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

PLoS ONE

Volumn 8, Issue 8, 2013, Pages

  Price, Erin P ^a   Sarovich, Derek S ^a   Webb, Jessica R ^a   Ginther, Jennifer L ^b   Mayo, Mark ^a   Cook, James M ^b   Seymour, Meagan L ^b   Kaestli, Mirjam ^a   Theobald, Vanessa ^a   Hall, Carina M ^b   Busch, Joseph D ^b   Foster, Jeffrey T ^b   Keim, Paul ^b   Wagner, David M ^b   Tuanyok, Apichai ^b   Pearson, Talima ^b   Currie, Bart J ^a  

^a MENZIES SCHOOL OF HEALTH RESEARCH   (Australia)

^b NORTHERN ARIZONA UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed 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; BURKHOLDERIA; BURKHOLDERIA PSEUDOMALLEI; GENOME, BACTERIAL; PHENOTYPE; REAL-TIME POLYMERASE CHAIN REACTION; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; WATER MICROBIOLOGY;

EID: 84881490139     PISSN: None     EISSN: 19326203     Source Type: Journal    
DOI: 10.1371/journal.pone.0071647     Document Type: Article

References (28)

1. Coenye T, Vandamme P, (2003) Diversity and significance of Burkholderia species occupying diverse ecological niches. Environ Microbiol 5: 719-729.
2. Gillis M, Tran Van V, Bardin R, Goor M, Hebbar P, et al. (1995) Polyphasic taxonomy in the genus Burkholderia leading to an emended description of the genus and proposition of Burkholderia vietnamiensis sp. nov. for N2-fixing isolates from rice in Vietnam. Int J Syst Evol Microbiol 2: 274-289.
3. Wuthiekanun V, Smith MD, Dance DA, White NJ, (1995) Isolation of Pseudomonas pseudomallei from soil in north-eastern Thailand. Trans R Soc Trop Med Hyg 89: 41-43.
4. Dance DAB (2005) Melioidosis and glanders as possible biological weapons. In: Bioterrorism and infectious agents A new dilemma for the 21st century. New York: Springer Science and Business Media. 99-145.
5. Currie BJ, Dance DA, Cheng AC, (2008) The global distribution of Burkholderia pseudomallei and melioidosis: an update. Trans R Soc Trop Med Hyg 102Suppl 1: S1-4.
6. Limmathurotsakul D, Dance DA, Wuthiekanun V, Kaestli M, Mayo M, et al. (2013) Systematic Review and Consensus Guidelines for Environmental Sampling of Burkholderia pseudomallei. PLoS Negl Trop Dis 7: e2105.
7. Vanlaere E, Lipuma JJ, Baldwin A, Henry D, De Brandt E, et al. (2008) Burkholderia latens sp. nov., Burkholderia diffusa sp. nov., Burkholderia arboris sp. nov., Burkholderia seminalis sp. nov. and Burkholderia metallica sp. nov., novel species within the Burkholderia cepacia complex. Int J Syst Evol Microbiol 58: 1580-1590.
8. Baldwin A, Mahenthiralingam E, Thickett KM, Honeybourne D, Maiden MC, et al. (2005) Multilocus sequence typing scheme that provides both species and strain differentiation for the Burkholderia cepacia complex. J Clin Microbiol 43: 4665-4673.
9. Kman NE, Bachmann DJ, (2012) Biosurveillance: a review and update. Adv Prev Med 2012: 301408.
10. Glass MB, Beesley CA, Wilkins PP, Hoffmaster AR, (2009) Comparison of four selective media for the isolation of Burkholderia mallei and Burkholderia pseudomallei. Am J Trop Med Hyg 80: 1023-1028.
11. Lowe P, Engler C, Norton R, (2002) Comparison of automated and nonautomated systems for identification of Burkholderia pseudomallei. J Clin Microbiol 40: 4625-4627.
12. Mayo M, Kaesti M, Harrington G, Cheng AC, Ward L, et al. (2011) Burkholderia pseudomallei in unchlorinated domestic bore water, Tropical Northern Australia. Emerg Infect Dis 17: 1283-1285.
13. Ashdown LR, (1979) An improved screening technique for isolation of Pseudomonas pseudomallei from clinical specimens. Pathology 11: 293-297.
14. Levy A, Merritt AJ, Aravena-Roman M, Hodge MM, Inglis TJ, (2008) Expanded range of Burkholderia species in Australia. Am J Trop Med Hyg 78: 599-604.
15. Marshall K, Shakya S, Greenhill AR, Padill G, Baker A, et al. (2010) Antibiosis of Burkholderia ubonensis against Burkholderia pseudomallei, the causative agent for melioidosis. Southeast Asian J Trop Med Public Health 41: 904-912.
16. Yabuuchi E, Kawamura Y, Ezaki T, Ikedo M, Dejsirilert S, et al. (2000) Burkholderia uboniae sp. nov., L-arabinose-assimilating but different from Burkholderia thailandensis and Burkholderia vietnamiensis. Microbiol Immunol 44: 307-317.
17. Godoy D, Randle G, Simpson AJ, Aanensen DM, Pitt TL, et al. (2003) Multilocus sequence typing and evolutionary relationships among the causative agents of melioidosis and glanders, Burkholderia pseudomallei and Burkholderia mallei. J Clin Microbiol 41: 2068-2079.
18. Payne GW, Vandamme P, Morgan SH, Lipuma JJ, Coenye T, et al. (2005) Development of a recA gene-based identification approach for the entire Burkholderia genus. Appl Environ Microbiol 71: 3917-3927.
19. Novak RT, Glass MB, Gee JE, Gal D, Mayo MJ, et al. (2006) Development and evaluation of a real-time PCR assay targeting the type III secretion system of Burkholderia pseudomallei. J Clin Microbiol 44: 85-90.
20. Currie BJ, Gal D, Mayo M, Ward L, Godoy D, et al. (2007) Using BOX-PCR to exclude a clonal outbreak of melioidosis. BMC Infect Dis 7: 68.
21. Zerbino DR, Birney E, (2008) Velvet: algorithms for de novo short read assembly using de Bruijn graphs. Genome Res 18: 821-829.
22. Li H, Durbin R, (2009) Fast and accurate short read alignment with Burrows-Wheeler transform. Bioinformatics 25: 1754-1760.
23. Quinlan AR, Hall IM, (2010) BEDTools: a flexible suite of utilities for comparing genomic features. Bioinformatics 26: 841-842.
24. Chantratita N, Wuthiekanun V, Boonbumrung K, Tiyawisutsri R, Vesaratchavest M, et al. (2007) Biological relevance of colony morphology and phenotypic switching by Burkholderia pseudomallei. J Bacteriol 189: 807-817.
25. Sowers B, Reddington M, Lyttle M, Johansson MK, Cook R (2004) CAL Fluor™ dyes: Multiplexing reporters for real-time PCR instruments and probe designs. Quantitative PCR. San Diego, CA: Biosearch Technologies.
26. White NJ, (2003) Melioidosis. Lancet 361: 1715-1722.
27. Peacock SJ, Chieng G, Cheng AC, Dance DA, Amornchai P, et al. (2005) Comparison of Ashdown's medium, Burkholderia cepacia medium, and Burkholderia pseudomallei selective agar for clinical isolation of Burkholderia pseudomallei. J Clin Microbiol 43: 5359-5361.
28. Gee JE, Glass MB, Novak RT, Gal D, Mayo MJ, et al. (2008) Recovery of a Burkholderia thailandensis-like isolate from an Australian water source. BMC Microbiol 8: 54.