2012
DOI: 10.1109/tnb.2012.2213265
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Inferred Spoligoforest Topology Unravels Spatially Bimodal Distribution of Mutations in the DR Region

Abstract: Biomarkers of Mycobacterium tuberculosis complex (MTBC) mutate over time. Among the biomarkers of MTBC, spacer oligonucleotide type (spoligotype) and mycobacterium interspersed repetitive unit (MIRU) patterns are commonly used to genotype clinical MTBC strains. In this study, we present an evolution model of spoligotype rearrangements using MIRU patterns to disambiguate the ancestors of spoligotypes. We use a large patient dataset from the United States Centers for Disease Control and Prevention (CDC) to gener… Show more

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Cited by 2 publications
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“…The phylogenetic value of spoligotying has been questioned owing to the eventual occurrence of homoplasy in the DR region (Allix-Béguec et al, 2008;Comas et al, 2009). More recently, however, the accuracy of spoligotyping has been acknowledged (Kato-Maeda et al, 2011a) and proposed as the basis of a tool for lineage classification (Ozcaglar et al, 2012). The congruence found herein between MIRU-VNTR and spoligotyping further endorses the robustness of SITVIT assignation.…”
Section: Combined Analysis and Phylogenetic Insightsmentioning
confidence: 63%
“…The phylogenetic value of spoligotying has been questioned owing to the eventual occurrence of homoplasy in the DR region (Allix-Béguec et al, 2008;Comas et al, 2009). More recently, however, the accuracy of spoligotyping has been acknowledged (Kato-Maeda et al, 2011a) and proposed as the basis of a tool for lineage classification (Ozcaglar et al, 2012). The congruence found herein between MIRU-VNTR and spoligotyping further endorses the robustness of SITVIT assignation.…”
Section: Combined Analysis and Phylogenetic Insightsmentioning
confidence: 63%