title: HPV genotype detection using hybrid capture sample preparation combined with whole genome amplification and multiplex detection with Luminex XMAP.
abstract: Infection with a high-risk carcinogenic type of human papillomavirus (HPV) is necessary for the development of cervical cancer. The digene HC2 HPV Test (HC2) is an important screening tool but lacks genotyping capability. To address this issue, we developed an assay for the rapid genotyping of HPV in cervical specimens. The three steps of this assay include Hybrid Capture target enrichment, whole-genome amplification, and Luminex XMAP detection. The assay includes the simultaneous detection of two genomic regions from each of 17 high-risk and two low-risk HPV types most associated with disease. The assay performance was tested on HPV plasmids as well as clinical specimens. An analytical limit of detection of 100 copies or less was demonstrated for linear, circular, and integrated HPV DNA. This finding is at least 1 log lower than the HC2 assay limit of detection. There was no cross-reactivity among the HPV types up to 1,000,000 copies. There was also no substantial assay interference from substances in cervical specimens. Although the clinical performance of the assay was not formally tested, the assay had good agreement (Cohen's kappa equal to 0.72) with both a PCR-based HPV genotyping assay (n = 131) and the HC2 assay (n = 502) using representative cervical specimens. This assay may be easy to automate and could be applied for the detection of other targets in future studies.
authors.affiliation: QIAGEN, Inc., Research and Development, 1201 Clopper Road, Gaithersburg, MD 20878, USA. Brian.Lowe@qiagen.com
authors.forename: Brian
authors.initials: B
authors.lastname: Lowe
authors.forename: Lori
authors.initials: L
authors.lastname: Kobayashi
authors.forename: Attila
authors.initials: A
authors.lastname: Lorincz
authors.forename: Rick
authors.initials: R
authors.lastname: Mallonee
authors.forename: Dominic
authors.initials: D
authors.lastname: O'Neil
authors.forename: Ha
authors.initials: H
authors.lastname: Thai
authors.forename: Irina
authors.initials: I
authors.lastname: Nazarenko
mesh_terms: D002584:Cervix Uteri / Q000821:virology; D004279:DNA, Viral / Q000032:analysis* / Q000235:genetics; D005260:Female; D016679:Genome, Viral / Q000235:genetics*; D005838:Genotype; D006801:Humans; D057230:Limit of Detection; D021141:Nucleic Acid Amplification Techniques; D027383:Papillomaviridae / Q000235:genetics*; D030361:Papillomavirus Infections / Q000175:diagnosis / Q000235:genetics / Q000821:virology; D012680:Sensitivity and Specificity; D002583:Uterine Cervical Neoplasms / Q000821:virology
chemical_list: D004279:DNA, Viral