VNTR analysis of selected outbreaks of Burkholderia pseudomallei in Australia

Talima Pearson; Jana M. U'Ren; James M. Schupp; Gerard J. Allan; Peter G. Foster; Mark J. Mayo; Daniel Gal; Jodie Low Choy; Rebecca Leadem Daugherty; Sergey Kachur; Christine L.Clark Friedman; Benjamin Leadem; Shalamar Georgia; Heidie Hornstra; Amy J. Vogler; David M. Wagner; Paul Keim; Bart J. Currie

doi:10.1016/j.meegid.2006.12.002

VNTR analysis of selected outbreaks of Burkholderia pseudomallei in Australia

Talima Pearson, Jana M. U'Ren, James M. Schupp, Gerard J. Allan, Peter G. Foster, Mark J. Mayo, Daniel Gal, Jodie Low Choy, Rebecca Leadem Daugherty, Sergey Kachur, Christine L.Clark Friedman, Benjamin Leadem, Shalamar Georgia, Heidie Hornstra, Amy J. Vogler, David M. Wagner, Paul Keim, Bart J. Currie

Biological Sciences

Research output: Contribution to journal › Article › peer-review

29 Scopus citations

Abstract

Molecular typing methods for Burkholderia pseudomallei have been successful at assigning isolates into epidemiologically related groups, but have not been able to detect differences and define evolutionary patterns within groups. Our variable number tandem repeat (VNTR) analysis of a set of 121 Australian B. pseudomallei isolates, 104 of which were associated with nine epidemiological groups, provides fine scale differentiation even among very closely related isolates. We used a Bayesian model based upon mutation accumulation patterns to define the close phylogenetic relationships within these epidemiological groups. Our results reveal that genetic diversity can exist within a very small geographic area, and that low levels of diversity can exist even within a single infection. These methods provide the ability to generate robust evolutionary hypotheses that enable tracking of B. pseudomallei in forensic and epidemiological outbreaks at fine phylogenetic scales.

Original language	English (US)
Pages (from-to)	416-423
Number of pages	8
Journal	Infection, Genetics and Evolution
Volume	7
Issue number	4
DOIs	https://doi.org/10.1016/j.meegid.2006.12.002
State	Published - Jul 2007

Keywords

Australia
Bayesian analysis
Burkholderia pseudomallei
MLVA
Melioidosis
Phylogenetic analysis
VNTR

ASJC Scopus subject areas

Microbiology
Ecology, Evolution, Behavior and Systematics
Molecular Biology
Genetics
Microbiology (medical)
Infectious Diseases

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10.1016/j.meegid.2006.12.002

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Pearson, T., U'Ren, J. M., Schupp, J. M., Allan, G. J., Foster, P. G., Mayo, M. J., Gal, D., Choy, J. L., Daugherty, R. L., Kachur, S., Friedman, C. L. C., Leadem, B., Georgia, S., Hornstra, H., Vogler, A. J., Wagner, D. M., Keim, P., & Currie, B. J. (2007). VNTR analysis of selected outbreaks of Burkholderia pseudomallei in Australia. Infection, Genetics and Evolution, 7(4), 416-423. https://doi.org/10.1016/j.meegid.2006.12.002

Pearson, T, U'Ren, JM, Schupp, JM, Allan, GJ, Foster, PG, Mayo, MJ, Gal, D, Choy, JL, Daugherty, RL, Kachur, S, Friedman, CLC, Leadem, B, Georgia, S, Hornstra, H, Vogler, AJ, Wagner, DM, Keim, P & Currie, BJ 2007, 'VNTR analysis of selected outbreaks of Burkholderia pseudomallei in Australia', Infection, Genetics and Evolution, vol. 7, no. 4, pp. 416-423. https://doi.org/10.1016/j.meegid.2006.12.002

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title = "VNTR analysis of selected outbreaks of Burkholderia pseudomallei in Australia",

abstract = "Molecular typing methods for Burkholderia pseudomallei have been successful at assigning isolates into epidemiologically related groups, but have not been able to detect differences and define evolutionary patterns within groups. Our variable number tandem repeat (VNTR) analysis of a set of 121 Australian B. pseudomallei isolates, 104 of which were associated with nine epidemiological groups, provides fine scale differentiation even among very closely related isolates. We used a Bayesian model based upon mutation accumulation patterns to define the close phylogenetic relationships within these epidemiological groups. Our results reveal that genetic diversity can exist within a very small geographic area, and that low levels of diversity can exist even within a single infection. These methods provide the ability to generate robust evolutionary hypotheses that enable tracking of B. pseudomallei in forensic and epidemiological outbreaks at fine phylogenetic scales.",

