Staufen1 senses overall transcript secondary structure to regulate translation
Biochemistry & Molecular Pharmacology
Department of Biochemistry and Molecular Pharmacology
Biochemistry | Molecular Biology | Structural Biology
Human Staufen1 (Stau1) is a double-stranded RNA (dsRNA)-binding protein implicated in multiple post-transcriptional gene-regulatory processes. Here we combined RNA immunoprecipitation in tandem (RIPiT) with RNase footprinting, formaldehyde cross-linking, sonication-mediated RNA fragmentation and deep sequencing to map Staufen1-binding sites transcriptome wide. We find that Stau1 binds complex secondary structures containing multiple short helices, many of which are formed by inverted Alu elements in annotated 3' untranslated regions (UTRs) or in 'strongly distal' 3' UTRs. Stau1 also interacts with actively translating ribosomes and with mRNA coding sequences (CDSs) and 3' UTRs in proportion to their GC content and propensity to form internal secondary structure. On mRNAs with high CDS GC content, higher Stau1 levels lead to greater ribosome densities, thus suggesting a general role for Stau1 in modulating translation elongation through structured CDS regions. Our results also indicate that Stau1 regulates translation of transcription-regulatory proteins.
DOI of Published Version
Nat Struct Mol Biol. 2014 Jan;21(1):26-35. doi: 10.1038/nsmb.2739. Epub 2013 Dec 15. Link to article on publisher's site
Nature structural and molecular biology
Ricci, Emiliano P.; Kucukural, Alper; