The splicing factor SRSF3 is functionally connected to the nuclear RNA exosome for intronless mRNA decay
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The RNA exosome fulfills important functions in the processing and degradation of numerous RNAs species. However, the mechanisms of recruitment to its various nuclear substrates are poorly understood. Using Epstein-Barr virus mRNAs as a model, we have discovered a novel function for the splicing factor SRSF3 in the quality control of nuclear mRNAs. We have found that viral mRNAs generated from intronless genes are particularly unstable due to their degradation by the nuclear RNA exosome. This effect is counteracted by the viral RNA-binding protein EB2 which stabilizes these mRNAs in the nucleus and stimulates both their export to the cytoplasm and their translation. In the absence of EB2, SRSF3 participates in the destabilization of these viral RNAs by interacting with both the RNA exosome and its adaptor complex NEXT. Taken together, our results provide direct evidence for a connection between the splicing machinery and mRNA decay mediated by the RNA exosome. Our results suggest that SRSF3 aids the nuclear RNA exosome and the NEXT complex in the recognition and degradation of certain mRNAs.
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The RNA exosome has specialized functions in RNA splicing and regulation of AU-rich element (ARE)-containing transcripts.
“In addition to RNA turnover, the RNA exosome has specialized functions in RNA splicing and the regulation of AU-rich element (ARE)-containing transcripts44–47.”
From EXOSC3 G191 Variants Trigger System-Wide Recalibration of RNA Processing Machinery (2026) · cites this paper as [44]
The Discussion (page not available in our copy) reports a connection between splicing factors and recruitment of the nuclear RNA exosome for mRNA degradation. It does not establish that the exosome regulates splicing itself, and no passage found in searches for “AU-rich” or “ARE-containing transcripts” addresses regulation of those transcripts. (LLM, conf=0.86)
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Hierarchical assembly and functional resilience of the mammalian RNA exosomePreprint
Navalayeu, T., Beer, N., Bebjaková, M., Kalis, R., Stejskal, K., Krššáková, G., Fasching, N., Herzog, V. A., Popitsch, N. P., Roitinger, E., et al. (2025) · bioRxiv (Cold Spring Harbor Laboratory) · doi:10.1101/2025.03.14.643291
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Cellular assembly and functional resilience of the mammalian RNA exosome
Navalayeu, T., Beer, N., Bebjaková, M., Kalis, R., Hohmann, U., Stejskal, K., Krššáková, G., Fasching, N., Herzog, V. A., Popitsch, N. P., et al. (2026) · The EMBO Journal · doi:10.1038/s44318-026-00824-x
- Authors
- Mure, F., Corbin, A., Benbahouche, N. E. H., Bertrand, E., Manet, E., & Gruffat, H.
- Affiliations
- Lyon 1 Université (FR)
- Centre National de la Recherche Scientifique (FR)
- Corresponding author
- Gruffat, Henri
- Venue
- Scientific Reports
- Published
- 2018-08-27
- Volume
- 8
- Issue
- 1
- Pages
- 12901-12901
- ISSN
- 2045-2322 (ISSN-L)
- PMC
- PMC6110769
- OpenAlex
- W2888005468
- Cited by
- 38
- References
- 65
- Citations by year
- 2026: 6 · 2025: 3 · 2024: 4 · 2023: 5 · 2022: 5 · 2021: 7 · 2020: 3 · 2019: 5
- FWCI
- 1.33
- Type
- journal article
- Language
- en
- Open access
- gold
- doi.org
- Locations
- Scientific Reports (publishedVersion, cc-by)
- Europe PMC (PubMed Central) (publishedVersion, other-oa)
- PubMed Central (publishedVersion, cc-by)
- PubMed (publishedVersion)
- HAL (submittedVersion)
- HAL (submittedVersion, other-oa)
- DOAJ (DOAJ: Directory of Open Access Journals) (submittedVersion)
- Funders
- Aarhus Universitet
- University of Oxford
- Agence Nationale de la Recherche (ANR-11-LABX-0048)
- Institut National de la Santé et de la Recherche Médicale
- Radboud Universiteit
- Fondation ARC pour la Recherche sur le Cancer
- Ligue Contre le Cancer
- Topics
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA Research and Splicing
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › RNA regulation and disease
- Life Sciences › Biochemistry, Genetics and Molecular Biology › Molecular Biology › Nuclear Structure and Function
- Keywords
- SRSF3, RNA exosome, mRNA degradation, Epstein-Barr virus, splicing factors, mRNA stability, mRNA export, translation (biology), RNA-binding proteins, nuclear quality control
- MeSH terms
- Serine-Arginine Splicing Factors, Cell Nucleus, HeLa Cells, Humans, RNA Splicing, RNA, Messenger, Blotting, Western, RNA-Binding Proteins, RNA Stability, Immunoprecipitation, Exosomes
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