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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

TitleAnalysis of multilocus sequence typing schemes for 35 different bacteria revealed that gene loci of 10 bacteria could be replaced to improve cost-effectiveness
Authors
KeywordsBacteria
Gene
MLST
Typing
Issue Date2011
PublisherElsevier Inc. The Journal's web site is located at http://www.elsevier.com/locate/diagmicrobio
Citation
Diagnostic Microbiology And Infectious Disease, 2011, v. 70 n. 3, p. 316-323 How to Cite?
Abstract
Although 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.
Persistent Identifierhttp://hdl.handle.net/10722/135262
ISSN
2013 Impact Factor: 2.568
2013 SCImago Journal Rankings: 1.275
ISI Accession Number ID
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.

References

 

Author Affiliations
  1. The University of Hong Kong
  2. Capital Medical University China
DC FieldValueLanguage
dc.contributor.authorWoo, PCYen_HK
dc.contributor.authorTsang, AKLen_HK
dc.contributor.authorWong, AYPen_HK
dc.contributor.authorChen, Hen_HK
dc.contributor.authorChu, Jen_HK
dc.contributor.authorLau, SKPen_HK
dc.contributor.authorYuen, KYen_HK
dc.date.accessioned2011-07-27T01:30:52Z-
dc.date.available2011-07-27T01:30:52Z-
dc.date.issued2011en_HK
dc.identifier.citationDiagnostic Microbiology And Infectious Disease, 2011, v. 70 n. 3, p. 316-323en_HK
dc.identifier.issn0732-8893en_HK
dc.identifier.urihttp://hdl.handle.net/10722/135262-
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.en_HK
dc.languageengen_US
dc.publisherElsevier Inc. The Journal's web site is located at http://www.elsevier.com/locate/diagmicrobioen_HK
dc.relation.ispartofDiagnostic Microbiology and Infectious Diseaseen_HK
dc.subjectBacteriaen_HK
dc.subjectGeneen_HK
dc.subjectMLSTen_HK
dc.subjectTypingen_HK
dc.titleAnalysis of multilocus sequence typing schemes for 35 different bacteria revealed that gene loci of 10 bacteria could be replaced to improve cost-effectivenessen_HK
dc.typeArticleen_HK
dc.identifier.openurlhttp://library.hku.hk:4550/resserv?sid=HKU:IR&issn=0732-8893&volume=70&issue=3&spage=316&epage=323&date=2011&atitle=Analysis+of+multilocus+sequence+typing+schemes+for+35+different+bacteria+revealed+that+gene+loci+of+10+bacteria+could+be+replaced+to+improve+cost-effectiveness-
dc.identifier.emailWoo, PCY:pcywoo@hkucc.hku.hken_HK
dc.identifier.emailLau, SKP:skplau@hkucc.hku.hken_HK
dc.identifier.emailYuen, KY:kyyuen@hkucc.hku.hken_HK
dc.identifier.authorityWoo, PCY=rp00430en_HK
dc.identifier.authorityLau, SKP=rp00486en_HK
dc.identifier.authorityYuen, KY=rp00366en_HK
dc.description.naturelink_to_subscribed_fulltext-
dc.identifier.doi10.1016/j.diagmicrobio.2011.03.006en_HK
dc.identifier.pmid21558049en_HK
dc.identifier.scopuseid_2-s2.0-79959241403en_HK
dc.identifier.hkuros187230en_US
dc.relation.referenceshttp://www.scopus.com/mlt/select.url?eid=2-s2.0-79959241403&selection=ref&src=s&origin=recordpageen_HK
dc.identifier.volume70en_HK
dc.identifier.issue3en_HK
dc.identifier.spage316en_HK
dc.identifier.epage323en_HK
dc.identifier.isiWOS:000292441100005-
dc.publisher.placeUnited Statesen_HK
dc.identifier.scopusauthoridWoo, PCY=7201801340en_HK
dc.identifier.scopusauthoridTsang, AKL=7006979247en_HK
dc.identifier.scopusauthoridWong, AYP=53464494100en_HK
dc.identifier.scopusauthoridChen, H=35227067800en_HK
dc.identifier.scopusauthoridChu, J=53463138100en_HK
dc.identifier.scopusauthoridLau, SKP=7401596211en_HK
dc.identifier.scopusauthoridYuen, KY=36078079100en_HK
dc.identifier.citeulike9316589-

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