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Rapid identification of intact bacterial resistance plasmids via optical mapping of single DNA molecules
Chalmers, Dept Biol & Biol Engn, Gothenburg, Sweden..
Chalmers, Dept Biol & Biol Engn, Gothenburg, Sweden.;Lund Univ, Dept Astron & Theoret Phys, Lund, Sweden..
Chalmers, Dept Biol & Biol Engn, Gothenburg, Sweden.;Chalmers, Dept Appl Phys, Gothenburg, Sweden..
Univ Gothenburg, Sahlgrenska Acad, Dept Infect Dis, Gothenburg, Sweden..
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2016 (English)In: Scientific Reports, ISSN 2045-2322, E-ISSN 2045-2322, Vol. 6, 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
2016. Vol. 6, 30410
National Category
Microbiology in the medical area
Identifiers
URN: urn:nbn:se:uu:diva-308254DOI: 10.1038/srep30410ISI: 000380330100001PubMedID: 27460437OAI: oai:DiVA.org:uu-308254DiVA: diva2:1049361
Funder
EU, European Research Council, 634890Torsten Söderbergs stiftelseSwedish Research Council, 2014-4305 K2013-99X-22208-01-5
Available from: 2016-11-24 Created: 2016-11-24 Last updated: 2016-11-24Bibliographically approved

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Sandegren, Linus
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