ArticleThe Plant cell2013
Nonsense-mediated decay of alternative precursor mRNA splicing variants is a major determinant of the Arabidopsis steady state transcriptome.
Article in The Plant cell, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 132 papers.
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Who cites it
132 citing papers in PubMed, 232 citations in OpenAlex.
- Differential splicing fine-tunes guard cell gene expression and is required for drought tolerance in Arabidopsis thaliana.The Plant journal : for cell and molecular biology · 2026Article
- Impact of alternative splicing on Arabidopsis proteome.Nucleic acids research · 2026Article
- Transcript isoforms and alternative splicing in polyploid Brassica napus under heat and cold stress.Annals of botany · 2026Article
- The nuclear cap-binding complex regulates subcellular RNA processing and surveillance of coding and noncoding RNAs.Nucleic acids research · 2026Article
- CRISPR-Cas9 disruption of flavanone 3-hydroxylase produces a green phenotype and alters flavone metabolites in allotetraploid perilla.Frontiers in plant science · 2026Article
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- Transcription fidelity and control of alternative splicing contribute to heat stress survival in Arabidopsis.The Plant cell · 2025Article
- Impact of alternative splicing on Arabidopsis proteome.bioRxiv : the preprint server for biology · 2025Article
- DSK2-mediated degradation of F-box protein LAO1 and class I TCPs modulates the nitrogen starvation response.EMBO reports · 2025Article
- Cotyledon opening during seedling deetiolation is determined by ABA-mediated splicing regulation.EMBO reports · 2025Article
- Comprehensive mapping of Arabidopsis alternative splicing landscape reveals key insights into plant development and immunity.The plant genome · 2025Article
- Exploring Alternative Splicing in Response to Salinity: A Tissue-Level Comparative Analysis UsingPlants (Basel, Switzerland) · 2025Article
- Global impact of unproductive splicing on human gene expression.Nature genetics · 2024Article
- Relevance and regulation of alternative splicing in plant secondary metabolism: current understanding and future directions.Horticulture research · 2024Review
- An autoregulatory poison exon in Smndc1 is conserved across kingdoms and influences organism growth.PLoS genetics · 2024Article
- Exitrons: offering new roles to retained introns-the novel regulators of protein diversity and utility.AoB PLANTS · 2024Review
- Nonsense-mediated mRNA decay pathway in plants under stress: general gene regulatory mechanism and advances.Planta · 2024Review
- Alternative splicing responses to salt stress inFrontiers in genetics · 2024Article
- Global impact of aberrant splicing on human gene expression levels.bioRxiv : the preprint server for biology · 2023Article
72 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
8 authors at 2 institutions in 2 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
The nonsense-mediated decay (NMD) surveillance pathway can recognize erroneous transcripts and physiological mRNAs, such as precursor mRNA alternative splicing (AS) variants. Currently, information on the global extent of coupled AS and NMD remains scarce and even absent for any plant species. To address this, we conducted transcriptome-wide splicing studies using Arabidopsis thaliana mutants in the NMD factor homologs UP FRAMESHIFT1 (UPF1) and UPF3 as well as wild-type samples treated with the translation inhibitor cycloheximide. Our analyses revealed that at least 17.4% of all multi-exon, protein-coding genes produce splicing variants that are targeted by NMD. Moreover, we provide evidence that UPF1 and UPF3 act in a translation-independent mRNA decay pathway. Importantly, 92.3% of the NMD-responsive mRNAs exhibit classical NMD-eliciting features, supporting their authenticity as direct targets. Genes generating NMD-sensitive AS variants function in diverse biological processes, including signaling and protein modification, for which NaCl stress-modulated AS-NMD was found. Besides mRNAs, numerous noncoding RNAs and transcripts derived from intergenic regions were shown to be NMD responsive. In summary, we provide evidence for a major function of AS-coupled NMD in shaping the Arabidopsis transcriptome, having fundamental implications in gene regulation and quality control of transcript processing.
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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.