ArticleScience China. Life sciences2021
Extensive profiling of the expressions of tRNAs and tRNA-derived fragments (tRFs) reveals the complexities of tRNA and tRF populations in plants.
Article in Science China. Life sciences, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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17 citing papers in PubMed, 34 citations in OpenAlex.
- RNA regulation in plants.Science China. Life sciences · 2026Review
- tRF and gastric cancer: molecular mechanism exploration and novel strategies for precision diagnosis and therapy.Journal of translational medicine · 2026Review
- Reshaping organellar translation and tRNA metabolism: the consequences of photosynthesis loss and massive horizontal gene transfer.Molecular biology and evolution · 2026Article
- Reactivation of the tRNASer/tRNATyr gene cluster in Arabidopsis thaliana root tips.The Plant cell · 2025Article
- Review
- The landscape of Arabidopsis tRNA aminoacylation.The Plant journal : for cell and molecular biology · 2024Article
- PBOX-sRNA-seq uncovers novel features of miRNA modification and identifies selected 5'-tRNA fragments bearing 2'-O-modification.Nucleic acids research · 2024Article
- Comprehensive profiling of rRNA-derived small RNAs inMethodsX · 2024Article
- RNS2 is required for the biogenesis of a wounding responsive 16 nts tsRNA in Arabidopsis thaliana.Plant molecular biology · 2024Article
- Site-specific analysis reveals candidate cross-kingdom small RNAs, tRNA and rRNA fragments, and signs of fungal RNA phasing in the barley-powdery mildew interaction.Molecular plant pathology · 2023Article
- Beyond transcription: compelling open questions in plant RNA biology.The Plant cell · 2023Article
- tRNA-derived small RNAs in plant response to biotic and abiotic stresses.Frontiers in plant science · 2023Review
- An Expanded Landscape of Unusually Short RNAs in 11 Samples from Six Eukaryotic Organisms.Non-coding RNA · 2022Article
- tRNA-derived fragments from wheat are potentially involved in susceptibility to Fusarium head blight.BMC plant biology · 2022Article
- tRNA derived small RNAs-Small players with big roles.Frontiers in genetics · 2022Review
- A 5' tRNA-Ala-derived small RNA regulates anti-fungal defense in plants.Science China. Life sciences · 2022Article
- Intragenic tRNA-promoted R-loops orchestrate transcription interference for plant oxidative stress responses.The Plant cell · 2021Article
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Authors and funding
8 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Evidence is emerging that tRNA-derived fragments (tRFs) are regulatory molecules. Studies of tRFs in plants have been based on conventional small RNA sequencing, and focused on profiling of tRF-5 and tRF-3 species. A more comprehensive and quantitative analysis of the entire tRF population is highly necessary. Here, we employ tRNA-seq and YAMAT-seq, and develop a bioinformatics tool to comprehensively profile the expressions of tRNAs and tRFs in plants. We show that in Arabidopsis, approximately half of tRNA genes are extremely weakly expressed, accounting for only 1% of total tRNA abundance, while ~12% of tRNA genes contribute to ~80% of tRNA abundance. Our tRNA sequencings in various plants reveal that tRNA expression profiles exhibit a cross-species conserved pattern. By characterizing the composition of a highly heterogeneous tRF population, we show that tRNA halves and previously unnoticed 10-16-nt tiny tRFs represent substantial portions. The highly accumulated 13-nt and 16-nt tiny tRFs in Arabidopsis indicate that tiny tRFs are not random tRNA degradation products. Finally, we provide a user-friendly database for displaying the dynamic spatiotemporal expressions of tRNAs and tRFs in the model plants Arabidopsis and rice.
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