2009
DOI: 10.1128/jcm.00761-09
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Single Nucleotide Polymorphisms on the Road to Strain Differentiation in Mycobacterium ulcerans

Abstract: The genomic fine-typing of strains of Mycobacterium ulcerans, the causative agent of the emerging human disease Buruli ulcer, is difficult due to the clonal population structure of geographical lineages. Although large sequence polymorphisms (LSPs) resulted in the clustering of patient isolates originating from across the globe, differentiation of strains within continents using conventional typing methods is very limited. In this study, we analyzed M. ulcerans LSP haplotype-specific insertion sequence element… Show more

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Cited by 16 publications
(13 citation statements)
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“…This resulted in 28 ISE-SNP types, of which 23 were found on the African continent. Sixteen of these were newly identified types, while the other seven corresponded to the ISE-SNP types described by Käser et al (28). The Papua New Guinean ISE-SNP type 28, used in the phylogenetic analyses as an outgroup, was also a novel type.…”
Section: Resultsmentioning
confidence: 99%
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“…This resulted in 28 ISE-SNP types, of which 23 were found on the African continent. Sixteen of these were newly identified types, while the other seven corresponded to the ISE-SNP types described by Käser et al (28). The Papua New Guinean ISE-SNP type 28, used in the phylogenetic analyses as an outgroup, was also a novel type.…”
Section: Resultsmentioning
confidence: 99%
“…Isolates ITM_5150, ITM_5151 ITM_940511, ITM_940512, ITM_960658, ITM_940662, ITM_970359, and ITM_970680 were included in the panel to validate the redesigned assays. These isolates were also included in the panel of Käser et al (28) and gave identical genotypes as with the redesigned assays. As our collection of African M. ulcerans isolates did not represent all countries and their different regions where BU is endemic to the same extent, owing to the low sensitivity of culture, we fine-tuned the technique for application directly on clinical specimens by adjusting individual PCR component concentrations and optimizing the thermal PCR profile.…”
Section: Resultsmentioning
confidence: 99%
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“…We conclude that on a regional geographic scale, differentiation within these largely monomorphic local clones might be possible through identification of SNPs. First evidence for a SNP-based genetic discrimination between and within African countries has already been provided (31).…”
Section: Discussionmentioning
confidence: 99%