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Rapid combined characterization of microorganism and host genotypes using a single technology
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2004 (English)In: Helicobacter, ISSN 1083-4389, E-ISSN 1523-5378, Vol. 9, no 2, 138-145 p.Article in journal (Refereed) Published
Abstract [en]

Background. Genetic information is becoming increasingly important in diagnosis and prognosis of infectious diseases. In this study we investigated the possibility of using a single technology, the Pyrose-quencing(TM) technology (Biotage AB, Uppsala, Sweden), to gather several kinds of important genetic information from the human pathogen Helicobacter pylori, as well as from the carrier of the H. pylori infection. Materials and Methods. DNA from 87 clinical isolates of H. pylori 50 isolates from H. pylori-infected transgenic mice and nine gastric biopsies from H. pylori-infected patients was analyzed for targets in the 16S rRNA, 23S rRNA and cytotoxin associated gene A (cagA) genes to determine species identity, clarithromycin susceptibility and virulence level, respectively. In addition, three single nucleotide polymorphisms in the human interleukin-1B (IL-1B) gene, reported to affect the risk of developing gastric cancer, were analyzed in the gastric biopsy samples. Results. All DNA targets were processed and analyzed in parallel, enabling convenient genetic characterization of both pathogen and host. All genotypes were easily and accurately assigned. In the 16S rRNA analysis, 99.83% of the bases were correctly called. Conclusions. We conclude that genetic analysis using Pyrosequencing(TM) technology was nonlaborious, and gave highly accurate data for different kinds of target. We therefore believe that this technology has the potential to complement or in the future substitute the time-consuming traditional microbial identification and typing methods, as well as enabling rapid typing of relevant host genetic markets.

Place, publisher, year, edition, pages
2004. Vol. 9, no 2, 138-145 p.
Keyword [en]
Helicobacter pylori, genotyping, pyrosequencing, blomarkers
National Category
Biological Sciences
Identifiers
URN: urn:nbn:se:kth:diva-45000DOI: 10.1111/j.1083-4389.2004.00210.xISI: 000220847300007Scopus ID: 2-s2.0-1942504709OAI: oai:DiVA.org:kth-45000DiVA: diva2:452108
Note
QC 20111028Available from: 2011-10-28 Created: 2011-10-26 Last updated: 2017-12-08Bibliographically approved

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Uhlén, Mathias

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