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BMCBI
2008

Models of deletion for visualizing bacterial variation: an application to tuberculosis spoligotypes

13 years 11 months ago
Models of deletion for visualizing bacterial variation: an application to tuberculosis spoligotypes
Background: Molecular typing methods are commonly used to study genetic relationships among bacterial isolates. Many of these methods have become standardized and produce portable data. A popular approach for analyzing such data is to construct graphs, including phylogenies. Inferences from graph representations of data assist in understanding the patterns of transmission of bacterial pathogens, and basing these graph constructs on biological models of evolution of the molecular marker helps make these inferences. Spoligotyping is a widely used method for genotyping isolates of Mycobacterium tuberculosis that exploits polymorphism in the direct repeat region. Our goal was to examine a range of models describing the evolution of spoligotypes in order to develop a visualization method to represent likely relationships among M. tuberculosis isolates. Results: We found that inferred mutations of spoligotypes frequently involve the loss of a single or very few adjacent spacers. Using a sec...
Josephine F. Reyes, Andrew R. Francis, Mark M. Tan
Added 09 Dec 2010
Updated 09 Dec 2010
Type Journal
Year 2008
Where BMCBI
Authors Josephine F. Reyes, Andrew R. Francis, Mark M. Tanaka
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