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Taxon K, a complex within the Burkholderia cepacia complex, comprises at least two novel species, Burkholderia contaminans sp nov and Burkholderia lata sp nov.

Elke Vanlaere, A Baldwin, Dirk Gevers UGent, D Henry, Evie De Brandt UGent, JJ LiPuma, E Mahenthiralingam, DP Speert, C Dowson and Peter Vandamme UGent (2009) INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY. 59. p.102-111
abstract
The aim of the present study was to re-examine the taxonomic position and structure of taxon K (also known as group K) within the Burkholderia cepacia complex (Bcc). For this purpose, a representative set of strains was examined by a traditional polyphasic taxonomic approach, by multilocus sequence typing (MLST) analysis and by analysis of available whole-genome sequences. Analysis of the recA gene sequence revealed three different lineages, designated recA-I recA-II and recA-III. DNA-DNA hybridization experiments demonstrated that recA-I and recA-II isolates each represented a single novel species. However, DNA-DNA hybridization values of recA-II strains towards recA-III strains and among recA-III strains were at the threshold level for species delineation. By MLST, recA-I isolates were clearly distinguished from the others and represented a distinct lineage referred to as MLST-I, whereas recA-II and recA-III isolates formed a second MLST lineage referred to as MLST-II. A divergence value of 3.5% was obtained when MLST-I was compared with MLST-II. The internal level of concatenated sequence divergence within MLST-I and MLST-II was 1.4 and 2.7%, respectively; by comparison with the level of concatenated sequence divergence in established Bcc species, these data demonstrate that the MLST-I and MLST-II lineages represent two distinct species within the Bcc. The latter conclusion was supported by comparison of the whole-genome average nucleotide identity (ANI) level of MLST-I and MLST-II strains with strains of established Bcc species and by a whole-genome-based phylogenetic analysis. We formally propose to classify taxon K bacteria from the MLST-I and MLST-II lineages as Burkholderia contaminans sp. nov. (with strain J2956(T) =LMG 23361(T) =CCUG 55526(T) as the type strain) and Burkholderia lata sp. nov. (with strain 383(T) =ATCC 17760(T) =LMG 22485(T) =CCUG 55525(T) as the type strain), respectively. The MLST approach was confirmed as a valuable instrument in polyphasic taxonomic studies; more importantly, the cumulative data for about 1000 Bcc isolates analysed demonstrate that the 3% concatenated sequence divergence level correlates with the 70% DNA-DNA hybridization or 95% whole-genome ANI threshold levels for species delineation.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
keyword
MULTIPLE SEQUENCE ALIGNMENT, CYSTIC-FIBROSIS, PCR TESTS, IDENTIFICATION, DNA, HYBRIDIZATION, STRAINS, OUTBREAK, PROKARYOTES, DIVERSITY
journal title
INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY
Int. J. Syst. Evol. Microbiol.
volume
59
pages
10 pages
publisher
SOC GENERAL MICROBIOLOGY
place of publication
READING
Web of Science type
Article
Web of Science id
000263404100019
JCR category
MICROBIOLOGY
JCR impact factor
2.113 (2009)
JCR rank
56/94 (2009)
JCR quartile
3 (2009)
ISSN
1466-5026
DOI
10.1099/ijs.0.001123-0
language
English
UGent publication?
