Analysis of CpG methylation sites and CGI among human papillomavirus DNA genomes
Por:
Galván S.C., Martínez-Salazar M., Galván V.M., Méndez R., Díaz-Contreras G.T., Alvarado-Hermida M., Alcántara-Silva R., García-Carrancá A.
Publicada:
25 nov 2011
Resumen:
Background: The Human Papillomavirus (HPV) genome is divided into early and late coding sequences, including 8 open reading frames (ORFs) and a regulatory region (LCR). Viral gene expression may be regulated through epigenetic mechanisms, including cytosine methylation at CpG dinucleotides. We have analyzed the distribution of CpG sites and CpG islands/clusters (CGI) among 92 different HPV genomes grouped in function of their preferential tropism: cutaneous or mucosal. We calculated the proportion of CpG sites (PCS) for each ORF and calculated the expected CpG values for each viral type. Results: CpGs are underrepresented in viral genomes. We found a positive correlation between CpG observed and expected values, with mucosal high-risk (HR) virus types showing the smallest O/E ratios. The ranges of the PCS were similar for most genomic regions except E4, where the majority of CpGs are found within islands/clusters. At least one CGI belongs to each E2/E4 region. We found positive correla
Filiaciones:
Galván S.C.:
Univ Nacl Autonoma Mexico, Mexico City, DF, Mexico
Univ Nacl Autonoma Mexico, Inst Invest Biomed, Mexico City 04510, DF, Mexico
Martínez-Salazar M.:
Univ Nacl Autonoma Mexico, Inst Invest Biomed, Mexico City 04510, DF, Mexico
Galván V.M.:
Departamento El Hombre y su Ambiente, Universidad Autónoma Metropolitana-Xochimilco, Mexico
Méndez R.:
Instituto Nacional de Cancerología, Secretaría de Salud, Mexico
Díaz-Contreras G.T.:
Univ Nacl Autonoma Mexico, Fac Ingn, Mexico City 04510, DF, Mexico
Alvarado-Hermida M.:
Univ Nacl Autonoma Mexico, Fac Ingn, Mexico City 04510, DF, Mexico
Alcántara-Silva R.:
Univ Nacl Autonoma Mexico, Mexico City, DF, Mexico
Univ Nacl Autonoma Mexico, Fac Ingn, Mexico City 04510, DF, Mexico
García-Carrancá A.:
Univ Nacl Autonoma Mexico, Mexico City, DF, Mexico
Univ Nacl Autonoma Mexico, Inst Invest Biomed, Mexico City 04510, DF, Mexico
All Open Access, Gold
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