title: In silico analysis of microRNAS targeting the HLA-G 3' untranslated region alleles and haplotypes.
abstract: It has been reported that microRNAs (miRNA) may have allele-specific targeting for the 3' untranslated region (3' UTR) of the HLA-G locus. In a previous study, we reported 11 3'UTR haplotypes encompassing the 14-bp insertion/deletion polymorphism and seven SNPs (+3003 T/C, +3010 C/G, +3027 C/A, +3035 C/T, +3142 C/G, +3187 A/G, and +3196 C/G), of which only the +3142 C/G SNP has been reported to influence the binding of miRNAs. Using bioinformatics analyses, we identified putative miRNA-binding sites considering the haplotypes encompassing these eight polymorphic sites, and we ranked the lowest free energies that could potentially lead to an mRNA degradation or translational repression. When a specific haplotype or a particular SNP was associated with a miRNA-binding site, we defined a free energy difference of 4 kcal/mol between alleles to classify them energetically distant. The best results were obtained for the miR-513a-5p, miR-518c*, miR-1262 and miR-92a-1*, miR-92a-2*, miR-661, miR-1224-5p, and miR-433 miRNAs, all influencing one or more of the +3003, +3010, +3027, and +3035 SNPs. The miR-2110, miR-93, miR-508-5p, miR-331-5p, miR-616, miR-513b, and miR-589* miRNAs targeted the 14-bp fragment region, and miR-148a, miR-19a*, miR-152, mir-148b, and miR-218-2 also influenced the +3142 C/G polymorphism. These results suggest that these miRNAs might play a relevant role on the HLA-G expression pattern.
authors: Division of Clinical Immunology, Department of Medicine, School of Medicine of Ribeirao Preto, University of São Paulo, São Paulo, Brazil. erick.castelli@gmail.com
authors: Erick C
authors: EC
authors: Castelli
authors: Philippe
authors: P
authors: Moreau
authors: Alynne
authors: A
authors: Oya e Chiromatzo
authors: Celso Teixeira
authors: CT
authors: Mendes-Junior
authors: Luciana C
authors: LC
authors: Veiga-Castelli
authors: Layale
authors: L
authors: Yaghi
authors: Silvana
authors: S
authors: Giuliatti
authors: Edgardo D
authors: ED
authors: Carosella
authors: Eduardo Antonio
authors: EA
authors: Donadi
mesh_terms: D020413:3' Untranslated Regions / Q000235:genetics*; D000483:Alleles; D001483:Base Sequence; D001665:Binding Sites; D019295:Computational Biology; D005786:Gene Expression Regulation; D006680:HLA Antigens / Q000235:genetics*; D059951:HLA-G Antigens; D006239:Haplotypes; D015395:Histocompatibility Antigens Class I / Q000235:genetics*; D006801:Humans; D035683:MicroRNAs / Q000235:genetics / Q000502:physiology*; D008969:Molecular Sequence Data; D020641:Polymorphism, Single Nucleotide
chemical_list: D020413:3' Untranslated Regions; D006680:HLA Antigens; D059951:HLA-G Antigens; D015395:Histocompatibility Antigens Class I; D035683:MicroRNAs