Article ; Online: Temporal-iCLIP captures co-transcriptional RNA-protein interactions.
2023 Volume 14, Issue 1, Page(s) 696
Abstract: Dynamic RNA-protein interactions govern the co-transcriptional packaging of RNA polymerase II (RNAPII)-derived transcripts. Yet, our current understanding of this process in vivo primarily stems from steady state analysis. To remedy this, we here conduct ...
Abstract | Dynamic RNA-protein interactions govern the co-transcriptional packaging of RNA polymerase II (RNAPII)-derived transcripts. Yet, our current understanding of this process in vivo primarily stems from steady state analysis. To remedy this, we here conduct temporal-iCLIP (tiCLIP), combining RNAPII transcriptional synchronisation with UV cross-linking of RNA-protein complexes at serial timepoints. We apply tiCLIP to the RNA export adaptor, ALYREF; a component of the Nuclear Exosome Targeting (NEXT) complex, RBM7; and the nuclear cap binding complex (CBC). Regardless of function, all tested factors interact with nascent RNA as it exits RNAPII. Moreover, we demonstrate that the two transesterification steps of pre-mRNA splicing temporally separate ALYREF and RBM7 binding to splicing intermediates, and that exon-exon junction density drives RNA 5'end binding of ALYREF. Finally, we identify underappreciated steps in snoRNA 3'end processing performed by RBM7. Altogether, our data provide a temporal view of RNA-protein interactions during the early phases of transcription. |
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MeSH term(s) | RNA-Binding Proteins/metabolism ; Cell Nucleus/metabolism ; RNA Precursors/metabolism ; RNA Splicing ; RNA Polymerase II/metabolism ; RNA, Small Nucleolar/metabolism |
Chemical Substances | RNA-Binding Proteins ; RNA Precursors ; RNA Polymerase II (EC 2.7.7.-) ; RNA, Small Nucleolar |
Language | English |
Publishing date | 2023-02-08 |
Publishing country | England |
Document type | Journal Article ; Research Support, Non-U.S. Gov't |
ZDB-ID | 2553671-0 |
ISSN | 2041-1723 ; 2041-1723 |
ISSN (online) | 2041-1723 |
ISSN | 2041-1723 |
DOI | 10.1038/s41467-023-36345-y |
Database | MEDical Literature Analysis and Retrieval System OnLINE |
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