title: Deciphering 3'ss selection in the yeast genome reveals an RNA thermosensor that mediates alternative splicing.
abstract: Poor understanding of the spliceosomal mechanisms to select intronic 3' ends (3'ss) is a major obstacle to deciphering eukaryotic genomes. Here, we discern the rules for global 3'ss selection in yeast. We show that, in contrast to the uniformity of yeast splicing, the spliceosome uses all available 3'ss within a distance window from the intronic branch site (BS), and that in ∼70% of all possible 3'ss this is likely to be mediated by pre-mRNA structures. Our results reveal that one of these RNA folds acts as an RNA thermosensor, modulating alternative splicing in response to heat shock by controlling alternate 3'ss availability. Thus, our data point to a deeper role for the pre-mRNA in the control of its own fate, and to a simple mechanism for some alternative splicing.
authors.affiliation: Centre de Regulació Genòmica, Dr. Aiguader 88, 08003 Barcelona, Spain.
authors.forename: Markus
authors.initials: M
authors.lastname: Meyer
authors.forename: Mireya
authors.initials: M
authors.lastname: Plass
authors.forename: Jorge
authors.initials: J
authors.lastname: Pérez-Valle
authors.forename: Eduardo
authors.initials: E
authors.lastname: Eyras
authors.forename: Josep
authors.initials: J
authors.lastname: Vilardell
mesh_terms: D020413:3' Untranslated Regions; D017398:Alternative Splicing; D019295:Computational Biology; D016681:Genome, Fungal; D009690:Nucleic Acid Conformation; D012322:RNA Precursors / Q000737:chemistry / Q000378:metabolism / Q000502:physiology*; D012331:RNA, Fungal / Q000737:chemistry / Q000378:metabolism / Q000502:physiology*; D012441:Saccharomyces cerevisiae / Q000235:genetics*; D017423:Sequence Analysis, RNA; D017381:Spliceosomes / Q000502:physiology*
chemical_list: D020413:3' Untranslated Regions; D012322:RNA Precursors; D012331:RNA, Fungal