1. Human DNA decays faster with time than viral dsDNA: an analysis on HPV16 using pathology archive samples spanning 85 years
- Author
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Nicolás Párraga, Sara, Torres, Montserrat, Alemany, Laia, Félix, Ana, Cruz, Eugenia, Sanjosé Llongueras, Silvia de, Bosch José, Francesc Xavier, 1947, Bravo, Ignacio G., RIS HPV TT study groups, Virostyle (MIVEGEC-Virostyle), Perturbations, Evolution, Virulence (PEV), Maladies infectieuses et vecteurs : écologie, génétique, évolution et contrôle (MIVEGEC), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Maladies infectieuses et vecteurs : écologie, génétique, évolution et contrôle (MIVEGEC), Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud])-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS)-Institut de Recherche pour le Développement (IRD [France-Sud]), Centre de Recherche en Ecologie et Evolution de la Santé (CREES), Institut de Recherche pour le Développement (IRD)-Université de Montpellier (UM)-Centre National de la Recherche Scientifique (CNRS), Catalan Institute of Oncology (ICO), Portuguese Institute of Oncology Francisco Gentil, and Universitat Oberta de Catalunya (UOC)
- Subjects
0301 basic medicine ,Human dna ,ADN ,Uterine Cervical Neoplasms ,papillomavirus ,Degradation ,chemistry.chemical_compound ,0302 clinical medicine ,Cervix cancer ,Invasive cervical carcinoma ,Paraffin Embedding ,Fixation (population genetics) ,Infectious Diseases ,030220 oncology & carcinogenesis ,Viruses ,[SDV.MP.VIR]Life Sciences [q-bio]/Microbiology and Parasitology/Virology ,Biomarker (medicine) ,Female ,Stability ,papilomavirus ,HPV ,VPH ,Integrity ,Formalin fixed paraffin embedded ,Càncer de coll uterí ,Papillomaviruses ,virus ,DNA Fragmentation ,Biology ,Real-Time Polymerase Chain Reaction ,Sample storage ,Human Papillomavirus 16 ,lcsh:Infectious and parasitic diseases ,Specimen Handling ,03 medical and health sciences ,[SDV.BBM.GTP]Life Sciences [q-bio]/Biochemistry, Molecular Biology/Genomics [q-bio.GN] ,Virology ,Humans ,lcsh:RC109-216 ,Papil·lomavirus ,Gene ,Research ,Papillomavirus Infections ,DNA ,Formalin-Fixed Paraffin Embedded ,Transformation (genetics) ,030104 developmental biology ,chemistry ,DNA, Viral ,Nucleic acid - Abstract
Background Quality of the nucleic acids extracted from Formalin Fixed Paraffin Embedded (FFPE) samples largely depends on pre-analytic, fixation and storage conditions. We assessed the differential sensitivity of viral and human double stranded DNA (dsDNA) to degradation with storage time. Methods We randomly selected forty-four HPV16-positive invasive cervical cancer (ICC) FFPE samples collected between 1930 and 1935 and between 2000 and 2004. We evaluated through qPCR the amplification within the same sample of two targets of the HPV16 L1 gene (69 bp, 134 bp) compared with two targets of the human tubulin-β gene (65 bp, 149 bp). Results Both viral and human, short and long targets were amplified from all samples stored for 15 years. In samples archived for 85 years, we observed a significant decrease in the ability to amplify longer targets and this difference was larger in human than in viral DNA: longer fragments were nine times (CI 95% 2.6–35.2) less likely to be recovered from human DNA compared with 1.6 times (CI 95% 1.1–2.2) for viral DNA. Conclusions We conclude that human and viral DNA show a differential decay kinetics in FFPE samples. The faster degradation of human DNA should be considered when assessing viral DNA prevalence in long stored samples, as HPV DNA detection remains a key biomarker of viral-associated transformation.
- Published
- 2021
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