Project description:Using RNA-Seq analysis of nonsense-mediated mRNA decay (NMD) mutant strains, we show that many Saccharomyces cerevisiae intron-containing genes exhibit usage of alternative splice sites, but most transcripts generated by splicing from these sites are non-functional because they introduce premature termination codons leading to transcript degradation by NMD. Analysis of splicing mutants combined with NMD inactivation revealed the role of specific splicing factors in governing the use of these alternative splice sites and identified novel functions for Prp17p in enhancing the use of branchpoint-proximal upstream 3M-bM-^@M-^Y splice sites and for Prp18p in suppressing the usage of a non-canonical AUG 3M-bM-^@M-^Y-splice site. The use of non-productive alternative splice sites can limit the expression of some transcripts and can be increased in stress conditions in a promoter-dependent manner, contributing to the down-regulation of genes during stress. These results reveal that alternative splicing is frequent in S.cerevisiae but masked by RNA degradation and that the use of alternative splice sites is mostly aimed at controlling transcript levels rather than increasing proteome diversity. mRNA-Seq profiling of 3 mutants in the nonsense-mediated mRNA decay pathway and wildtype yeast

2014-02-21 | E-GEOD-55213 | biostudies-arrayexpress

Saccharomyces cerevisiae BY4741

Project description:Quality control of transcription start site selection by Nonsense-Mediated-mRNA Decay

| PRJNA270241 | ENA

Saccharomyces cerevisiae

Project description:Spliceosome-Mediated-Decay (SMD) regulates expression of non-intronic genes in budding yeast

| PRJNA215712 | ENA

Ultraconserved elements are associated with control of splicing regulators by alt splicing and nonsense mediated decay

Project description:We blocked nonsense-mediated mRNA decay (NMD) pathway and used a custom alternative transcript sensitive Affymetrix microarray to seek alternatively spliced RNAs whose levels increased compared to controls. Keywords: Nonsense Mediated Decay (NMD)

2007-08-31 | GSE6611 | GEO

Caenorhabditis elegans

Project description:Nonsense-mediated decay triggers nonstop mRNA decay in a metazoan

| PRJNA398292 | ENA

Saccharomyces cerevisiae

Project description:Nonsense-Mediated Decay restricts lncRNAs levels in yeast unless blocked by double-stranded RNA structure

| PRJNA285346 | ENA