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An MLSA-based online scheme for the rapid identification of Stenotrophomonas isolates

Patrícia Locosque Ramos, Carlos Alberto Moreira-Filho, Stefanie Van Trappen UGent, Jean Swings UGent, Paul De Vos UGent, Heloiza Ramos Barbosa, Cristiane Carneiro Thompson, Ana Tereza Ribeiro Vasconcelos and Fabiano Lopes Thompson (2011) MEMORIAS DO INSTITUTO OSWALDO CRUZ. 106(4). p.394-399
abstract
An online scheme to assign Stenotrophomonas isolates to genomic groups was developed using the multilocus sequence analysis (MLSA), which is based on the DNA sequencing of selected fragments of the housekeeping genes ATP synthase alpha subunit (atpA), the recombination repair protein (recA), the RNA polymerase alpha subunit (rpoA) and the excision repair beta subunit (uvrB). This MLSA-based scheme was validated using eight of the 10 Stenotrophomonas species that have been previously described. The environmental and nosocomial Stenotrophomonas strains were characterised using MLSA, 16S rRNA sequencing and DNA-DNA hybridisation (DDH) analyses. Strains of the same species were found to have greater than 95% concatenated sequence similarity and specific strains formed cohesive readily recognisable phylogenetic groups. Therefore, MLSA appeared to be an effective alternative methodology to amplified fragment length polymorphism fingerprint and DDH techniques. Strains of Stenotrophomonas can be readily assigned through the open database resource that was developed in the current study (www.steno.lncc.br/).
Please use this url to cite or link to this publication:
author
organization
year
type
journalArticle (original)
publication status
published
subject
keyword
MLSA, Stenotrophomonas, online scheme, MULTILOCUS SEQUENCE-ANALYSIS, SP-NOV., GENUS STENOTROPHOMONAS, MALTOPHILIA INFECTIONS, DRUG-RESISTANCE, BACTERIA, PHYLOGENY, PATHOGEN, STRAINS, PLANT
journal title
MEMORIAS DO INSTITUTO OSWALDO CRUZ
Mem. Inst. Oswaldo Cruz
volume
106
issue
4
pages
394 - 399
Web of Science type
Article
Web of Science id
000292402300003
JCR category
TROPICAL MEDICINE
JCR impact factor
2.147 (2011)
JCR rank
7/20 (2011)
JCR quartile
2 (2011)
ISSN
0074-0276
language
English
UGent publication?
yes
classification
A1
copyright statement
I have retained and own the full copyright for this publication
id
2130445
handle
http://hdl.handle.net/1854/LU-2130445
alternative location
http://www.scielo.br/scielo.php?script=sci_arttext&pid=S0074-02762011000400003&lng=en&nrm=iso&tlng=en
date created
2012-06-04 11:11:27
date last changed
2012-06-18 17:00:47
@article{2130445,
  abstract     = {An online scheme to assign Stenotrophomonas isolates to genomic groups was developed using the multilocus sequence analysis (MLSA), which is based on the DNA sequencing of selected fragments of the housekeeping genes ATP synthase alpha subunit (atpA), the recombination repair protein (recA), the RNA polymerase alpha subunit (rpoA) and the excision repair beta subunit (uvrB). This MLSA-based scheme was validated using eight of the 10 Stenotrophomonas species that have been previously described. The environmental and nosocomial Stenotrophomonas strains were characterised using MLSA, 16S rRNA sequencing and DNA-DNA hybridisation (DDH) analyses. Strains of the same species were found to have greater than 95\% concatenated sequence similarity and specific strains formed cohesive readily recognisable phylogenetic groups. Therefore, MLSA appeared to be an effective alternative methodology to amplified fragment length polymorphism fingerprint and DDH techniques. Strains of Stenotrophomonas can be readily assigned through the open database resource that was developed in the current study (www.steno.lncc.br/).},
  author       = {Ramos, Patr{\'i}cia Locosque and Moreira-Filho, Carlos Alberto and Van Trappen, Stefanie and Swings, Jean and De Vos, Paul and Barbosa, Heloiza Ramos and Thompson, Cristiane Carneiro and Ribeiro Vasconcelos, Ana Tereza and Thompson, Fabiano Lopes},
  issn         = {0074-0276},
  journal      = {MEMORIAS DO INSTITUTO OSWALDO CRUZ},
  keyword      = {MLSA,Stenotrophomonas,online scheme,MULTILOCUS SEQUENCE-ANALYSIS,SP-NOV.,GENUS STENOTROPHOMONAS,MALTOPHILIA INFECTIONS,DRUG-RESISTANCE,BACTERIA,PHYLOGENY,PATHOGEN,STRAINS,PLANT},
  language     = {eng},
  number       = {4},
  pages        = {394--399},
  title        = {An MLSA-based online scheme for the rapid identification of Stenotrophomonas isolates},
  url          = {http://www.scielo.br/scielo.php?script=sci\_arttext\&pid=S0074-02762011000400003\&lng=en\&nrm=iso\&tlng=en},
  volume       = {106},
  year         = {2011},
}

Chicago
Ramos, Patrícia Locosque, Carlos Alberto Moreira-Filho, Stefanie Van Trappen, Jean Swings, Paul De Vos, Heloiza Ramos Barbosa, Cristiane Carneiro Thompson, Ana Tereza Ribeiro Vasconcelos, and Fabiano Lopes Thompson. 2011. “An MLSA-based Online Scheme for the Rapid Identification of Stenotrophomonas Isolates.” Memorias Do Instituto Oswaldo Cruz 106 (4): 394–399.
APA
Ramos, Patrícia Locosque, Moreira-Filho, C. A., Van Trappen, S., Swings, J., De Vos, P., Barbosa, H. R., Thompson, C. C., et al. (2011). An MLSA-based online scheme for the rapid identification of Stenotrophomonas isolates. MEMORIAS DO INSTITUTO OSWALDO CRUZ, 106(4), 394–399.
Vancouver
1.
Ramos PL, Moreira-Filho CA, Van Trappen S, Swings J, De Vos P, Barbosa HR, et al. An MLSA-based online scheme for the rapid identification of Stenotrophomonas isolates. MEMORIAS DO INSTITUTO OSWALDO CRUZ. 2011;106(4):394–9.
MLA
Ramos, Patrícia Locosque, Carlos Alberto Moreira-Filho, Stefanie Van Trappen, et al. “An MLSA-based Online Scheme for the Rapid Identification of Stenotrophomonas Isolates.” MEMORIAS DO INSTITUTO OSWALDO CRUZ 106.4 (2011): 394–399. Print.