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

International Journal of Systematic and Evolutionary Microbiology

Volumn 58, Issue 7, 2008, Pages 1580-1590

  Vanlaera, Elke ^a   LiPuma, John J ^b   Baldwin, Adam ^c   Henry, Deborah ^d   Brandt, Evie De ^a   Mahenthiralingam, Eshwar ^e   Speert, David ^d   Dowson, Chris ^c   Vandamme, Peter ^a  

^a GHENT UNIVERSITY   (Belgium)

^b UNIVERSITY OF MICHIGAN MEDICAL SCHOOL   (United States)

^c UNIVERSITY OF WARWICK   (United Kingdom)

^d UNIVERSITY OF BRITISH COLUMBIA   (Canada)

^e CARDIFF UNIVERSITY   (United Kingdom)

Author keywords

[No Author keywords available]

Indexed keywords

BACTERIAL DNA; RECA PROTEIN; RNA 16S;

ACCURACY; ARTICLE; BACTERIAL GENETICS; BACTERIUM ISOLATE; BIOCHEMISTRY; BURKHOLDERIA; BURKHOLDERIA ARBORIS; BURKHOLDERIA CEPACIA; BURKHOLDERIA DIFFUSA; BURKHOLDERIA LATENS; BURKHOLDERIA METALLICA; BURKHOLDERIA SEMINALIS; DNA BINDING; DNA DNA HYBRIDIZATION; GENE CLUSTER; MULTILOCUS SEQUENCE TYPING; NONHUMAN; NUCLEOTIDE SEQUENCE; POLYMERASE CHAIN REACTION; PRIORITY JOURNAL; RESTRICTION FRAGMENT LENGTH POLYMORPHISM; SEQUENCE ANALYSIS; SEQUENCE HOMOLOGY; SPECIES IDENTIFICATION; TAXONOMY; BACTERIAL GENE; BURKHOLDERIA CEPACIA COMPLEX; CHEMISTRY; CLASSIFICATION; GENETICS; MOLECULAR GENETICS; NUCLEIC ACID HYBRIDIZATION; PHYLOGENY; SPECIES DIFFERENCE;

BURKHOLDERIA; BURKHOLDERIA CEPACIA COMPLEX; BURKHOLDERIA UBONENSIS;

BASE SEQUENCE; BURKHOLDERIA; BURKHOLDERIA CEPACIA COMPLEX; GENES, BACTERIAL; MOLECULAR SEQUENCE DATA; NUCLEIC ACID HYBRIDIZATION; PHYLOGENY; POLYMORPHISM, RESTRICTION FRAGMENT LENGTH; REC A RECOMBINASES; RNA, RIBOSOMAL, 16S; SPECIES SPECIFICITY;

EID: 52449132309     PISSN: 14665026     EISSN: None     Source Type: Journal    
DOI: 10.1099/ijs.0.65634-0     Document Type: Article

References (40)

