ArticleJournal of experimental botany2019
Transcriptome-wide analysis of pseudouridylation of mRNA and non-coding RNAs in Arabidopsis.
Article in Journal of experimental botany, 2019. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 46 papers.
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Who cites it
46 citing papers in PubMed, 69 citations in OpenAlex.
- From water to land: evolution of tRNA gene repertoires in photosynthetic organisms.The EMBO journal · 2026Review
- The mutation of pseudouridine synthase gene BrTRUD1 resulted in glossy leaf in Chinese cabbage.TAG. Theoretical and applied genetics. Theoretische und angewandte Genetik · 2026Article
- Perturbation of mitochondrial CaStress biology · 2026Article
- Emerging roles of non-mNature plants · 2026Review
- A comprehensive analysis of the use of nucleoside analogues in RNA therapeutics.Journal of translational medicine · 2026Review
- Review
- Epitranscriptomic modifications in plant RNAs.RNA biology · 2025Review
- Advances in Detecting RNA Modifications Using Direct RNA Nanopore Sequencing.Advanced genetics (Hoboken, N.J.) · 2025Review
- RNA processing/modifying enzymes play key roles in the response to thermospermine in Arabidopsis thaliana.The Plant journal : for cell and molecular biology · 2025Article
- Review
- Epigenetics in the modern era of crop improvements.Science China. Life sciences · 2025Review
- RNA modifications in plant biotic interactions.Plant communications · 2025Review
- Pseudouridine guides germline small RNA transport and epigenetic inheritance.Nature structural & molecular biology · 2025Article
- Quantitative RNA pseudouridine maps reveal multilayered translation control through plant rRNA, tRNA and mRNA pseudouridylation.Nature plants · 2025Article
- Epitranscriptomic and expression profiling inComputational and structural biotechnology journal · 2025Article
- The Roles of RNA Modifications in Regulating Chloroplast Performance and Photosynthesis Efficiency.International journal of molecular sciences · 2024Review
- RluA is the major mRNA pseudouridine synthase in Escherichia coli.PLoS genetics · 2024Article
- Comparative analyses suggest a link between mRNA splicing, stability, and RNA covalent modifications in flowering plants.BMC plant biology · 2024Article
- Landscape of RNA pseudouridylation in archaeon Sulfolobus islandicus.Nucleic acids research · 2024Article
- Cryo-EM structure of wheat ribosome reveals unique features of the plant ribosomes.Structure (London, England : 1993) · 2024Article
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Authors and funding
10 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Pseudouridine (Ψ) is widely distributed in mRNA and various non-coding RNAs in yeast and mammals, and the specificity of its distribution has been determined. However, knowledge about Ψs in the RNAs of plants, particularly in mRNA, is lacking. In this study, we performed genome-wide pseudouridine-sequencing in Arabidopsis and for the first time identified hundreds of Ψ sites in mRNA and multiple Ψ sites in non-coding RNAs. Many predicted and novel Ψ sites in rRNA and tRNA were detected. mRNA was extensively pseudouridylated, but with Ψs being under-represented in 3'-untranslated regions and enriched at position 1 of triple codons. The phenylalanine codon UUC was the most frequently pseudouridylated site. Some Ψs present in chloroplast 23S, 16S, and 4.5S rRNAs in wild-type Col-0 were absent in plants with a mutation of SVR1 (Suppressor of variegation 1), a chloroplast pseudouridine synthase gene. Many plastid ribosomal proteins and photosynthesis-related proteins were significantly reduced in svr1 relative to the wild-type, indicating the roles of SVR1 in chloroplast protein biosynthesis in Arabidopsis. Our results provide new insights into the occurrence of pseudouridine in Arabidopsis RNAs and the biological functions of SVR1, and will pave the way for further exploiting the mechanisms underlying Ψ modifications in controlling gene expression and protein biosynthesis in plants.
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