Accurate and Rapid Identification of the Burkholderia pseudomallei Near-Neighbour, Burkholderia ubonensis Using Real-Time PCR

Erin Price, Derek Sarovich, Jessica Webb, Jennifer L Ginther, Mark Mayo, James Cook, Meagan Seymour, Mirjam Kaestli, Vanessa Rigas, Carina Hall, Joseph Busch, Jeffrey Foster, Paul S Keim, David M Wagner, Apichai Tuanyok, Talima Pearson, Bart Currie

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    Abstract

    Burkholderia ubonensis is an environmental bacterium belonging to the Burkholderia cepacia complex (Bcc), a group of genetically related organisms that are associated with opportunistic but generally nonfatal infections in healthy individuals. In contrast, the near-neighbour species Burkholderia pseudomallei causes melioidosis, a disease that can be fatal in up to 95% of cases if left untreated. B. ubonensis is frequently misidentified as B. pseudomallei from soil samples using selective culturing on Ashdown's medium, reflecting both the shared environmental niche and morphological similarities of these species. Additionally, B. ubonensis shows potential as an important biocontrol agent in B. pseudomallei-endemic regions as certain strains possess antagonistic properties towards B. pseudomallei. Current methods for characterising B. ubonensis are laborious, time-consuming and costly, and as such this bacterium remains poorly studied. The aim of our study was to develop a rapid and inexpensive real-time PCR-based assay specific for B. ubonensis. We demonstrate that a novel B. ubonensis-specific assay, Bu550, accurately differentiates B. ubonensis from B. pseudomallei and other species that grow on selective Ashdown's agar. We anticipate that Bu550 will catalyse research on B. ubonensis by enabling rapid identification of this organism from Ashdown's-positive colonies that are not B. pseudomallei.
    Original languageEnglish
    Article numbere71647
    Pages (from-to)1-6
    Number of pages6
    JournalPLoS One
    Volume8
    Issue number8
    DOIs
    Publication statusPublished - 2013

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    Burkholderia ubonensis
    Burkholderia pseudomallei
    Burkholderia
    Real-Time Polymerase Chain Reaction
    Assays
    Bacteria
    quantitative polymerase chain reaction
    Biocontrol
    Agar
    Soils
    Burkholderia cepacia complex
    Melioidosis
    bacteria
    organisms
    assays
    Soil
    biological control agents
    niches

    Cite this

    Price, Erin ; Sarovich, Derek ; Webb, Jessica ; Ginther, Jennifer L ; Mayo, Mark ; Cook, James ; Seymour, Meagan ; Kaestli, Mirjam ; Rigas, Vanessa ; Hall, Carina ; Busch, Joseph ; Foster, Jeffrey ; Keim, Paul S ; Wagner, David M ; Tuanyok, Apichai ; Pearson, Talima ; Currie, Bart. / Accurate and Rapid Identification of the Burkholderia pseudomallei Near-Neighbour, Burkholderia ubonensis Using Real-Time PCR. In: PLoS One. 2013 ; Vol. 8, No. 8. pp. 1-6.
    @article{08d2ebfa799348069cd0c7a5d2309a9d,
    title = "Accurate and Rapid Identification of the Burkholderia pseudomallei Near-Neighbour, Burkholderia ubonensis Using Real-Time PCR",
    abstract = "Burkholderia ubonensis is an environmental bacterium belonging to the Burkholderia cepacia complex (Bcc), a group of genetically related organisms that are associated with opportunistic but generally nonfatal infections in healthy individuals. In contrast, the near-neighbour species Burkholderia pseudomallei causes melioidosis, a disease that can be fatal in up to 95{\%} of cases if left untreated. B. ubonensis is frequently misidentified as B. pseudomallei from soil samples using selective culturing on Ashdown's medium, reflecting both the shared environmental niche and morphological similarities of these species. Additionally, B. ubonensis shows potential as an important biocontrol agent in B. pseudomallei-endemic regions as certain strains possess antagonistic properties towards B. pseudomallei. Current methods for characterising B. ubonensis are laborious, time-consuming and costly, and as such this bacterium remains poorly studied. The aim of our study was to develop a rapid and inexpensive real-time PCR-based assay specific for B. ubonensis. We demonstrate that a novel B. ubonensis-specific assay, Bu550, accurately differentiates B. ubonensis from B. pseudomallei and other species that grow on selective Ashdown's agar. We anticipate that Bu550 will catalyse research on B. ubonensis by enabling rapid identification of this organism from Ashdown's-positive colonies that are not B. pseudomallei.",
    keywords = "accuracy, analytic method, article, Ashdown medium, bacterial genome, bacterial growth, bacterial strain, bacterium colony, bacterium culture, bacterium identification, bacterium isolate, Burkholderia, Burkholderia pseudomallei, Burkholderia ubonensis, controlled study, culture medium, ecological niche, gene sequence, genome analysis, intermethod comparison, microbial morphology, nonhuman, phenotypic variation, rapid test, real time polymerase chain reaction, sequence homology, species comparison, species difference, species identification, structural homology, Biodiversity, Genome, Bacterial, Phenotype, Real-Time Polymerase Chain Reaction, Sequence Analysis, DNA, Soil Microbiology, Water Microbiology",
    author = "Erin Price and Derek Sarovich and Jessica Webb and Ginther, {Jennifer L} and Mark Mayo and James Cook and Meagan Seymour and Mirjam Kaestli and Vanessa Rigas and Carina Hall and Joseph Busch and Jeffrey Foster and Keim, {Paul S} and Wagner, {David M} and Apichai Tuanyok and Talima Pearson and Bart Currie",
    year = "2013",
    doi = "10.1371/journal.pone.0071647",
    language = "English",
    volume = "8",
    pages = "1--6",
    journal = "PLoS One",
    issn = "1932-6203",
    publisher = "Public Library of Science (PLoS)",
    number = "8",

