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Article: Analysis of multilocus sequence typing schemes for 35 different bacteria revealed that gene loci of 10 bacteria could be replaced to improve cost-effectiveness
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TitleAnalysis of multilocus sequence typing schemes for 35 different bacteria revealed that gene loci of 10 bacteria could be replaced to improve cost-effectiveness
 
AuthorsWoo, PCY1
Tsang, AKL1
Wong, AYP1
Chen, H2
Chu, J1
Lau, SKP1
Yuen, KY1
 
KeywordsBacteria
Gene
MLST
Typing
 
Issue Date2011
 
PublisherElsevier Inc. The Journal's web site is located at http://www.elsevier.com/locate/diagmicrobio
 
CitationDiagnostic Microbiology And Infectious Disease, 2011, v. 70 n. 3, p. 316-323 [How to Cite?]
DOI: http://dx.doi.org/10.1016/j.diagmicrobio.2011.03.006
 
AbstractAlthough multilocus sequence typing (MLST) has been widely used for bacterial typing, the contribution of the gene loci to the discriminatory power of each MLST scheme is unknown. We analyzed the discriminatory powers of 36 MLST schemes using all combinations of the 7 loci and contributions of each locus to the schemes. In 10 schemes, sequencing 6 loci can achieve the discriminatory powers of 7 loci. For the other 26 schemes, the median marginal increase in discriminatory power when 7 instead of 6 loci were used is 0.0004. Sequencing the 7 loci of 50 strains each of Pseudomonas aeruginosa and Acinetobacter baumannii revealed that the discriminatory power for P. aeruginosa was 0.9861 when either 6 (without trp) or 7 loci were used and that for A. baumannii was 0.9363 when 5, 6, or 7 loci were used. Genes that have no additional or minimal contribution to the overall discriminatory powers should be replaced. © 2011 Elsevier Inc.
 
ISSN0732-8893
2012 Impact Factor: 2.26
2012 SCImago Journal Rankings: 0.971
 
DOIhttp://dx.doi.org/10.1016/j.diagmicrobio.2011.03.006
 
ISI Accession Number IDWOS:000292441100005
Funding AgencyGrant Number
Health, Welfare and Food Bureau, Research Grants Council
University of Hong Kong
Funding Information:

This work is partly supported by the HKSAR Research Fund for the Control of Infectious Diseases of the Health, Welfare and Food Bureau, Research Grants Council Grant and University Development Fund, The University of Hong Kong.

 
ReferencesReferences in Scopus
 
DC FieldValue
dc.contributor.authorWoo, PCY
 
dc.contributor.authorTsang, AKL
 
dc.contributor.authorWong, AYP
 
dc.contributor.authorChen, H
 
dc.contributor.authorChu, J
 
dc.contributor.authorLau, SKP
 
dc.contributor.authorYuen, KY
 
dc.date.accessioned2011-07-27T01:30:52Z
 
dc.date.available2011-07-27T01:30:52Z
 
dc.date.issued2011
 
dc.description.abstractAlthough multilocus sequence typing (MLST) has been widely used for bacterial typing, the contribution of the gene loci to the discriminatory power of each MLST scheme is unknown. We analyzed the discriminatory powers of 36 MLST schemes using all combinations of the 7 loci and contributions of each locus to the schemes. In 10 schemes, sequencing 6 loci can achieve the discriminatory powers of 7 loci. For the other 26 schemes, the median marginal increase in discriminatory power when 7 instead of 6 loci were used is 0.0004. Sequencing the 7 loci of 50 strains each of Pseudomonas aeruginosa and Acinetobacter baumannii revealed that the discriminatory power for P. aeruginosa was 0.9861 when either 6 (without trp) or 7 loci were used and that for A. baumannii was 0.9363 when 5, 6, or 7 loci were used. Genes that have no additional or minimal contribution to the overall discriminatory powers should be replaced. © 2011 Elsevier Inc.
 
dc.description.natureLink_to_subscribed_fulltext
 
dc.identifier.citationDiagnostic Microbiology And Infectious Disease, 2011, v. 70 n. 3, p. 316-323 [How to Cite?]
DOI: http://dx.doi.org/10.1016/j.diagmicrobio.2011.03.006
 
dc.identifier.citeulike9316589
 
dc.identifier.doihttp://dx.doi.org/10.1016/j.diagmicrobio.2011.03.006
 
dc.identifier.epage323
 
dc.identifier.hkuros187230
 
dc.identifier.isiWOS:000292441100005
Funding AgencyGrant Number
Health, Welfare and Food Bureau, Research Grants Council
University of Hong Kong
Funding Information:

This work is partly supported by the HKSAR Research Fund for the Control of Infectious Diseases of the Health, Welfare and Food Bureau, Research Grants Council Grant and University Development Fund, The University of Hong Kong.

 
dc.identifier.issn0732-8893
2012 Impact Factor: 2.26
2012 SCImago Journal Rankings: 0.971
 
dc.identifier.issue3
 
dc.identifier.openurl
 
dc.identifier.pmid21558049
 
dc.identifier.scopuseid_2-s2.0-79959241403
 
dc.identifier.spage316
 
dc.identifier.urihttp://hdl.handle.net/10722/135262
 
dc.identifier.volume70
 
dc.languageeng
 
dc.publisherElsevier Inc. The Journal's web site is located at http://www.elsevier.com/locate/diagmicrobio
 
dc.publisher.placeUnited States
 
dc.relation.ispartofDiagnostic Microbiology and Infectious Disease
 
dc.relation.referencesReferences in Scopus
 
dc.subjectBacteria
 
dc.subjectGene
 
dc.subjectMLST
 
dc.subjectTyping
 
dc.titleAnalysis of multilocus sequence typing schemes for 35 different bacteria revealed that gene loci of 10 bacteria could be replaced to improve cost-effectiveness
 
dc.typeArticle
 
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Author Affiliations
  1. The University of Hong Kong
  2. Capital Medical University China