
molecular epidemiology
melting
phylogeny
assay
Anthrax
Molecular Epidemiology
Freezing
Disease Outbreaks
assays
Technology

Cite this

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title = "Molecular diversity of Bacillus anthracis in the Netherlands: investigating the relationship to the wordwide population using whole-genome SNP discovery",
abstract = "Bacillus anthracis, the causative agent of anthrax, has been widely described as a clonal species. Here we report the use of both canonical SNP analysis and whole-genome sequencing to characterize the phylogenetic lineages of B. anthracis from the Netherlands. Eleven strains isolated over a 25-years period (1968–1993) were paired-end sequenced using parallel sequencing technology. Five canSNP groups or lineages, i.e. A.Br.001/002 (n = 6), A.Br.Aust94 (n = 2), A.Br.008/011 (n = 1), A.Br.011/009 (n = 1) and A.Br.Vollum (n = 1) were identified. Comparative analyses, with a focus on SNPs discovery, were carried out using a total of 52 B. anthracis genomes. A phylogeographic “Dutch” cluster within the dominant A.Br.001/002 group was discovered, involving isolates from a single outbreak. Diagnostic SNPs specific to the newly identified sub-groups were developed into high-resolution melting SNP discriminative assays for the purpose of rapid molecular epidemiology. Phylogenetic relationships with strains from other parts of the world are discussed.",
author = "S. Derzelle and G. Girault and H.I.J. Roest and M.G.J. Koene",
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Molecular diversity of Bacillus anthracis in the Netherlands: investigating the relationship to the wordwide population using whole-genome SNP discovery. / Derzelle, S.; Girault, G.; Roest, H.I.J.; Koene, M.G.J.

In: Infection, Genetics and Evolution, Vol. 32, 2015, p. 370-376.

Research output: Contribution to journalArticleAcademicpeer-review

TY - JOUR

T1 - Molecular diversity of Bacillus anthracis in the Netherlands: investigating the relationship to the wordwide population using whole-genome SNP discovery

AU - Derzelle, S.

AU - Girault, G.

AU - Roest, H.I.J.

AU - Koene, M.G.J.

PY - 2015

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N2 - Bacillus anthracis, the causative agent of anthrax, has been widely described as a clonal species. Here we report the use of both canonical SNP analysis and whole-genome sequencing to characterize the phylogenetic lineages of B. anthracis from the Netherlands. Eleven strains isolated over a 25-years period (1968–1993) were paired-end sequenced using parallel sequencing technology. Five canSNP groups or lineages, i.e. A.Br.001/002 (n = 6), A.Br.Aust94 (n = 2), A.Br.008/011 (n = 1), A.Br.011/009 (n = 1) and A.Br.Vollum (n = 1) were identified. Comparative analyses, with a focus on SNPs discovery, were carried out using a total of 52 B. anthracis genomes. A phylogeographic “Dutch” cluster within the dominant A.Br.001/002 group was discovered, involving isolates from a single outbreak. Diagnostic SNPs specific to the newly identified sub-groups were developed into high-resolution melting SNP discriminative assays for the purpose of rapid molecular epidemiology. Phylogenetic relationships with strains from other parts of the world are discussed.

AB - Bacillus anthracis, the causative agent of anthrax, has been widely described as a clonal species. Here we report the use of both canonical SNP analysis and whole-genome sequencing to characterize the phylogenetic lineages of B. anthracis from the Netherlands. Eleven strains isolated over a 25-years period (1968–1993) were paired-end sequenced using parallel sequencing technology. Five canSNP groups or lineages, i.e. A.Br.001/002 (n = 6), A.Br.Aust94 (n = 2), A.Br.008/011 (n = 1), A.Br.011/009 (n = 1) and A.Br.Vollum (n = 1) were identified. Comparative analyses, with a focus on SNPs discovery, were carried out using a total of 52 B. anthracis genomes. A phylogeographic “Dutch” cluster within the dominant A.Br.001/002 group was discovered, involving isolates from a single outbreak. Diagnostic SNPs specific to the newly identified sub-groups were developed into high-resolution melting SNP discriminative assays for the purpose of rapid molecular epidemiology. Phylogenetic relationships with strains from other parts of the world are discussed.

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