Discriminatory Power and Reproducibility of Novel DNA Typing Methods for Mycobacterium tuberculosis Complex Strains

In recent years various novel DNA typing methods have been developed which are faster and easier to perform than the current internationally standardized IS6110 restriction fragment length polymorphism typing method. However, there has been no overview of the utility of these novel typing methods, a...

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Main Authors: Kremer, Kristin, Arnold, Catherine, Cataldi, Angel, Gutiérrez, M. Cristina, Haas, Walter H., Panaiotov, Stefan, Skuce, Robin A., Supply, Philip, van der Zanden, Adri G. M., van Soolingen, Dick
פורמט: Artigo
שפה:English
יצא לאור: American Society for Microbiology 2005
נושאים:
Mycobacteriology and Aerobic Actinomycetes
גישה מקוונת:https://ncbi.nlm.nih.gov/pmc/articles/PMC1287774/
https://ncbi.nlm.nih.gov/pubmed/16272496
https://ncbi.nlm.nih.govhttp://dx.doi.org/10.1128/JCM.43.11.5628-5638.2005
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spelling pubmed-12877742006-02-23 Discriminatory Power and Reproducibility of Novel DNA Typing Methods for Mycobacterium tuberculosis Complex Strains Kremer, Kristin Arnold, Catherine Cataldi, Angel Gutiérrez, M. Cristina Haas, Walter H. Panaiotov, Stefan Skuce, Robin A. Supply, Philip van der Zanden, Adri G. M. van Soolingen, Dick J Clin Microbiol Mycobacteriology and Aerobic Actinomycetes In recent years various novel DNA typing methods have been developed which are faster and easier to perform than the current internationally standardized IS6110 restriction fragment length polymorphism typing method. However, there has been no overview of the utility of these novel typing methods, and it is largely unknown how they compare to previously published methods. In this study, the discriminative power and reproducibility of nine recently described PCR-based typing methods for Mycobacterium tuberculosis were investigated using the strain collection of the interlaboratory study of Kremer et al. (J. Clin. Microbiol. 37:2607-2618, 1999). This strain collection contains 90 M. tuberculosis complex and 10 non-M. tuberculosis complex mycobacterial strains, as well as 31 duplicated DNA samples to assess reproducibility. The highest reproducibility was found with variable numbers of tandem repeat typing using mycobacterial interspersed repetitive units (MIRU VNTR) and fast ligation-mediated PCR (FLiP), followed by second-generation spoligotyping, ligation-mediated PCR (LM-PCR), VNTR typing using five repeat loci identified at the Queens University of Belfast (QUB VNTR), and the Amadio speciation PCR. Poor reproducibility was associated with fluorescent amplified fragment length polymorphism typing, which was performed in three different laboratories. The methods were ordered from highest discrimination to lowest by the Hunter-Gaston discriminative index as follows: QUB VNTR typing, MIRU VNTR typing, FLiP, LM-PCR, and spoligotyping. We conclude that both VNTR typing methods and FLiP typing are rapid, highly reliable, and discriminative epidemiological typing methods for M. tuberculosis and that VNTR typing is the epidemiological typing method of choice for the near future. American Society for Microbiology 2005-11 /pmc/articles/PMC1287774/ /pubmed/16272496 http://dx.doi.org/10.1128/JCM.43.11.5628-5638.2005 Text en Copyright © 2005, American Society for Microbiology
institution US National Library of Medicine
collection PubMed Central
language English
format Article
topic Mycobacteriology and Aerobic Actinomycetes
spellingShingle Mycobacteriology and Aerobic Actinomycetes
Kremer, Kristin
Arnold, Catherine
Cataldi, Angel
Gutiérrez, M. Cristina
Haas, Walter H.
Panaiotov, Stefan
Skuce, Robin A.
Supply, Philip
van der Zanden, Adri G. M.
van Soolingen, Dick
Discriminatory Power and Reproducibility of Novel DNA Typing Methods for Mycobacterium tuberculosis Complex Strains
description In recent years various novel DNA typing methods have been developed which are faster and easier to perform than the current internationally standardized IS6110 restriction fragment length polymorphism typing method. However, there has been no overview of the utility of these novel typing methods, and it is largely unknown how they compare to previously published methods. In this study, the discriminative power and reproducibility of nine recently described PCR-based typing methods for Mycobacterium tuberculosis were investigated using the strain collection of the interlaboratory study of Kremer et al. (J. Clin. Microbiol. 37:2607-2618, 1999). This strain collection contains 90 M. tuberculosis complex and 10 non-M. tuberculosis complex mycobacterial strains, as well as 31 duplicated DNA samples to assess reproducibility. The highest reproducibility was found with variable numbers of tandem repeat typing using mycobacterial interspersed repetitive units (MIRU VNTR) and fast ligation-mediated PCR (FLiP), followed by second-generation spoligotyping, ligation-mediated PCR (LM-PCR), VNTR typing using five repeat loci identified at the Queens University of Belfast (QUB VNTR), and the Amadio speciation PCR. Poor reproducibility was associated with fluorescent amplified fragment length polymorphism typing, which was performed in three different laboratories. The methods were ordered from highest discrimination to lowest by the Hunter-Gaston discriminative index as follows: QUB VNTR typing, MIRU VNTR typing, FLiP, LM-PCR, and spoligotyping. We conclude that both VNTR typing methods and FLiP typing are rapid, highly reliable, and discriminative epidemiological typing methods for M. tuberculosis and that VNTR typing is the epidemiological typing method of choice for the near future.
author Kremer, Kristin
Arnold, Catherine
Cataldi, Angel
Gutiérrez, M. Cristina
Haas, Walter H.
Panaiotov, Stefan
Skuce, Robin A.
Supply, Philip
van der Zanden, Adri G. M.
van Soolingen, Dick
author_facet Kremer, Kristin
Arnold, Catherine
Cataldi, Angel
Gutiérrez, M. Cristina
Haas, Walter H.
Panaiotov, Stefan
Skuce, Robin A.
Supply, Philip
van der Zanden, Adri G. M.
van Soolingen, Dick
author_sort Kremer, Kristin
title Discriminatory Power and Reproducibility of Novel DNA Typing Methods for Mycobacterium tuberculosis Complex Strains
title_short Discriminatory Power and Reproducibility of Novel DNA Typing Methods for Mycobacterium tuberculosis Complex Strains
title_full Discriminatory Power and Reproducibility of Novel DNA Typing Methods for Mycobacterium tuberculosis Complex Strains
title_fullStr Discriminatory Power and Reproducibility of Novel DNA Typing Methods for Mycobacterium tuberculosis Complex Strains
title_full_unstemmed Discriminatory Power and Reproducibility of Novel DNA Typing Methods for Mycobacterium tuberculosis Complex Strains
title_sort discriminatory power and reproducibility of novel dna typing methods for mycobacterium tuberculosis complex strains
publisher American Society for Microbiology
publisher_facet American Society for Microbiology
publishDate 2005
url https://ncbi.nlm.nih.gov/pmc/articles/PMC1287774/
https://ncbi.nlm.nih.gov/pubmed/16272496
https://ncbi.nlm.nih.govhttp://dx.doi.org/10.1128/JCM.43.11.5628-5638.2005
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