Characterization of intra-type variants of oncogenic human papillomaviruses by next-generation deep sequencing of the E6/E7 region

Enrico Lavezzo, Giulia Masi, Stefano Toppo, Elisa Franchin, Valentina Gazzola, Alessandro Sinigaglia, Serena Masiero, Marta Trevisan, Silvana Pagni, Giorgio Palù, Luisa Barzon

Research output: Contribution to journalArticlepeer-review

Abstract

Different human papillomavirus (HPV) types are characterized by differences in tissue tropism and ability to promote cell proliferation and transformation. In addition, clinical and experimental studies have shown that some genetic variants/lineages of high-risk HPV (HR-HPV) types are characterized by increased oncogenic activity and probability to induce cancer. In this study, we designed and validated a new method based on multiplex PCR-deep sequencing of the E6/E7 region of HR-HPV types to characterize HPV intra-type variants in clinical specimens. Validation experiments demonstrated that this method allowed reliable identification of the different lineages of oncogenic HPV types. Advantages of this method over other published methods were represented by its ability to detect variants of all HR-HPV types in a single reaction, to detect variants of HR-HPV types in clinical specimens with multiple infections, and, being based on sequencing of the full E6/E7 region, to detect amino acid changes in these oncogenes potentially associated with increased transforming activity.

Original languageEnglish
Article number79
JournalViruses
Volume8
Issue number3
DOIs
Publication statusPublished - Mar 14 2016

Keywords

  • Cervical cancer
  • Deep sequencing
  • E6/E7
  • Genotyping
  • High-risk HPV
  • Human papillomavirus
  • Next-generation sequencing
  • Pyrosequencing
  • Subtype
  • Variant

ASJC Scopus subject areas

  • Infectious Diseases
  • Virology

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