Analysis of HPV Integrations in Mexican Pre-Tumoral Cervical Lesions Reveal Centromere-Enriched Breakpoints and Abundant Unspecific HPV Regions
| Autor: | Anais Berlanga-Garza, Antonio Alí Pérez-Maya, Oscar Vidal-Gutiérrez, Lezmes Dionicio Valdés-Chapa, Diego Vidal-Torres, Diana Cristina Pérez-Ibave, Celia N Sánchez-Domínguez, Mauro Antonio-Macedo, Victor Trevino, Mariel A. Oyervides-Muñoz, María Lourdes Garza-Rodríguez |
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| Jazyk: | angličtina |
| Rok vydání: | 2021 |
| Předmět: |
Genotype
HPV integration cervical cancer Virus Integration cervical lesions Genome Viral Biology Genome Catalysis Article Inorganic Chemistry lcsh:Chemistry FHIT Centromere medicine Humans DNA Integration Physical and Theoretical Chemistry Molecular Biology Gene Mexico Papillomaviridae lcsh:QH301-705.5 Spectroscopy Cervical cancer Genetics Organic Chemistry Breakpoint Papillomavirus Infections Cancer Computational Biology General Medicine Sequence Analysis DNA medicine.disease Cell Transformation Viral Uterine Cervical Dysplasia Computer Science Applications hot spots lcsh:Biology (General) lcsh:QD1-999 Female Precancerous Conditions |
| Zdroj: | International Journal of Molecular Sciences Volume 22 Issue 6 International Journal of Molecular Sciences, Vol 22, Iss 3242, p 3242 (2021) |
| ISSN: | 1422-0067 |
| DOI: | 10.3390/ijms22063242 |
| Popis: | Human papillomavirus (HPV) DNA integration is a crucial event in cervical carcinogenesis. However, scarce studies have focused on studying HPV integration (HPVint) in early-stage cervical lesions. Using HPV capture followed by sequencing, we investigated HPVint in pre-tumor cervical lesions. Employing a novel pipeline, we analyzed reads containing direct evidence of the integration breakpoint. We observed multiple HPV infections in most of the samples (92%) with a median integration rate of 0.06% relative to HPV mapped reads corresponding to two or more sequence breakages. Unlike cancer studies, most integrations events were unique (supported by one read), consistent with the lack of clonal selection. Congruent to other studies, we found that breakpoints could occur, practically, in any part of the viral genome. We noted that L1 had a higher frequency of rupture integration (25%). Based on host genome integration frequencies, we found previously reported integration sites in cancer for genes like FHIT, CSMD1, and LRP1B and putatively many new ones such as those exemplified in CSMD3, ROBO2, and SETD3. Similar host integrations regions and genes were observed in diverse HPV types within many genes and even equivalent integration positions in different samples and HPV types. Interestingly, we noted an enrichment of integrations in most centromeres, suggesting a possible mechanism where HPV exploits this structural machinery to facilitate integration. Supported by previous findings, overall, our analysis provides novel information and insights about HPVint. |
| Databáze: | OpenAIRE |
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