ArticleNature plants2022
R-loops at microRNA encoding loci promote co-transcriptional processing of pri-miRNAs in plants.
Article in Nature plants, 2022. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 54 papers.
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Who cites it
54 citing papers in PubMed, 85 citations in OpenAlex.
- HASTY-dependent miRNA cell-to-cell movement is required for systemic pathogen resistance in Arabidopsis.Plant communications · 2026Article
- R-loops and D-loops: a delicate balance in genomic stability and instability.Cell communication and signaling : CCS · 2026Review
- Multi-omics dissection of R-loop dynamics in tumorigenesis: From transcription-replication conflict to therapeutic targets.Molecular therapy. Oncology · 2026Review
- The nuclear cap-binding complex regulates subcellular RNA processing and surveillance of coding and noncoding RNAs.Nucleic acids research · 2026Article
- Plant microRNA maturation and function.Nature reviews. Molecular cell biology · 2026Review
- miRNA-targeted auxin nuclear signalling elements orchestrate flower fate and drought response in yellow lupine.Scientific reports · 2025Article
- The impact of miRNAs on epithelial-mesenchymal transition in lung cancer and the latest advances in their use as diagnostic markers.Journal of cancer research and clinical oncology · 2025Review
- The nuclear pore complex acts as a hub for pri-miRNA transcription and processing in plants.Nucleic acids research · 2025Article
- Key RNA elements influencing DCL1 cleavage in plant microRNA biogenesis.Nature plants · 2025Article
- MiR-124 and MiR-155 as Therapeutic Targets in Microglia-Mediated Inflammation in Multiple Sclerosis.Cellular and molecular neurobiology · 2025Review
- A plant bunyaviral protein disrupts SERRATE phase separation to modulate microRNA biogenesis during viral pathogenesis.Nature communications · 2025Article
- Remote precursor elements can modulate RNA induced silencing complex-loading efficiency of miR168 in Arabidopsis.The Plant journal : for cell and molecular biology · 2025Article
- Circular RNAs derived from MIR156D promote rice heading by repressing transcription elongation of pri-miR156d through R-loop formation.Nature plants · 2025Article
- The Roles of MicroRNAs in the Regulation of Rice-Pathogen Interactions.Plants (Basel, Switzerland) · 2025Review
- Transposon-triggered epigenetic chromatin dynamics modulate EFR-related pathogen response.Nature structural & molecular biology · 2025Article
- R-loops and small RNA regulatory interactions: mechanisms and clinical perspectives.Frontiers in cell and developmental biology · 2025Review
- SERRATE drives phase separation behaviours to regulate m6A modification and miRNA biogenesis.Nature cell biology · 2024Article
- The Biosynthesis Process of Small RNA and Its Pivotal Roles in Plant Development.International journal of molecular sciences · 2024Review
- Citrus psorosis virus 24K protein inhibits the processing of miRNA precursors by interacting with components of the biogenesis machinery.Microbiology spectrum · 2024Article
- Parallel degradome-seq and DMS-MaPseq substantially revise the miRNA biogenesis atlas in Arabidopsis.Nature plants · 2024Article
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Authors and funding
12 authors at 5 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
In most organisms, the maturation of nascent RNAs is coupled to transcription. Unlike in animals, the RNA polymerase II (RNAPII) transcribes microRNA genes (MIRNAs) as long and structurally variable pri-miRNAs in plants. Current evidence suggests that the miRNA biogenesis complex assembly initiates early during the transcription of pri-miRNAs in plants. However, it is unknown whether miRNA processing occurs co-transcriptionally. Here, we used native elongating transcript sequencing data and imaging techniques to demonstrate that plant miRNA biogenesis occurs coupled to transcription. We found that the entire biogenesis occurs co-transcriptionally for pri-miRNAs processed from the loop of the hairpin but requires a second nucleoplasmic step for those processed from the base. Furthermore, we found that co- and post-transcriptional miRNA processing mechanisms co-exist for most miRNAs in a dynamic balance. Notably, we discovered that R-loops, formed near the transcription start site region of MIRNAs, promote co-transcriptional pri-miRNA processing. Furthermore, our results suggest the neofunctionalization of co-transcriptionally processed miRNAs, boosting countless regulatory scenarios.
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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.