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Published on: March 8, 2012
Human papillomavirus genotyping by Linear Array and Next-Generation Sequencing in cervical samples from Western
María Guadalupe Flores-Miramontes1,2, Luis Alberto Torres-Reyes3,4, Liliana Alvarado-Ruíz5,6
1División de Inmunología, Centro de Investigación Biomédica de Occidente (CIBO)-Instituto Mexicano del Seguro Social (IMSS), Sierra Mojada No. 800, Col. Independencia, 44340, Guadalajara, Jalisco, Mexico. nereyda_2404@hotmail.com.
Next-Generation Sequencing (NGS) identified novel Human Papillomavirus (HPV) genotypes in Mexican women, revealing limitations in the widely used Linear Array (LA) test for accurate HPV detection and prevalence studies.
Area of Science:
- Virology
- Genetics
- Oncology
Background:
- Human Papillomavirus (HPV) genotyping is crucial for cervical cancer screening.
- Linear Array (LA) is a common HPV genotyping method but has limitations in detecting all genotypes.
- Next-Generation Sequencing (NGS) offers a sensitive and specific alternative for HPV detection.
Purpose of the Study:
- To investigate HPV prevalence in cervical samples from Western Mexico.
- To compare the performance of LA and NGS for HPV genotyping.
- To identify HPV genotypes potentially missed by the LA test.
Main Methods:
- 233 cervical samples from women without lesions, with CIN I, or with cervical cancer were analyzed.
- DNA extraction and HPV detection via PCR amplification using PGMY09/11 primers.
- HPV genotyping performed using LA and 454 NGS technology on pooled amplicons.
Main Results:
- 35 HPV genotypes were identified; 30 were detected by both LA and NGS.
- NGS detected HPV genotypes 32, 44, 74, 102, and 114, previously unreported in Mexico.
- LA failed to detect several HPV genotypes, including types 6, 11, 16, and 51, indicating potential probe variations.
Conclusions:
- The LA test misses certain HPV genotypes present in the Mexican population.
- Further research is needed to assess the cervical cancer risk associated with HPV 44, 74, 102, and 114.
- NGS analysis of more samples is recommended for accurate determination of Mexican HPV variants.
