RNA secondary structure mediates alternative 3 ' ss selection in Saccharomyces cerevisiae

• Tipo: Artigo em Revista Científica Internacional
• Data: 2012

Autores

Plass, M (Autor) Outra; Codony Servat, C (Autor) Outra; Gabriel Ferreira, PG (Autor) Outra; Vilardell, J (Autor) Outra; Eyras, E (Autor) Outra

Revista

Título: RNA

Vol. 18

Páginas: 1103-1115

ISSN: 1355-8382

Editora: Cold Spring Harbor Laboratory Press

Indexação

ISI Web of Knowledge - 31 Citações

Scopus - 31 Citações

Classificação Científica

CORDIS: Ciências Naturais > Ciências biológicas > Biologia > Biologia computacional ; Ciências Naturais > Ciências biológicas > Biologia > Biologia molecular

FOS: Ciências exactas e naturais > Ciências biológicas ; Ciências exactas e naturais > Ciências da computação e da informação

Outras Informações

ID Authenticus: P-009-GBT

DOI: 10.1261/rna.030767.111

Abstract (EN): Alternative splicing is the mechanism by which different combinations of exons in the pre-mRNA give rise to distinct mature mRNAs. This process is mediated by splicing factors that bind the pre-mRNA and affect the recognition of its splicing signals. Saccharomyces species lack many of the regulatory factors present in metazoans. Accordingly, it is generally assumed that the amount of alternative splicing is limited. However, there is recent compelling evidence that yeast have functional alternative splicing, mainly in response to environmental conditions. We have previously shown that sequence and structure properties of the pre-mRNA could explain the selection of 3' splice sites (ss) in Saccharomyces cerevisiae. In this work, we extend our previous observations to build a computational classifier that explains most of the annotated 3'ss in the CDS and 5' UTR of this organism. Moreover, we show that the same rules can explain the selection of alternative 3'ss. Experimental validation of a number of predicted alternative 3'ss shows that their usage is low compared to annotated 3'ss. The majority of these alternative 3'ss introduce premature termination codons (PTCs), suggesting a role in expression regulation. Furthermore, a genome-wide analysis of the effect of temperature, followed by experimental validation, yields only a small number of changes, indicating that this type of regulation is not widespread. Our results are consistent with the presence of alternative 3'ss selection in yeast mediated by the pre-mRNA structure, which can be responsive to external cues, like temperature, and is possibly related to the control of gene expression.

Idioma: Inglês

Tipo (Avaliação Docente): Científica

Nº de páginas: 13