keywords = "Australia, Bayesian analysis, Burkholderia pseudomallei, MLVA, Melioidosis, Phylogenetic analysis, VNTR",

author = "Talima Pearson and U'Ren, {Jana M.} and Schupp, {James M.} and Allan, {Gerard J.} and Foster, {Peter G.} and Mayo, {Mark J.} and Daniel Gal and Choy, {Jodie Low} and Daugherty, {Rebecca Leadem} and Sergey Kachur and Friedman, {Christine L.Clark} and Benjamin Leadem and Shalamar Georgia and Heidie Hornstra and Vogler, {Amy J.} and Wagner, {David M.} and Paul Keim and Currie, {Bart J.}",

note = "Funding Information: We gratefully acknowledge Nicky Buller, Clayton Golledge, Gary Lum and the Royal Darwin Hospital microbiology laboratory and Suresh Benedict and the Northern Territory DPIFM microbiology laboratory for providing bacterial isolates and Donna Cross for assistance with the goat farm studies. Funding for this work was provided by the U.S. Department of Homeland Security and the Office of Naval Research. Copyright: Copyright 2008 Elsevier B.V., All rights reserved.",

year = "2007",

month = jul,

doi = "10.1016/j.meegid.2006.12.002",

language = "English (US)",

volume = "7",

pages = "416--423",

journal = "Infection, Genetics and Evolution",

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T1 - VNTR analysis of selected outbreaks of Burkholderia pseudomallei in Australia

AU - Pearson, Talima

AU - U'Ren, Jana M.

AU - Schupp, James M.

AU - Allan, Gerard J.

AU - Foster, Peter G.

AU - Mayo, Mark J.

AU - Gal, Daniel

AU - Choy, Jodie Low

AU - Daugherty, Rebecca Leadem

AU - Kachur, Sergey

AU - Friedman, Christine L.Clark

AU - Leadem, Benjamin

AU - Georgia, Shalamar

AU - Hornstra, Heidie

AU - Vogler, Amy J.

AU - Wagner, David M.

AU - Keim, Paul

AU - Currie, Bart J.

N1 - Funding Information: We gratefully acknowledge Nicky Buller, Clayton Golledge, Gary Lum and the Royal Darwin Hospital microbiology laboratory and Suresh Benedict and the Northern Territory DPIFM microbiology laboratory for providing bacterial isolates and Donna Cross for assistance with the goat farm studies. Funding for this work was provided by the U.S. Department of Homeland Security and the Office of Naval Research. Copyright: Copyright 2008 Elsevier B.V., All rights reserved.

PY - 2007/7

Y1 - 2007/7

N2 - Molecular typing methods for Burkholderia pseudomallei have been successful at assigning isolates into epidemiologically related groups, but have not been able to detect differences and define evolutionary patterns within groups. Our variable number tandem repeat (VNTR) analysis of a set of 121 Australian B. pseudomallei isolates, 104 of which were associated with nine epidemiological groups, provides fine scale differentiation even among very closely related isolates. We used a Bayesian model based upon mutation accumulation patterns to define the close phylogenetic relationships within these epidemiological groups. Our results reveal that genetic diversity can exist within a very small geographic area, and that low levels of diversity can exist even within a single infection. These methods provide the ability to generate robust evolutionary hypotheses that enable tracking of B. pseudomallei in forensic and epidemiological outbreaks at fine phylogenetic scales.

AB - Molecular typing methods for Burkholderia pseudomallei have been successful at assigning isolates into epidemiologically related groups, but have not been able to detect differences and define evolutionary patterns within groups. Our variable number tandem repeat (VNTR) analysis of a set of 121 Australian B. pseudomallei isolates, 104 of which were associated with nine epidemiological groups, provides fine scale differentiation even among very closely related isolates. We used a Bayesian model based upon mutation accumulation patterns to define the close phylogenetic relationships within these epidemiological groups. Our results reveal that genetic diversity can exist within a very small geographic area, and that low levels of diversity can exist even within a single infection. These methods provide the ability to generate robust evolutionary hypotheses that enable tracking of B. pseudomallei in forensic and epidemiological outbreaks at fine phylogenetic scales.

KW - Australia

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KW - Phylogenetic analysis

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VNTR analysis of selected outbreaks of Burkholderia pseudomallei in Australia

Abstract

Keywords

ASJC Scopus subject areas

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