1. Baldwin, A., Mahenthiralingam, E., Thickett, K. M., Honeybourne, D., Maiden, M. C., Govan, J. R., Speert, D. P., LiPuma, J. J., Vandamme, P. & Dowson, C. G. (2005). Multilocus sequence typing scheme that provides both species and strain differentiation for the Burkholderia cepacia complex. J Clin Microbiol 43, 4665-4673.
2. Chen, J. S., Witzmann, K. A., Spilker, T., Fink, R. J. & LiPuma, J. J. (2001). Endemicity and inter-city spread of Burkholderia cepacia genomovar III in cystic fibrosis. J Pediatr 139, 643-649.
3. Coenye, T. & Vandamme, P. (2003). Diversity and significance of Burkholderia species occupying diverse ecological niches. Environ Microbiol 5, 719-729.
4. Coenye, T., Laevens, S., Willems, A., Ohle̊n, M., Hannant, W., Govan, J. R., Gillis, M., Falsen, E. & Vandamme, P. (2001a). Burkholderia fungorum sp. nov. and Burkholderia caledonica sp. nov., two new species isolated from the environment, animals and human clinical samples. Int J Syst Evol Microbiol 51, 1099-1107.
5. Coenye, T., Mahenthiralingam, E., Henry, D., LiPuma, J. J., Laevens, S., Gillis, M., Speert, D. P. & Vandamme, P. (2001b). Burkholderia ambifaria sp. nov., a novel member of the Burkholderia cepacia complex including biocontrol and cystic fibrosis-related isolates. Int J Syst Evol Microbiol 51, 1481-1490.
6. Coenye, T., Vandamme, P., Govan, J. R. & LiPuma, J. J. (2001c). Taxonomy and identification of the Burkholderia cepacia complex. J Clin Microbiol 39, 3427-3436.
7. Coenye, T., Spilker, T., Martin, A. & LiPuma, J. J. (2002). Comparative assessment of genotyping methods for epidemiologic study of Burkholderia cepacia genomovar III. J Clin Microbiol 40, 3300-3307.
8. Coenye, T., Spilker, T., Van Schoor, A., LiPuma, J. J. & Vandamme, P. (2004). Recovery of Burkholderia cenocepacia strain PHDC from cystic fibrosis patients in Europe. Thorax 59, 952-954.
9. Ezaki, T., Hashimoto, Y. & Yabuuchi, E. (1989). Fluorometric deoxyribonucleic acid-deoxyribonucleic acid hybridization in microdilution wells as an alternative to membrane filter hybridization in which radioisotopes are used to determine genetic relatedness among bacterial strains. Int J Syst Bacteriol 39, 224-229.
10. 2-fixing isolates from rice in Vietnam. Int J Syst Bacteriol 45, 274-289.
11. Goris, J., Suzuki, K., De Vos, P., Nakase, T. & Kersters, K. (1998). Evaluation of a microplate DNA-DNA hybridization method compared with the initial renaturation method. Can J Microbiol 44, 1148-1153.
12. Goris, J., Dejonghe, W., Falsen, E., De Clerck, E., Geeraerts, B., Willems, A., Top, E. M., Vandamme, P. & De Vos, P. (2002). Diversity of transconjugants that acquired plasmid pJP4 or pEMT1 after inoculation of a donor strain in the A- and B-horizon of an agricultural soil and description of Burkholderia hospita sp. nov. and Burkholderia terricola sp. nov. Syst Appl Microbiol 25, 340-352.
13. Haubold, B. & Hudson, R. R. (2000). LIAN 3.0: detecting linkage disequilibrium in multilocus data. Bioinformatics 16, 847-848.
14. Henry, D. A., Campbell, M. E., LiPuma, J. J. & Speert, D. P. (1997). Identification of Burkholderia cepacia isolates from patients with cystic fibrosis and use of a simple new selective medium. J Clin Microbiol 35, 614-619.
15. Henry, D. A., Mahenthiralingam, E., Vandamme, P., Coenye, T. & Speert, D. P. (2001). Phenotypic methods for determining genomovar status of the Burkholderia cepacia complex. J Clin Microbiol 39, 1073-1078.
16. Jolley, K. A., Chan, M.-S. & Maiden, M. C. (2004). mlstdbNet - distributed multi-locus sequence typing (MLST) databases. BMC Bioinformatics 5, 86.
17. Kumar, S., Tamura, K. & Nei, M. (2004). MEGA3: integrated software for molecular evolutionary genetics analysis and sequence alignment. Brief Bioinform 5, 150-163.
18. LiPuma, J. J., Spilker, T., Coenye, T. & Gonzalez, C. F. (2002). An epidemic Burkholderia cepacia complex strain identified in soil. Lancet 359, 2002-2003.
19. LiPuma, J. J., Currie, B. J., Lum, G. D. & Vandamme, P. A. R. (2007). Burkholderia, Stenotrophomonas, Ralstonia, Cupriavidus, Pandoraea, Brevundimonas, Comamonas, Delftia, and Acidovorax. In Manual of Clinical Microbiology, 9th edn, vol. 1, pp. 749-769. Edited by P. R. Murray, E. J. Baron, J. H. Jorgensen, M. L. Landry & M. A. Pfaller. Washington, DC: American Society for Microbiology.
20. Mahenthiralingam, E., Coenye, T., Chung, J. W., Speert, D. P., Govan, J. R., Taylor, P. & Vandamme, P. (2000a). Diagnostically and experimentally useful panel of strains from the Burkholderia cepacia complex. J Clin Microbiol 38, 910-913.
21. Mahenthiralingam, E., Bischof, J., Byrne, S. K., Radomski, C., Davies, J. E., Av-Gay, Y. & Vandamme, P. (2000b). DNA-based diagnostic approaches for identification of Burkholderia cepacia complex, Burkholderia vietnamiensis, Burkholderia multivorans, Burkholderia stabilis, and Burkholderia cepacia genomovars I and III. J Clin Microbiol 38, 3165-3173.
