Development and Clinical Evaluation of a Highly Sensitive PCR-Reverse Hybridization Line Probe Assay for Detection and Identification of Anogenital Human Papillomavirus

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Journal of Clinical Microbiology, August 1999, p. 2508-2517, Vol. 37, No. 8
0095-1137/99/$04.00+0
Copyright © 1999, American Society for Microbiology. All rights reserved.

Development and Clinical Evaluation of a Highly Sensitive PCR-Reverse Hybridization Line Probe Assay for Detection and Identification of Anogenital Human Papillomavirus

Bernhard Kleter,¹ Leen-Jan van Doorn,¹ Lianne Schrauwen,¹ Anco Molijn,¹ Suprapto Sastrowijoto,² Jan ter Schegget,³ Jan Lindeman,⁴ Bram ter Harmsel,⁵ Matthé Burger,⁶ and Wim Quint¹^,³^,^*

Delft Diagnostic Laboratory¹ and Department of Pathology² and Department of Gynaecology and Obstetrics,⁵ R. de Graaf Hospital, Delft, and Department of Virology³ and Department of Gynaecology and Obstetrics,⁶ Academic Medical Center, University of Amsterdam, and Department of Pathology, Slotervaart Hospital,⁴ Amsterdam, The Netherlands

Received 23 November 1998/Returned for modification 16 February 1999/Accepted 27 April 1999

Human papillomavirus (HPV) can be detected by amplification of viral DNA. A novel PCR primer set generating a short PCR fragment(SPF PCR) was used for amplification of a fragment of only 65bp from the L1 region and permitted ultrasensitive detection ofa broad spectrum of HPV genotypes. The intra- and intertypic sequencevariations of the 22-bp interprimer region of this amplimer werestudied. Among 238 HPV sequences from GenBank and clinical specimens,HPV genotypes were correctly identified based on the 22-bp sequencein 232 cases (97.2%). Genotype-specific probes for HPV genotypes6, 11, 16, 18, 31, 33 to 35, 39, 40, 42 to 45, 51 to 54, 56, 58,59, 66, 68, 70, and 74 were selected, and a reverse hybridizationline probe assay (LiPA) (the INNO-LiPA HPV prototype researchassay) was developed. This LiPA permits the use of amplimers generatedby the SPF as well as the MY 09/11 primers. The assay was evaluatedwith a total of 1,354 clinical specimens, comprising cervicalscrapes (classifications ranging from normal cytology to severedyskaryosis) and formalin-fixed, paraffin-embedded cervical carcinomasamples. LiPA results were highly concordant with sequence analysisof the SPF amplimer, genotype-specific PCR, and sequence analysisof amplimers generated by MY 09/11 primers. The sensitivity ofthe SPF primers was higher than that of the GP5⁺/6⁺ primers over a broad range of HPV types, especially when multipleHPV genotypes were present. In conclusion, the SPF LiPA methodallows extremely sensitive detection of HPV DNA as well as reliableidentification of HPV genotypes in both cervical smears and paraffin-embeddedmaterials.

^* Corresponding author. Mailing address: Delft Diagnostic Laboratory, R. de Graafweg 7, P.O. Box 5100, 2600 GA Delft, The Netherlands.Phone: 31-15-2604581. Fax: 31-15-2604550. E-mail: wquint{at}ddl.nl.

Journal of Clinical Microbiology, August 1999, p. 2508-2517, Vol. 37, No. 8
0095-1137/99/$04.00+0
Copyright © 1999, American Society for Microbiology. All rights reserved.

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