{"database":"GEO","file_versions":[{"headers":{"Content-Type":["application/json"]},"body":{"files":{"Other":["ftp://ftp.ncbi.nlm.nih.gov/geo/series/GSE232nnn/GSE232084/"]},"type":"primary"},"statusCode":"OK","statusCodeValue":200}],"scores":null,"additional":{"omics_type":["Transcriptomics"],"species":["Arabidopsis thaliana"],"gds_type":["Expression profiling by high throughput sequencing"],"full_dataset_link":["https://www.ncbi.nlm.nih.gov/geo/query/acc.cgi?acc=GSE232084"],"repository":["GEO"],"entry_type":["GSE"],"additional_accession":[]},"is_claimable":false,"name":"Nonsense mediated decay degrades nonproductive RNAs produced by alternative RNA splicing in response to heat stress in Arabidopsis","description":"Elevated temperature enhances the frequency of alternative RNA splicing (AS) in plants producing RNA isoforms, some of which are productive, likely expanding the repertoire of stress responses, while other isoforms are nonproductive or possibly toxic. This raises the question whether plants can recognize and degrade nonproductive RNA isoforms by nonsense-mediated decay (NMD). In this study Arabidopsis seedlings were subjected to heat stress and RNA isoforms were identified that were upregulated by heat treatment but spared degradation in NMD mutants or in seedlings in which translation was blocked by cycloheximide. The differentially expressed isoforms (DEIs) produced in response to heat stress and that might be relevant to NMD were grouped according to expression patterns. Group 1 DEIs were rapidly heat-induced, then declined during futher heat treatment, but the transcripts were spared from degradation when NMD was compromised. Group 2 DEIs were not upregulated in response to heat; however, their transcript levels declined during heat treatment, but were spared when NMD was blocked. Group 3 DEIs were constitutively expressed although at higher levels when NMD was blocked. While the common targets of NMD are RNA transcripts with premature termination codons (PTCs), other seemingly normal transcripts, such as those with long 3’-untranslated regions (3’-UTRs) are probablistics NMD targets. Long 3’-UTRs from some Arabidopsisi genes such as WRKY70, ACS11, YUCC5, OSM, and SARD1, were confirmed to be NMD targets using a modified Dual-Luciferase (LUC) 3’-UTR test system in protoplasts. Following heat stress, upstream frameshift (upf) mutants tended to spare from degradation NMD targets, such as transcripts with PTCs. Despite their penchant for sparing transcripts from degradation, upf mutants were more sensitive to stress, which demonstrates the importance of NMD to resist abiotic stresses, such as heat stress.","dates":{"publication":"2026/07/08"},"accession":"GSE232084","cross_references":{"GSM":["GSM7311730","GSM7311731","GSM7311710","GSM7311732","GSM7311733","GSM7311711","GSM7311734","GSM7311712","GSM7311713","GSM7311735","GSM7311736","GSM7311714","GSM7311737","GSM7311715","GSM7311716","GSM7311738","GSM7311728","GSM7311729","GSM7311707","GSM7311708","GSM7311709","GSM7311740","GSM7311741","GSM7311742","GSM7311720","GSM7311743","GSM7311721","GSM7311722","GSM7311744","GSM7311745","GSM7311723","GSM7311746","GSM7311724","GSM7311725","GSM7311747","GSM7311748","GSM7311726","GSM7311727","GSM7311739","GSM7311717","GSM7311718","GSM7311719"],"GPL":["26208"],"GSE":["232084"],"taxon":["Arabidopsis thaliana"]}}