ArticleThe Plant cell2014
Imaging of endogenous messenger RNA splice variants in living cells reveals nuclear retention of transcripts inaccessible to nonsense-mediated decay in Arabidopsis.
Article in The Plant cell, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 65 papers.
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Who cites it
65 citing papers in PubMed, 122 citations in OpenAlex.
- Low temperature-induced profiling of transcription and alternative splicing during seed germination in rice.BMC genomics · 2026Article
- 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
- Co-transcriptional gene regulation in plants.aBIOTECH · 2026Review
- Targeted blocking of gene splicing can dysregulate intron-embedded primary microRNAs.Communications biology · 2026Article
- Article
- The role of Arabidopsis Splicing Factor 30 in floral transition and the implications of its alternative splicing.Plant physiology · 2025Article
- At-RS31 orchestrates hierarchical cross-regulation of splicing factors and integrates alternative splicing with TOR-ABA pathways.The New phytologist · 2025Article
- Comprehensive mapping of Arabidopsis alternative splicing landscape reveals key insights into plant development and immunity.The plant genome · 2025Article
- Live-cell RNA imaging with the inactivated endonuclease Csy4 enables new insights into plant virus transport through plasmodesmata.PLoS pathogens · 2025Article
- A Genome-Wide Alternative Splicing Analysis ofPlants (Basel, Switzerland) · 2024Article
- Light regulates nuclear detainment of intron-retained transcripts through COP1-spliceosome to modulate photomorphogenesis.Nature communications · 2024Article
- Gene expression and alternative splicing contribute to adaptive divergence of ecotypes.Heredity · 2024Article
- Do not panic: An intron-centric guide to alternative splicing.The Plant cell · 2023Review
- PlaASDB: a comprehensive database of plant alternative splicing events in response to stress.BMC plant biology · 2023Article
- Article
- Alternative Splicing in the Regulatory Circuit of Plant Temperature Response.International journal of molecular sciences · 2023Review
- Do plants drive translation reinitiation to dodge nonsense-mediated decay?Journal of experimental botany · 2023Article
- Dwarf and High Tillering1 represses rice tillering through mediating the splicing of D14 pre-mRNA.The Plant cell · 2022Article
- Biochemical Interactions through Microscopic Techniques: Structural and Molecular Characterization.Polymers · 2022Review
- Function of Cajal Bodies in Nuclear RNA Retention inInternational journal of molecular sciences · 2022Article
5 more citing papers are in PubMed but not listed here.
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Authors and funding
3 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Alternative splicing (AS) is an important regulatory process that leads to the creation of multiple RNA transcripts from a single gene. Alternative transcripts often carry premature termination codons (PTCs), which trigger nonsense-mediated decay (NMD), a cytoplasmic RNA degradation pathway. However, intron retention, the most prevalent AS event in plants, often leads to PTC-carrying splice variants that are insensitive to NMD; this led us to question the fate of these special RNA variants. Here, we present an innovative approach to monitor and characterize endogenous mRNA splice variants within living plant cells. This method combines standard confocal laser scanning microscopy for molecular beacon detection with a robust statistical pipeline for sample comparison. We demonstrate this technique on the localization of NMD-insensitive splice variants of two Arabidopsis thaliana genes, RS2Z33 and the SEF factor. The experiments reveal that these intron-containing splice variants remain within the nucleus, which allows them to escape the NMD machinery. Moreover, fluorescence recovery after photobleaching experiments in the nucleoplasm show a decreased mobility of intron-retained mRNAs compared with fully spliced RNAs. In addition, differences in mobility were observed for an mRNA dependent on its origin from an intron-free or an intron-containing gene.
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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.