title: Identification and molecular structure analysis of a new noncoding RNA, a sbRNA homolog, in the silkworm Bombyx mori genome.
abstract: The small noncoding group of RNAs called stem-bulge RNAs (sbRNAs), first reported in Caenorhabditis elegans, is described as molecules homologous to the Y RNAs, a specific class of noncoding RNAs that is present in vertebrates. This homology indicates the possibility of the existence of sbRNAs in other invertebrate organisms. In this work, we used bioinformatic tools and conserved sequences of sbRNAs from C. Elegans and Y RNAs to search for homologous sbRNA sequences in the Bombyx mori genome. This analysis led to the discovery of one noncoding gene, which was translated into RNA segments and comparatively analysed with segments from human and hamster Y RNAs and C. elegans sbRNAs in molecular dynamic simulations. This gene represents the first evidence for a new sbRNA-like noncoding RNA, the BmsbRNA gene, in this Lepidoptera genome.
authors.affiliation: Departamento de Biotecnologia, Genética e Biologia Celular, Universidade Estadual de Maringá, Av. Colombo, 5790, 87020-900, Maringá, Paraná, Brasil. mafernandez@uem.br aparecidafernandez@gmail.com.
authors.forename: Francisco Ferreira
authors.initials: FF
authors.lastname: Duarte Junior
authors.forename: Quirino Alves
authors.initials: QA
authors.lastname: de Lima Neto
authors.forename: Fabiana Dos Santos
authors.initials: Fdos S
authors.lastname: Rando
authors.forename: Douglas Vinícius Bassalobre
authors.initials: DV
authors.lastname: de Freitas
authors.forename: José Renato
authors.initials: JR
authors.lastname: Pattaro Júnior
authors.forename: Lorena Gomes
authors.initials: LG
authors.lastname: Polizelli
authors.forename: Roxelle Ethienne Ferreira
authors.initials: RE
authors.lastname: Munhoz
authors.forename: Flavio Augusto Vicente
authors.initials: FA
authors.lastname: Seixas
authors.forename: Maria Aparecida
authors.initials: MA
authors.lastname: Fernandez
mesh_terms: D000818:Animals; D001483:Base Sequence; D012831:Bombyx / Q000235:genetics*; D019295:Computational Biology; D017124:Conserved Sequence; D049750:Genome, Insect; D008969:Molecular Sequence Data; D009690:Nucleic Acid Conformation; D056510:Position-Specific Scoring Matrices; D022661:RNA, Untranslated / Q000737:chemistry / Q000235:genetics*; D016415:Sequence Alignment
chemical_list: D022661:RNA, Untranslated