    }

    Price, E, Sarovich, D, Webb, J, Ginther, JL, Mayo, M, Cook, J, Seymour, M, Kaestli, M, Rigas, V, Hall, C, Busch, J, Foster, J, Keim, PS, Wagner, DM, Tuanyok, A, Pearson, T & Currie, B 2013, 'Accurate and Rapid Identification of the Burkholderia pseudomallei Near-Neighbour, Burkholderia ubonensis Using Real-Time PCR', PLoS One, vol. 8, no. 8, e71647, pp. 1-6. https://doi.org/10.1371/journal.pone.0071647

    Accurate and Rapid Identification of the Burkholderia pseudomallei Near-Neighbour, Burkholderia ubonensis Using Real-Time PCR. / Price, Erin; Sarovich, Derek; Webb, Jessica; Ginther, Jennifer L; Mayo, Mark; Cook, James; Seymour, Meagan; Kaestli, Mirjam; Rigas, Vanessa; Hall, Carina; Busch, Joseph; Foster, Jeffrey; Keim, Paul S; Wagner, David M; Tuanyok, Apichai; Pearson, Talima; Currie, Bart.

    In: PLoS One, Vol. 8, No. 8, e71647, 2013, p. 1-6.

    Research output: Contribution to journalArticleResearchpeer-review

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    T1 - Accurate and Rapid Identification of the Burkholderia pseudomallei Near-Neighbour, Burkholderia ubonensis Using Real-Time PCR

    AU - Price, Erin

    AU - Sarovich, Derek

    AU - Webb, Jessica

    AU - Ginther, Jennifer L

    AU - Mayo, Mark

    AU - Cook, James

    AU - Seymour, Meagan

    AU - Kaestli, Mirjam

    AU - Rigas, Vanessa

    AU - Hall, Carina

    AU - Busch, Joseph

    AU - Foster, Jeffrey

    AU - Keim, Paul S

    AU - Wagner, David M

    AU - Tuanyok, Apichai

    AU - Pearson, Talima

    AU - Currie, Bart

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    N2 - Burkholderia ubonensis is an environmental bacterium belonging to the Burkholderia cepacia complex (Bcc), a group of genetically related organisms that are associated with opportunistic but generally nonfatal infections in healthy individuals. In contrast, the near-neighbour species Burkholderia pseudomallei causes melioidosis, a disease that can be fatal in up to 95% of cases if left untreated. B. ubonensis is frequently misidentified as B. pseudomallei from soil samples using selective culturing on Ashdown's medium, reflecting both the shared environmental niche and morphological similarities of these species. Additionally, B. ubonensis shows potential as an important biocontrol agent in B. pseudomallei-endemic regions as certain strains possess antagonistic properties towards B. pseudomallei. Current methods for characterising B. ubonensis are laborious, time-consuming and costly, and as such this bacterium remains poorly studied. The aim of our study was to develop a rapid and inexpensive real-time PCR-based assay specific for B. ubonensis. We demonstrate that a novel B. ubonensis-specific assay, Bu550, accurately differentiates B. ubonensis from B. pseudomallei and other species that grow on selective Ashdown's agar. We anticipate that Bu550 will catalyse research on B. ubonensis by enabling rapid identification of this organism from Ashdown's-positive colonies that are not B. pseudomallei.

    AB - Burkholderia ubonensis is an environmental bacterium belonging to the Burkholderia cepacia complex (Bcc), a group of genetically related organisms that are associated with opportunistic but generally nonfatal infections in healthy individuals. In contrast, the near-neighbour species Burkholderia pseudomallei causes melioidosis, a disease that can be fatal in up to 95% of cases if left untreated. B. ubonensis is frequently misidentified as B. pseudomallei from soil samples using selective culturing on Ashdown's medium, reflecting both the shared environmental niche and morphological similarities of these species. Additionally, B. ubonensis shows potential as an important biocontrol agent in B. pseudomallei-endemic regions as certain strains possess antagonistic properties towards B. pseudomallei. Current methods for characterising B. ubonensis are laborious, time-consuming and costly, and as such this bacterium remains poorly studied. The aim of our study was to develop a rapid and inexpensive real-time PCR-based assay specific for B. ubonensis. We demonstrate that a novel B. ubonensis-specific assay, Bu550, accurately differentiates B. ubonensis from B. pseudomallei and other species that grow on selective Ashdown's agar. We anticipate that Bu550 will catalyse research on B. ubonensis by enabling rapid identification of this organism from Ashdown's-positive colonies that are not B. pseudomallei.

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    KW - analytic method

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    KW - Ashdown medium

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    KW - bacterium culture

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    KW - bacterium isolate

    KW - Burkholderia

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    KW - Burkholderia ubonensis

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    KW - culture medium

    KW - ecological niche

    KW - gene sequence

    KW - genome analysis

    KW - intermethod comparison

    KW - microbial morphology

    KW - nonhuman

    KW - phenotypic variation

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    KW - sequence homology

    KW - species comparison

    KW - species difference

    KW - species identification

    KW - structural homology

    KW - Biodiversity

    KW - Genome, Bacterial

    KW - Phenotype

    KW - Real-Time Polymerase Chain Reaction

    KW - Sequence Analysis, DNA

    KW - Soil Microbiology

    KW - Water Microbiology

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    DO - 10.1371/journal.pone.0071647

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