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Comparative genomics of Burkholderia singularis sp. nov., a low G+C content, free-living bacterium that defies taxonomic dissection of the genus Burkholderia

Peter Vandamme UGent, Charlotte Peeters UGent, Birgit De Smet, Erin P Price, Derek S Sarovich, Deborah A Henry, Trevor J Hird, James EA Zlosnik, Mark Mayo, Jeffrey Warner, et al. (2017) FRONTIERS IN MICROBIOLOGY. 8.
abstract
Four Burkholderia pseudomallei-like isolates of human clinical origin were examined by a polyphasic taxonomic approach that included comparative whole genome analyses. The results demonstrated that these isolates represent a rare and unusual, novel Burkholderia species for which we propose the name B. singularis. The type strain is LMG 28154(T) (=CCUG 65685(T)). Its genome sequence has an average mol% G+C content of 64.34%, which is considerably lower than that of other Burkholderia species. The reduced G+C content of strain LMG 28154(T) was characterized by a genome wide AT bias that was not due to reduced GC-biased gene conversion or reductive genome evolution, but might have been caused by an altered DNA base excision repair pathway. B. singularis can be differentiated from other Burkholderia species by multilocus sequence analysis, MALDI-TOF mass spectrometry and a distinctive biochemical profile that includes the absence of nitrate reduction, a mucoid appearance on Columbia sheep blood agar, and a slowly positive oxidase reaction. Comparisons with publicly available whole genome sequences demonstrated that strain TSV85, an Australian water isolate, also represents the same species and therefore, to date, B. singularis has been recovered from human or environmental samples on three continents.
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
Burkholderia singularis, whole genome sequence, cystic fibrosis microbiology, comparative genomics, Burkholderia pseudomallei complex, Burkholderia cepacia complex, MULTIPLE SEQUENCE ALIGNMENT, CEPACIA COMPLEX, CYSTIC-FIBROSIS, COLONY MORPHOLOGY, MOLECULAR-BIOLOGY, ESCHERICHIA-COLI, HIGH-THROUGHPUT, DNA-POLYMERASE, COMB-NOV, PSEUDOMALLEI
journal title
FRONTIERS IN MICROBIOLOGY
Front. Microbiol.
volume
8
article number
1679
pages
14 pages
Web of Science type
Article
Web of Science id
000409370500001
ISSN
1664-302X
DOI
10.3389/fmicb.2017.01679
language
English
UGent publication?
yes
classification
A1
copyright statement
I have retained and own the full copyright for this publication
id
8530350
handle
http://hdl.handle.net/1854/LU-8530350
date created
2017-09-06 07:03:56
date last changed
2017-11-21 13:50:44
@article{8530350,
  abstract     = {Four Burkholderia pseudomallei-like isolates of human clinical origin were examined by a polyphasic taxonomic approach that included comparative whole genome analyses. The results demonstrated that these isolates represent a rare and unusual, novel Burkholderia species for which we propose the name B. singularis. The type strain is LMG 28154(T) (=CCUG 65685(T)). Its genome sequence has an average mol\% G+C content of 64.34\%, which is considerably lower than that of other Burkholderia species. The reduced G+C content of strain LMG 28154(T) was characterized by a genome wide AT bias that was not due to reduced GC-biased gene conversion or reductive genome evolution, but might have been caused by an altered DNA base excision repair pathway. B. singularis can be differentiated from other Burkholderia species by multilocus sequence analysis, MALDI-TOF mass spectrometry and a distinctive biochemical profile that includes the absence of nitrate reduction, a mucoid appearance on Columbia sheep blood agar, and a slowly positive oxidase reaction. Comparisons with publicly available whole genome sequences demonstrated that strain TSV85, an Australian water isolate, also represents the same species and therefore, to date, B. singularis has been recovered from human or environmental samples on three continents.},
  articleno    = {1679},
  author       = {Vandamme, Peter and Peeters, Charlotte and De Smet, Birgit and Price, Erin P and Sarovich, Derek S and Henry, Deborah A and Hird, Trevor J and Zlosnik, James EA and Mayo, Mark and Warner, Jeffrey and Baker, Anthony and Currie, Bart J and Carlier, Aur{\'e}lien},
  issn         = {1664-302X},
  journal      = {FRONTIERS IN MICROBIOLOGY},
  keyword      = {Burkholderia singularis,whole genome sequence,cystic fibrosis microbiology,comparative genomics,Burkholderia pseudomallei complex,Burkholderia cepacia complex,MULTIPLE SEQUENCE ALIGNMENT,CEPACIA COMPLEX,CYSTIC-FIBROSIS,COLONY MORPHOLOGY,MOLECULAR-BIOLOGY,ESCHERICHIA-COLI,HIGH-THROUGHPUT,DNA-POLYMERASE,COMB-NOV,PSEUDOMALLEI},
  language     = {eng},
  pages        = {14},
  title        = {Comparative genomics of Burkholderia singularis sp. nov., a low G+C content, free-living bacterium that defies taxonomic dissection of the genus Burkholderia},
  url          = {http://dx.doi.org/10.3389/fmicb.2017.01679},
  volume       = {8},
  year         = {2017},
}

Chicago
Vandamme, Peter, Charlotte Peeters, Birgit De Smet, Erin P Price, Derek S Sarovich, Deborah A Henry, Trevor J Hird, et al. 2017. “Comparative Genomics of Burkholderia Singularis Sp. Nov., a Low G+C Content, Free-living Bacterium That Defies Taxonomic Dissection of the Genus Burkholderia.” Frontiers in Microbiology 8.
APA
Vandamme, P., Peeters, C., De Smet, B., Price, E. P., Sarovich, D. S., Henry, D. A., Hird, T. J., et al. (2017). Comparative genomics of Burkholderia singularis sp. nov., a low G+C content, free-living bacterium that defies taxonomic dissection of the genus Burkholderia. FRONTIERS IN MICROBIOLOGY, 8.
Vancouver
1.
Vandamme P, Peeters C, De Smet B, Price EP, Sarovich DS, Henry DA, et al. Comparative genomics of Burkholderia singularis sp. nov., a low G+C content, free-living bacterium that defies taxonomic dissection of the genus Burkholderia. FRONTIERS IN MICROBIOLOGY. 2017;8.
MLA
Vandamme, Peter, Charlotte Peeters, Birgit De Smet, et al. “Comparative Genomics of Burkholderia Singularis Sp. Nov., a Low G+C Content, Free-living Bacterium That Defies Taxonomic Dissection of the Genus Burkholderia.” FRONTIERS IN MICROBIOLOGY 8 (2017): n. pag. Print.