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Multiple HPV integration mode in the cell lines based on long-reads sequencing.

Xiaofang Cui1,2, Yiyan Li3, Chuanpeng Zhang4

  • 1Jining Medical University, Jining, Shandong, China.

Frontiers in Microbiology
|January 3, 2024
PubMed
Summary
This summary is machine-generated.

Human papillomavirus (HPV) integration into the host genome is linked to cervical cancer. Long-read sequencing revealed diverse HPV integration patterns, confirming its role in cell lines.

Keywords:
HPV integrationHPV16HPV18cervical cancernanopore sequencing

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Area of Science:

  • Genomics
  • Oncology
  • Virology

Background:

  • Human papillomavirus (HPV) infection is a primary cause of cervical cancer.
  • The precise mechanisms and patterns of HPV integration into the host genome remain incompletely understood.
  • Understanding HPV integration is crucial for advancing cervical cancer diagnostics and therapeutics.

Purpose of the Study:

  • To investigate and characterize the complete state of HPV integration into host cell genomes.
  • To explore the feasibility of using NANOPORE long-read sequencing for HPV integration analysis.
  • To identify distinct viral integration patterns in HPV-positive cell lines.

Main Methods:

  • NANOPORE long-read sequencing was employed on three HPV-positive cell lines: HeLa, SiHa, and CaSki.
  • A custom-developed software, HPV-TSD, was utilized for analyzing viral integration patterns.
  • Comparative analysis of HPV integration across different cell lines and HPV types (HPV16 and HPV18) was performed.

Main Results:

  • Distinct HPV integration patterns were observed for HPV18 and HPV16, as well as variations within HPV16 integrations.
  • CaSki cells exhibited complex HPV integration, while HeLa cells showed dominant HPV18 integration with incomplete viral sequences.
  • Numerous tandem repeats were identified in both HPV16 and HPV18 integrations, highlighting complex integration events.

Conclusions:

  • High-throughput long-read sequencing is a viable method for studying HPV integration.
  • The study identified diverse HPV integration models, confirming viral integration as a significant factor in HPV-positive cell lines.
  • Findings provide a foundation for developing HPV integration detection algorithms and inform clinical applications and drug development.