22. Mahenthiralingam, E., Baldwin, A. & Vandamme, P. (2002). Burkholderia cepacia complex infection in patients with cystic fibrosis. J Med Microbiol 51, 533-538.
23. Mahenthiralingam, E., Urban, T. A. & Goldberg, J. B. (2005). The multifarious, multireplicon Burkholderia cepacia complex. Nat Rev Microbiol 3, 144-156.
24. Marmur, J. (1961). A procedure for the isolation of deoxyribonucleic acid from microorganisms. J Mol Biol 3, 208-218.
25. McDowell, A., Mahenthiralingam, E., Moore, J. E., Dunbar, K. E., Webb, A. K., Dodd, M. E., Martin, S. L., Millar, B. C., Scott, C. J. & other authors (2001). PCR-based detection and identification of Burkholderia cepacia complex pathogens in sputum from cystic fibrosis patients. J Clin Microbiol 39, 4247-4255.
26. Mesbah, M. & Whitman, W. B. (1989). Measurement of deoxyguanosine/thymidine ratios in complex mixtures by high-performance liquid chromatography for determination of the mole percentage guanine + cytosine of DNA. J Chromatogr 479, 297-306.
27. Parke, J. L. & Gurian-Sherman, D. (2001). Diversity of the Burkholderia cepacia complex and implications for risk assessment of biological control strains. Annu Rev Phytopathol 39, 225-258.
28. Payne, G. W., Vandamme, P., Morgan, S. H., LiPuma, J. J., Coenye, T., Weightman, A. J., Jones, T. H. & Mahenthiralingam, E. (2005). Development of a recA gene-based identification approach for the entire Burkholderia genus. Appl Environ Microbiol 71, 3917-3927.
29. Pitcher, D. G., Saunders, N. A. & Owen, R. J. (1989). Rapid extraction of bacterial genomic DNA with guanidium thiocyanate. Lett Appl Microbiol 8, 151-156.
30. Rademaker, J. L., Hoste, B., Louws, F. J., Kersters, K., Swings, J., Vauterin, L., Vauterin, P. & de Bruijn, F. J. (2000). Comparison of AFLP and rep-PCR genomic fingerprinting with DNA-DNA homology studies: Xanthomonas as a model system. Int J Syst Evol Microbiol 50, 665-677.
31. Storms, V., Van den Vreken, N., Coenye, T., Mahenthiralingam, E., LiPuma, J. J., Gillis, M. & Vandamme, P. (2004). Polyphasic characterisation of Burkholderia cepacia-like isolates leading to the emended description of Burkholderia pyrrocinia. Syst Appl Microbiol 27, 517-526.
32. Thompson, J. D., Gibson, T. J., Plewniak, F., Jeanmougin, F. & Higgins, D. G. (1997). The CLUSTAL_X windows interface: flexible strategies for multiple sequence alignment aided by quality analysis tools. Nucleic Acids Res 25, 4876-4882.
33. Vandamme, P., Holmes, B., Vancanneyt, M., Coenye, T., Hoste, B., Coopman, R., Revets, H., Lauwers, S., Gillis, M. & other authors (1997). Occurrence of multiple genomovars of Burkholderia cepacia in cystic fibrosis patients and proposal of Burkholderia multivorans sp. nov. Int J Syst Bacteriol 47, 1188-1200.
34. Vandamme, P., Mahenthiralingam, E., Holmes, B., Coenye, T., Hoste, B., De Vos, P., Henry, D. & Speert, D. P. (2000). Identification and population structure of Burkholderia stabilis sp. nov. (formerly Burkholderia cepacia genomovar IV). J Clin Microbiol 38, 1042-1047.
35. Vandamme, P., Henry, D., Coenye, T., Nzula, S., Vancanneyt, M., LiPuma, J. J., Speert, D. P., Govan, J. R. & Mahenthiralingam, E. (2002). Burkholderia anthina sp. nov. and Burkholderia pyrrocinia, two additional Burkholderia cepacia complex bacteria, may confound results of new molecular diagnostic tools. FEMS Immunol Med Microbiol 33, 143-149.
36. Vandamme, P., Holmes, B., Coenye, T., Goris, J., Mahenthiralingam, E., LiPuma, J. J. & Govan, J. R. (2003). Burkholderia cenocepacia sp. nov. - a new twist to an old story. Res Microbiol 154, 91-96.
37. Vandamme, P. A. R., Govan, J. R. W. & LiPuma, J. J. (2007). Diversity and role of Burkholderia spp. In Burkholderia Molecular Microbiology and Genomics, vol. 1, pp. 1-28. Edited by T. Coenye & P. Vandamme. Wymondham, UK: Horizon Bioscience.
38. Vanlaere, E., Coenye, T., Samyn, E., Van Den Plas, C., Govan, J., De Baets, F., De Boeck, K., Knoop, C. & Vandamme, P. (2005). A novel strategy for the isolation and identification of environmental Burkholderia cepacia complex bacteria. FEMS Microbiol Lett 249, 303-307.
39. Vermis, K., Coenye, T., LiPuma, J. J., Mahenthiralingam, E., Nelis, H. J. & Vandamme, P. (2004). Proposal to accommodate Burkholderia cepacia genomovar VI as Burkholderia dolosa sp. nov. Int J Syst Evol Microbiol 54, 689-691.
40. Yabuuchi, E., Kawamura, Y., Ezaki, T., Ikedo, M., Dejsirilert, S., Fujiwara, N., Naka, T. & Kobayashi, K. (2000). Burkholderia uboniae sp. nov., L-arabinose-assimilating but different from Burkholderia thailandensis and Burkholderia vietnamiensis. Microbiol Immunol 44, 307-317.