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Epidemiological tracking and population assignment of the non-clonal bacterium Burkholderia pseudomallei

Dale, Julia, Price, Erin P., Hornstra, Heidie, Busch, Joseph D., Mayo, Mark J., Godoy, Daniel, Wuthiekanun, Vanaporn, Baker, Anthony, Foster, Jeffrey T., Wagner, David M., Tuanyok, Apichai, Warner, Jeffrey, Spratt, Brian G., Peacock, Sharon J., Currie, Bart J., Keim, Paul and Pearson, Talima (2011). Epidemiological tracking and population assignment of the non-clonal bacterium Burkholderia pseudomallei. PLoS One,5(12):e1381.

Document type: Journal Article
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Title Epidemiological tracking and population assignment of the non-clonal bacterium Burkholderia pseudomallei
Author Dale, Julia
Price, Erin P.
Hornstra, Heidie
Busch, Joseph D.
Mayo, Mark J.
Godoy, Daniel
Wuthiekanun, Vanaporn
Baker, Anthony
Foster, Jeffrey T.
Wagner, David M.
Tuanyok, Apichai
Warner, Jeffrey
Spratt, Brian G.
Peacock, Sharon J.
Currie, Bart J.
Keim, Paul
Pearson, Talima
Journal Name PLoS One
Publication Date 2011
Volume Number 5
Issue Number 12
ISSN 1932-6203   (check CDU catalogue open catalogue search in new window)
Start Page e1381
Total Pages 17
Place of Publication United States
Publisher Public Library of Science
HERDC Category C1 - Journal Article (DEST)
Abstract Rapid assignment of bacterial pathogens into predefined populations is an important first step for epidemiological tracking. For clonal species, a single allele can theoretically define a population. For non-clonal species such as Burkholderia pseudomallei, however, shared allelic states between distantly related isolates make it more difficult to identify population defining characteristics. Two distinct B. pseudomallei populations have been previously identified using multilocus sequence typing (MLST). These populations correlate with the major foci of endemicity (Australia and Southeast Asia). Here, we use multiple Bayesian approaches to evaluate the compositional robustness of these populations, and provide assignment results for MLST sequence types (STs). Our goal was to provide a reference for assigning STs to an established population without the need for further computational analyses. We also provide allele frequency results for each population to enable estimation of population assignment even when novel STs are discovered. The ability for humans and potentially contaminated goods to move rapidly across the globe complicates the task of identifying the source of an infection or outbreak. Population genetic dynamics of B. pseudomallei are particularly complicated relative to other bacterial pathogens, but the work here provides the ability for broad scale population assignment. As there is currently no independent empirical measure of successful population assignment, we provide comprehensive analytical details of our comparisons to enable the reader to evaluate the robustness of population designations and assignments as they pertain to individual research questions. Finer scale subdivision and verification of current population compositions will likely be possible with genotyping data that more comprehensively samples the genome. The approach used here may be valuable for other nonclonal pathogens that lack simple group-defining genetic characteristics and provides a rapid reference for epidemiologists wishing to track the origin of infection without the need to compile population data and learn population assignment algorithms.
DOI http://dx.doi.org/10.1371/journal.pntd.0001381   (check subscription with CDU E-Gateway service for CDU Staff and Students  check subscription with CDU E-Gateway in new window)


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