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Identification of Burkholderia pseudomallei Near-Neighbor Species in the Northern Territory of Australia.
PLoS Negl Trop Dis. 2015; 9(6):e0003892.PN

Abstract

Identification and characterization of near-neighbor species are critical to the development of robust molecular diagnostic tools for biothreat agents. One such agent, Burkholderia pseudomallei, a soil bacterium and the causative agent of melioidosis, is lacking in this area because of its genomic diversity and widespread geographic distribution. The Burkholderia genus contains over 60 species and occupies a large range of environments including soil, plants, rhizospheres, water, animals and humans. The identification of novel species in new locations necessitates the need to identify the true global distribution of Burkholderia species, especially the members that are closely related to B. pseudomallei. In our current study, we used the Burkholderia-specific recA sequencing assay to analyze environmental samples from the Darwin region in the Northern Territory of Australia where melioidosis is endemic. Burkholderia recA PCR negative samples were further characterized using 16s rRNA sequencing for species identification. Phylogenetic analysis demonstrated that over 70% of the bacterial isolates were identified as B. ubonensis indicating that this species is common in the soil where B. pseudomallei is endemic. Bayesian phylogenetic analysis reveals many novel branches within the B. cepacia complex, one novel B. oklahomensis-like species, and one novel branch containing one isolate that is distinct from all other samples on the phylogenetic tree. During the analysis with recA sequencing, we discovered 2 single nucleotide polymorphisms in the reverse priming region of B. oklahomensis. A degenerate primer was developed and is proposed for future use. We conclude that the recA sequencing technique is an effective tool to classify Burkholderia and identify soil organisms in a melioidosis endemic area.

Authors+Show Affiliations

Center for Microbial Genetics and Genomics, Northern Arizona University, Flagstaff, Arizona, United States of America.Menzies School of Health Research, Casuarina, Northern Territory, Australia.Center for Microbial Genetics and Genomics, Northern Arizona University, Flagstaff, Arizona, United States of America.Menzies School of Health Research, Casuarina, Northern Territory, Australia.Center for Microbial Genetics and Genomics, Northern Arizona University, Flagstaff, Arizona, United States of America.Center for Microbial Genetics and Genomics, Northern Arizona University, Flagstaff, Arizona, United States of America.Menzies School of Health Research, Casuarina, Northern Territory, Australia.Center for Microbial Genetics and Genomics, Northern Arizona University, Flagstaff, Arizona, United States of America; Department of Infectious Diseases and Pathology, University of Florida, Gainesville, Florida, United States of America.Center for Microbial Genetics and Genomics, Northern Arizona University, Flagstaff, Arizona, United States of America; Pathogen Genomics Division, Translational Genomics Research Institute, Flagstaff, Arizona, United States of America.

Pub Type(s)

Journal Article
Research Support, U.S. Gov't, Non-P.H.S.

Language

eng

PubMed ID

26121041

Citation

Ginther, Jennifer L., et al. "Identification of Burkholderia Pseudomallei Near-Neighbor Species in the Northern Territory of Australia." PLoS Neglected Tropical Diseases, vol. 9, no. 6, 2015, pp. e0003892.
Ginther JL, Mayo M, Warrington SD, et al. Identification of Burkholderia pseudomallei Near-Neighbor Species in the Northern Territory of Australia. PLoS Negl Trop Dis. 2015;9(6):e0003892.
Ginther, J. L., Mayo, M., Warrington, S. D., Kaestli, M., Mullins, T., Wagner, D. M., Currie, B. J., Tuanyok, A., & Keim, P. (2015). Identification of Burkholderia pseudomallei Near-Neighbor Species in the Northern Territory of Australia. PLoS Neglected Tropical Diseases, 9(6), e0003892. https://doi.org/10.1371/journal.pntd.0003892
Ginther JL, et al. Identification of Burkholderia Pseudomallei Near-Neighbor Species in the Northern Territory of Australia. PLoS Negl Trop Dis. 2015;9(6):e0003892. PubMed PMID: 26121041.
* Article titles in AMA citation format should be in sentence-case
TY - JOUR T1 - Identification of Burkholderia pseudomallei Near-Neighbor Species in the Northern Territory of Australia. AU - Ginther,Jennifer L, AU - Mayo,Mark, AU - Warrington,Stephanie D, AU - Kaestli,Mirjam, AU - Mullins,Travis, AU - Wagner,David M, AU - Currie,Bart J, AU - Tuanyok,Apichai, AU - Keim,Paul, Y1 - 2015/06/29/ PY - 2015/03/19/received PY - 2015/06/09/accepted PY - 2015/6/30/entrez PY - 2015/6/30/pubmed PY - 2016/5/21/medline SP - e0003892 EP - e0003892 JF - PLoS neglected tropical diseases JO - PLoS Negl Trop Dis VL - 9 IS - 6 N2 - Identification and characterization of near-neighbor species are critical to the development of robust molecular diagnostic tools for biothreat agents. One such agent, Burkholderia pseudomallei, a soil bacterium and the causative agent of melioidosis, is lacking in this area because of its genomic diversity and widespread geographic distribution. The Burkholderia genus contains over 60 species and occupies a large range of environments including soil, plants, rhizospheres, water, animals and humans. The identification of novel species in new locations necessitates the need to identify the true global distribution of Burkholderia species, especially the members that are closely related to B. pseudomallei. In our current study, we used the Burkholderia-specific recA sequencing assay to analyze environmental samples from the Darwin region in the Northern Territory of Australia where melioidosis is endemic. Burkholderia recA PCR negative samples were further characterized using 16s rRNA sequencing for species identification. Phylogenetic analysis demonstrated that over 70% of the bacterial isolates were identified as B. ubonensis indicating that this species is common in the soil where B. pseudomallei is endemic. Bayesian phylogenetic analysis reveals many novel branches within the B. cepacia complex, one novel B. oklahomensis-like species, and one novel branch containing one isolate that is distinct from all other samples on the phylogenetic tree. During the analysis with recA sequencing, we discovered 2 single nucleotide polymorphisms in the reverse priming region of B. oklahomensis. A degenerate primer was developed and is proposed for future use. We conclude that the recA sequencing technique is an effective tool to classify Burkholderia and identify soil organisms in a melioidosis endemic area. SN - 1935-2735 UR - https://www.unboundmedicine.com/medline/citation/26121041/Identification_of_Burkholderia_pseudomallei_Near_Neighbor_Species_in_the_Northern_Territory_of_Australia_ L2 - https://dx.plos.org/10.1371/journal.pntd.0003892 DB - PRIME DP - Unbound Medicine ER -