?-Actin mRNA interactome mapping by proximity biotinylation.
The molecular function and fate of mRNAs are controlled by RNA-binding proteins (RBPs). Identification of the interacting proteome of a specific mRNA in vivo remains very challenging, however. Based on the widely used technique of RNA tagging with MS2 aptamers for RNA visualization, we developed a RNA proximity biotinylation (RNA-BioID) ... technique by tethering biotin ligase (BirA*) via MS2 coat protein at the 3' UTR of endogenous MS2-tagged ?-actin mRNA in mouse embryonic fibroblasts. We demonstrate the dynamics of the ?-actin mRNA interactome by characterizing its changes on serum-induced localization of the mRNA. Apart from the previously known interactors, we identified more than 60 additional ?-actin-associated RBPs by RNA-BioID. Among these, the KH domain-containing protein FUBP3/MARTA2 has been shown to be required for ?-actin mRNA localization. We found that FUBP3 binds to the 3' UTR of ?-actin mRNA and is essential for ?-actin mRNA localization, but does not interact with the characterized ?-actin zipcode element. RNA-BioID provides a tool for identifying new mRNA interactors and studying the dynamic view of the interacting proteome of endogenous mRNAs in space and time.
Mesh Terms:
3' Untranslated Regions, Actins, Animals, Binding Sites, Biotinylation, Cell Line, Mice, Protein Binding, RNA Processing, Post-Transcriptional, RNA, Messenger, RNA-Binding Proteins
3' Untranslated Regions, Actins, Animals, Binding Sites, Biotinylation, Cell Line, Mice, Protein Binding, RNA Processing, Post-Transcriptional, RNA, Messenger, RNA-Binding Proteins
Proc Natl Acad Sci U S A
Date: Dec. 25, 2018
PubMed ID: 31189591
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