The compendium of Arabidopsis thaliana GLYCINE-RICH RNA-BINDING PROTEIN 8 in vivo targets determined by iCLIP
Abstract RNA-binding proteins impact RNA processing including splicing, translation and RNA decay to dictate the fate of RNAs. Thus, insights into RNA-protein interactions in the cell provide insights into regulatory networks regulating gene expression at the posttranscriptional level. In higher pla...
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| Main Authors: | , , , |
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| Format: | Article |
| Language: | English |
| Published: |
Nature Portfolio
2025-08-01
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| Series: | Scientific Data |
| Online Access: | https://doi.org/10.1038/s41597-025-05716-z |
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| Summary: | Abstract RNA-binding proteins impact RNA processing including splicing, translation and RNA decay to dictate the fate of RNAs. Thus, insights into RNA-protein interactions in the cell provide insights into regulatory networks regulating gene expression at the posttranscriptional level. In higher plants, only few RNA-binding proteins have their in vivo targets and binding sites determined, mostly due to technical challenges posed by plant tissue. We previously adapted individual nucleotide-resolution crosslinking and immunoprecipitation that relies on UV-light irradiation to stabilize RNA-protein interactions in the cell to Arabidopsis plants. Here, we profiled the in vivo binding landscape of the glycine-rich RNA-binding protein AtGRP8 by iCLIP. Transgenic plants expressing AtGRP8 fused to GREEN FLUORESCENT PROTEIN under the native promoter were subjected to UV-crosslinking. RNA-protein complexes were immunoprecipitated and bound RNAs were determined by RNA-seq. A bioinformatics pipeline tailor-made for Arabidopsis identified target RNAs, and delineated binding sites and binding motifs for AtGRP8. These data will aid in assembling a compendium of binding sites for plant RNA-binding proteins and contribute to unravel plant posttranscriptional networks. |
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| ISSN: | 2052-4463 |