Ann Lab Med.  2018 Mar;38(2):139-146. 10.3343/alm.2018.38.2.139.

Comparison of Four Human Papillomavirus Genotyping Methods: Next-generation Sequencing, INNO-LiPA, Electrochemical DNA Chip, and Nested-PCR

• Nilyanimit P
• Chansaenroj J
• Poomipak W
• Praianantathavorn K
• Payungporn S
• Poovorawan Y

• KMID: 2403359
• DOI: http://doi.org/10.3343/alm.2018.38.2.139

Abstract

BACKGROUND
Human papillomavirus (HPV) infection causes cervical cancer, thus necessitating early detection by screening. Rapid and accurate HPV genotyping is crucial both for the assessment of patients with HPV infection and for surveillance studies.
METHODS
Fifty-eight cervicovaginal samples were tested for HPV genotypes using four methods in parallel: nested-PCR followed by conventional sequencing, INNO-LiPA, electrochemical DNA chip, and next-generation sequencing (NGS).
RESULTS
Seven HPV genotypes (16, 18, 31, 33, 45, 56, and 58) were identified by all four methods. Nineteen HPV genotypes were detected by NGS, but not by nested-PCR, INNO-LiPA, or electrochemical DNA chip.
CONCLUSIONS
Although NGS is relatively expensive and complex, it may serve as a sensitive HPV genotyping method. Because of its highly sensitive detection of multiple HPV genotypes, NGS may serve as an alternative for diagnostic HPV genotyping in certain situations.

Keyword

Human papillomavirus; Genotyping; Next-generation sequencing; Nested-PCR; INNO-LiPA; Electrochemical DNA chip

MeSH Terms

DNA*
Genotype
Humans*
Mass Screening
Methods*
Oligonucleotide Array Sequence Analysis*
Uterine Cervical Neoplasms
DNA

Figure

• 

  Fig. 1 Venn diagram of HPV genotypes identified by four different techniques.

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