Drosophila Imp iCLIP identifies an RNA assemblage coordinating F-actin formation

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Heidi Theil Hansen, Simon Horskjær Rasmussen, Sidsel Kramshøj Adolph, Mireya Plass, Anders Krogh, Jeremy Sanford, Finn Cilius Nielsen, Jan Christiansen

BACKGROUND: Post-transcriptional RNA regulons ensure co-ordinated expression of monocistronic mRNAs encoding functionally related proteins. In this study, we employ a combination of RIP-seq and short- and long-wave individual-nucleotide resolution crosslinking and immunoprecipitation (iCLIP) technologies in Drosophila cells to identify transcripts associated with cytoplasmic ribonucleoproteins (RNPs) containing the RNA-binding protein Imp.

RESULTS: We find extensive binding of Imp to 3'UTRs of transcripts that are involved in F-actin formation. A common denominator of the RNA-protein interface is the presence of multiple motifs with a central UA-rich element flanked by CA-rich elements. Experiments in single cells and intact flies reveal compromised actin cytoskeletal dynamics associated with low Imp levels. The former shows reduced F-actin formation and the latter exhibits abnormal neuronal patterning. This demonstrates a physiological significance of the defined RNA regulon.

CONCLUSIONS: Our data imply that Drosophila Imp RNPs may function as cytoplasmic mRNA assemblages that encode proteins which participate in actin cytoskeletal remodeling. Thus, they may facilitate co-ordinated protein expression in sub-cytoplasmic locations such as growth cones.

Original languageEnglish
Article number123
JournalGenome Biology (Online Edition)
Volume16
Number of pages16
ISSN1474-7596
DOIs
Publication statusPublished - 2015

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