ArticleNucleic acids research2019
RNA degradomes reveal substrates and importance for dark and nitrogen stress responses of Arabidopsis XRN4.
Article in Nucleic acids research, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 25 papers.
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Who cites it
25 citing papers in PubMed, 51 citations in OpenAlex.
- Genome-wide mapping of DCP2-dependent 5' cap footprints inNAR genomics and bioinformatics · 2026Article
- TheGenome research · 2025Article
- Ribosome stalling-induced NIP5;1 mRNA decay triggers ARGONAUTE1-dependent transcription downregulation.Nucleic acids research · 2025Article
- Plant response to intermittent heat stress involves modulation of mRNA translation efficiency.Plant physiology · 2025Article
- Multi-transcriptomics identifies targets of the endoribonuclease DNE1 and highlights its coordination with decapping.The Plant cell · 2024Article
- Genome-wide analysis of mRNA decay in Arabidopsis shoot and root reveals the importance of co-translational mRNA decay in the general mRNA turnover.Nucleic acids research · 2024Article
- Endoribonuclease DNE1 Promotes Ethylene Response by ModulatingInternational journal of molecular sciences · 2024Article
- Nonsense-mediated mRNA decay pathway in plants under stress: general gene regulatory mechanism and advances.Planta · 2024Review
- Inhibition of RNA degradation integrates the metabolic signals induced by osmotic stress into the Arabidopsis circadian system.Journal of experimental botany · 2023Article
- RNA degradome analysis reveals DNE1 endoribonuclease is required for the turnover of diverse mRNA substrates in Arabidopsis.The Plant cell · 2023Article
- Article
- SnRK2.10 kinase differentially modulates expression of hub WRKY transcription factors genes under salinity and oxidative stress inFrontiers in plant science · 2023Article
- Monitoring mRNA Half-Life in Arabidopsis Using Droplet Digital PCR.Plants (Basel, Switzerland) · 2022Article
- Arabidopsis RNA processing body components LSM1 and DCP5 aid in the evasion of translational repression during Cauliflower mosaic virus infection.The Plant cell · 2022Article
- A NYN domain protein directly interacts with DECAPPING1 and is required for phyllotactic pattern.Plant physiology · 2022Article
- Genome-wide analyses of XRN1-sensitive targets in osteosarcoma cells identify disease-relevant transcripts containing G-rich motifs.RNA (New York, N.Y.) · 2021Article
- Intragenic heterochromatin-mediated alternative polyadenylation modulates miRNA and pollen development in rice.The New phytologist · 2021Article
- High-throughput 5'P sequencing enables the study of degradation-associated ribosome stalls.Cell reports methods · 2021Article
- Comparative parallel analysis of RNA ends identifies mRNA substrates of a tRNA splicing endonuclease-initiated mRNA decay pathway.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Fast and Efficient 5'P Degradome Library Preparation for Analysis of Co-Translational Decay in Arabidopsis.Plants (Basel, Switzerland) · 2021Article
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Authors and funding
4 authors at 2 institutions in 1 country.
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Abstract
XRN4, the plant cytoplasmic homolog of yeast and metazoan XRN1, catalyzes exoribonucleolytic degradation of uncapped mRNAs from the 5' end. Most studies of cytoplasmic XRN substrates have focused on polyadenylated transcripts, although many substrates are likely first deadenylated. Here, we report the global investigation of XRN4 substrates in both polyadenylated and nonpolyadenylated RNA to better understand the impact of the enzyme in Arabidopsis. RNA degradome analysis demonstrated that xrn4 mutants overaccumulate many more decapped deadenylated intermediates than those that are polyadenylated. Among these XRN4 substrates that have 5' ends precisely at cap sites, those associated with photosynthesis, nitrogen responses and auxin responses were enriched. Moreover, xrn4 was found to be defective in the dark stress response and lateral root growth during N resupply, demonstrating that XRN4 is required during both processes. XRN4 also contributes to nonsense-mediated decay (NMD) and xrn4 accumulates 3' fragments of select NMD targets, despite the lack of the metazoan endoribonuclease SMG6 in plants. Beyond demonstrating that XRN4 is a major player in multiple decay pathways, this study identified intriguing molecular impacts of the enzyme, including those that led to new insights about mRNA decay and discovery of functional contributions at the whole-plant level.
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Registered trials
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