GEOapplication/xmlftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE308nnn/GSE308938/primary200OKOtherSaccharomyces cerevisiae Expression profiling by high throughput sequencingOtherhttps://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE308938GEOGSEfalseIdentification of translation events that drive nonsense-mediated mRNA decay reveals functional roles for alternative RNA isoformsThe nonsense-mediated mRNA decay (NMD) pathway targets mRNAs undergoing premature translation termination for degradation. Previously, RNA-seq of yeast lacking NMD revealed that most genes targeted by NMD lack obvious premature termination codons (PTCs). We developed a combined approach using RNA-seq and a novel 40S ribosome profiling strategy to identify cryptic premature termination events that could account for NMD on nearly all these transcripts, including many non-coding RNA transcript isoforms associated with annotated genes. Many NMD-targeted transcripts appear to be involved in two-promoter gene regulatory systems and share properties with long un-decoded transcript isoforms (LUTIs). In particular, we show that the DAL5 LUTI regulates expression of the DAL5 protein-coding mRNA in response to changes to environmental nitrogen. Our work expands the functional roles for LUTIs and establishes the importance of NMD in their regulation.2026/09/16GSE308938GSM9256519GSM9256517GSM9256518GSM9256522GSM9256500GSM9256523GSM9256501GSM9256520GSM9256521GSM9256504GSM9256505GSM9256502GSM9256503GSM9256508GSM9256509GSM9256506GSM9256507GSM9256492GSM9256493GSM9256490GSM9256491GSM9256496GSM9256497GSM9256494GSM9256495GSM9256511GSM9256512GSM9256498GSM9256510GSM9256499GSM9256515GSM9256516GSM9256513GSM92565142301427812308938Saccharomyces cerevisiae