Change search
ReferencesLink to record
Permanent link

Direct link
Limited resolution of 16S rDNA DGGE caused by melting properties and closely related DNA sequences
Umeå University, Faculty of Science and Technology, Department of Molecular Biology (Faculty of Science and Technology). (Johan Wikner)
2003 (English)In: Journal of Microbiological Methods, ISSN 0167-7012, E-ISSN 1872-8359, Vol. 54, no 2, 183-191 p.Article in journal (Refereed) Published
Abstract [en]

The phylogenetic affiliation of 91 operational taxonomic units, randomly sampled from three aquatic microcosm experiments, was investigated by two PCR based and one culture dependent method. The occurrence of multiple melting domains and poor coupling between Tin and DGGE retardation was demonstrated to cause poor resolution at the species level in PCR-DGGE analysis of microbial communities. We also showed that the problem of multiple melting domains was particularly prone for brackish water bacterioplankton in the Flavobacterium genus, providing characteristic band morphology for this genus. Banding patterns from DGGE analysis may therefore be misinterpreted in terms of the species richness in natural bacterial communities, when using commonly applied universal primers. (C) 2003 Elsevier Science B.V. All rights reserved.

Place, publisher, year, edition, pages
2003. Vol. 54, no 2, 183-191 p.
Keyword [en]
16S rDNA, flavobacteria, melting temperature, multiple melting domains, PCR-DGGE, phylogeny
National Category
Biochemistry and Molecular Biology
URN: urn:nbn:se:umu:diva-52543DOI: 10.1016/S0167-7012(03)00038-1ISI: 000183590400005OAI: diva2:506324
Available from: 2012-02-28 Created: 2012-02-24 Last updated: 2012-02-28

Open Access in DiVA

No full text

Other links

Publisher's full text

Search in DiVA

By author/editor
Wikner, Johan
By organisation
Department of Molecular Biology (Faculty of Science and Technology)
In the same journal
Journal of Microbiological Methods
Biochemistry and Molecular Biology

Search outside of DiVA

GoogleGoogle Scholar
The number of downloads is the sum of all downloads of full texts. It may include eg previous versions that are now no longer available

Altmetric score

Total: 23 hits
ReferencesLink to record
Permanent link

Direct link