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Rapid identification of intact bacterial resistance plasmids via optical mapping of single DNA molecules
Department of Biology and Biological Engineering, Chalmers University of Technology, Gothenburg, Sweden.
Department of Biology and Biological Engineering, Chalmers University of Technology, Gothenburg, Sweden / Department of Astronomy and Theoretical Physics, Lund University, Lund, Sweden.
Department of Biology and Biological Engineering, Chalmers University of Technology, Gothenburg, Sweden / Department of Applied Physics, Chalmers University of Technology, Gothenburg, Sweden.
Department of Infectious Diseases, Sahlgrenska Academy, University of Gothenburg, Gothenburg, Sweden.
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2016 (English)In: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 6, article id 30410Article in journal (Refereed) Published
Abstract [en]

The rapid spread of antibiotic resistance - currently one of the greatest threats to human health according to WHO - is to a large extent enabled by plasmid-mediated horizontal transfer of resistance genes. Rapid identification and characterization of plasmids is thus important both for individual clinical outcomes and for epidemiological monitoring of antibiotic resistance. Toward this aim, we have developed an optical DNA mapping procedure where individual intact plasmids are elongated within nanofluidic channels and visualized through fluorescence microscopy, yielding barcodes that reflect the underlying sequence. The assay rapidly identifies plasmids through statistical comparisons with barcodes based on publicly available sequence repositories and also enables detection of structural variations. Since the assay yields holistic sequence information for individual intact plasmids, it is an ideal complement to next generation sequencing efforts which involve reassembly of sequence reads from fragmented DNA molecules. The assay should be applicable in microbiology labs around the world in applications ranging from fundamental plasmid biology to clinical epidemiology and diagnostics.

Place, publisher, year, edition, pages
Nature Publishing Group, 2016. Vol. 6, article id 30410
National Category
Bioinformatics (Computational Biology) Biophysics
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URN: urn:nbn:se:his:diva-17700DOI: 10.1038/srep30410ISI: 000380330100001PubMedID: 27460437Scopus ID: 2-s2.0-84979783998OAI: oai:DiVA.org:his-17700DiVA, id: diva2:1352162
Available from: 2019-09-17 Created: 2019-09-17 Last updated: 2019-09-18Bibliographically approved

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Lagerstedt, Erik

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