yes
classification
A1
id
799595
handle
http://hdl.handle.net/1854/LU-799595
date created
2009-12-04 11:37:35
date last changed
2009-12-17 09:52:36
@article{799595,
  abstract     = {The aim of the present study was to re-examine the taxonomic position and structure of taxon K (also known as group K) within the Burkholderia cepacia complex (Bcc). For this purpose, a representative set of strains was examined by a traditional polyphasic taxonomic approach, by multilocus sequence typing (MLST) analysis and by analysis of available whole-genome sequences. Analysis of the recA gene sequence revealed three different lineages, designated recA-I recA-II and recA-III. DNA-DNA hybridization experiments demonstrated that recA-I and recA-II isolates each represented a single novel species. However, DNA-DNA hybridization values of recA-II strains towards recA-III strains and among recA-III strains were at the threshold level for species delineation. By MLST, recA-I isolates were clearly distinguished from the others and represented a distinct lineage referred to as MLST-I, whereas recA-II and recA-III isolates formed a second MLST lineage referred to as MLST-II. A divergence value of 3.5\% was obtained when MLST-I was compared with MLST-II. The internal level of concatenated sequence divergence within MLST-I and MLST-II was 1.4 and 2.7\%, respectively; by comparison with the level of concatenated sequence divergence in established Bcc species, these data demonstrate that the MLST-I and MLST-II lineages represent two distinct species within the Bcc. The latter conclusion was supported by comparison of the whole-genome average nucleotide identity (ANI) level of MLST-I and MLST-II strains with strains of established Bcc species and by a whole-genome-based phylogenetic analysis. We formally propose to classify taxon K bacteria from the MLST-I and MLST-II lineages as Burkholderia contaminans sp. nov. (with strain J2956(T) =LMG 23361(T) =CCUG 55526(T) as the type strain) and Burkholderia lata sp. nov. (with strain 383(T) =ATCC 17760(T) =LMG 22485(T) =CCUG 55525(T) as the type strain), respectively. The MLST approach was confirmed as a valuable instrument in polyphasic taxonomic studies; more importantly, the cumulative data for about 1000 Bcc isolates analysed demonstrate that the 3\% concatenated sequence divergence level correlates with the 70\% DNA-DNA hybridization or 95\% whole-genome ANI threshold levels for species delineation.},
  author       = {Vanlaere, Elke and Baldwin, A and Gevers, Dirk and Henry, D and De Brandt, Evie and LiPuma, JJ and Mahenthiralingam, E and Speert, DP and Dowson, C and Vandamme, Peter},
  issn         = {1466-5026},
  journal      = {INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY},
  keyword      = {MULTIPLE SEQUENCE ALIGNMENT,CYSTIC-FIBROSIS,PCR TESTS,IDENTIFICATION,DNA,HYBRIDIZATION,STRAINS,OUTBREAK,PROKARYOTES,DIVERSITY},
  language     = {eng},
  pages        = {102--111},
  publisher    = {SOC GENERAL MICROBIOLOGY},
  title        = {Taxon K, a complex within the Burkholderia cepacia complex, comprises at least two novel species, Burkholderia contaminans sp nov and Burkholderia lata sp nov.},
  url          = {http://dx.doi.org/10.1099/ijs.0.001123-0},
  volume       = {59},
  year         = {2009},
}

Chicago
Vanlaere, Elke, A Baldwin, Dirk Gevers, D Henry, Evie De Brandt, JJ LiPuma, E Mahenthiralingam, DP Speert, C Dowson, and Peter Vandamme. 2009. “Taxon K, a Complex Within the Burkholderia Cepacia Complex, Comprises at Least Two Novel Species, Burkholderia Contaminans Sp Nov and Burkholderia Lata Sp Nov.” International Journal of Systematic and Evolutionary Microbiology 59: 102–111.
APA
Vanlaere, E., Baldwin, A., Gevers, D., Henry, D., De Brandt, E., LiPuma, J., Mahenthiralingam, E., et al. (2009). Taxon K, a complex within the Burkholderia cepacia complex, comprises at least two novel species, Burkholderia contaminans sp nov and Burkholderia lata sp nov. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY, 59, 102–111.
Vancouver
1.
Vanlaere E, Baldwin A, Gevers D, Henry D, De Brandt E, LiPuma J, et al. Taxon K, a complex within the Burkholderia cepacia complex, comprises at least two novel species, Burkholderia contaminans sp nov and Burkholderia lata sp nov. INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY. READING: SOC GENERAL MICROBIOLOGY; 2009;59:102–11.
MLA
Vanlaere, Elke, A Baldwin, Dirk Gevers, et al. “Taxon K, a Complex Within the Burkholderia Cepacia Complex, Comprises at Least Two Novel Species, Burkholderia Contaminans Sp Nov and Burkholderia Lata Sp Nov.” INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY 59 (2009): 102–111. Print.