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A New Approach for the Evaluation of the Human Papillomavirus Type 16 Variability with High Resolution Melting Analysis


Sabol, Ivan; Čretnik, Maja; Hadžisejdić, Ita; Si-Mohammed, Ali; Matovina, Mihaela; Grahovac, Blaženka; Levanat, Sonja; Grce, Magdalena
A New Approach for the Evaluation of the Human Papillomavirus Type 16 Variability with High Resolution Melting Analysis // Journal of Virological Methods, 162 (2009), 1-2; 142-147 doi:10.1016/j.jviromet.2009.07.029 (međunarodna recenzija, članak, znanstveni)


Naslov
A New Approach for the Evaluation of the Human Papillomavirus Type 16 Variability with High Resolution Melting Analysis

Autori
Sabol, Ivan ; Čretnik, Maja ; Hadžisejdić, Ita ; Si-Mohammed, Ali ; Matovina, Mihaela ; Grahovac, Blaženka ; Levanat, Sonja ; Grce, Magdalena

Izvornik
Journal of Virological Methods (0166-0934) 162 (2009), 1-2; 142-147

Vrsta, podvrsta i kategorija rada
Radovi u časopisima, članak, znanstveni

Ključne riječi
Human papillomaviruses (HPV); High Resolution Melting (HRM)

Sažetak
Studies on the variability of human papillomavirus (HPV) type 16 are based mostly on DNA sequencing of the viral oncogenes E6 and E7. In order to simplify variant identification, high resolution melting (HRM) analysis, which has been shown to distinguish amplicons differing in a single nucleotide, was employed. Optimised HRM analysis was applied to 255 anogenital samples positive for HPV 16. The E6/E7 region of the HPV 16 genome was amplified using nested PCR with subsequent melting of the amplicons. Samples giving ambiguous melting profiles were melted again in the presence of reference HPV 16 DNA to define and confirm the novel melting profiles. Out of 219 samples of Croatian origin, 65 reference variants, 119 E6-360G variants and 35 novel melting profiles were found. Samples containing unusual profiles were sequenced for identification. In addition, a subset of samples with two common variants, 23 reference and 34 E6-350G variants, was also sequenced to confirm the findings of high resolution melting. Concordance between the melting analysis and sequencing was 93.9%, while HRM sensitivity and specificity were 92.9% and 94.7%, respectively. This study showed that HRM analysis can be useful for the identification of HPV 16 variants. The HRM method will be useful in low resource settings as it saves considerable time and resources compared to sequencing.

Izvorni jezik
Engleski

Znanstvena područja
Temeljne medicinske znanosti



POVEZANOST RADA


Projekt / tema
062-0000000-3550 - Molekularni mehanizmi infekcije virusom hepatitisa C (Blaženka Grahovac, )
098-0982464-2461 - Prijenos signala u tumorima: Hh-Gli put, interakcije i potencijalne terapije (Sonja Levanat, )
098-0982464-2510 - Promijenjeno stanje DNA-metilacije u HPV-povezanim oštećenjima (Magdalena Grce, )

Ustanove
Medicinski fakultet, Rijeka,
Institut "Ruđer Bošković", Zagreb,
Klinički bolnički centar Rijeka

Časopis indeksira:


  • Current Contents Connect (CCC)
  • Web of Science Core Collection (WoSCC)
    • Science Citation Index Expanded (SCI-EXP)
    • SCI-EXP, SSCI i/ili A&HCI
  • Scopus
  • MEDLINE


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