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Journal of Clinical Microbiology, May 2009, p. 1428-1435, Vol. 47, No. 5
0095-1137/09/$08.00+0     doi:10.1128/JCM.02080-08
Copyright © 2009, American Society for Microbiology. All Rights Reserved.

Performance of a Polymer-Based DNA Chip Platform in Detection and Genotyping of Human Papillomavirus in Clinical Samples{triangledown}

T. Schenk,1,{dagger} T. Brandstetter,2 A. zur Hausen,3 J. Alt-Mörbe,4 D. Huzly,1 and J. Rühe2*

Department of Virology, University Medical Center Freiburg, Hermann-Herder-Str. 11, D-79104 Freiburg, Germany,1 Laboratory for Chemistry and Physics of Interfaces, Department of Microsystems Engineering (IMTEK), University of Freiburg, Georges-Köhler-Allee 103, D-79110 Freiburg, Germany,2 Institute of Pathology, University Medical Center Freiburg, Breisacher Strasse 115a, D-79106 Freiburg, Germany,3 Laboratory for DNA—Analytics, Klarastrasse 63, D-79106 Freiburg, Germany4

Received 28 October 2008/ Returned for modification 22 December 2008/ Accepted 2 March 2009

Human papillomavirus (HPV) plays a key role in the development of cervical and laryngeal cancers. The aim of our study was to compare the performance of a new hydrogel-based HPV genotyping biochip assay (Biochip) to a commercially available and CE-marked conventional PCR followed by reverse hybridization (GenID-PCR). One hundred twenty-three samples were available for the study. Of these samples, 101/123 were gynecological swabs, 8/123 were swabs or biopsy samples of genital warts, 7/123 were biopsy samples of otorhinolaryngeal lesions, 5/123 were samples of skin warts, and 2/123 were samples of orolabial abnormalities. These molecular methods for HPV genotyping showed comparable sensitivity and specificity. However, 19/123 of the results were discrepant. Specifically, Biochip showed better performance in the detection of multiple infections, especially when more than one high-risk genotype was present. Due to the different probe configurations used in the two assays, GenID-PCR achieves only group-specific detection of many HPV genotypes, whereas Biochip allows for specific identification. Overall, the newly developed HPV chip system (Biochip) proved to be a suitable tool for HPV detection and genotyping; it also proved to be superior for establishing HPV genotyping methods.

* Corresponding author. Mailing address: Laboratory for Chemistry and Physics of Interfaces, Department of Microsystems Engineering (IMTEK), University of Freiburg, Georges-Köhler-Allee 103, D-79110 Freiburg, Germany. Phone: 49 761 203 7160. Fax: 49 761 203 7162. E-mail: ruehe{at}imtek.de

{triangledown} Published ahead of print on 11 March 2009.

{dagger} Current address: LADR GmbH, MVZ Baden-Baden, Lange Str. 65, D-76530 Baden-Baden, Germany.

Journal of Clinical Microbiology, May 2009, p. 1428-1435, Vol. 47, No. 5
0095-1137/09/$08.00+0     doi:10.1128/JCM.02080-08
Copyright © 2009, American Society for Microbiology. All Rights Reserved.





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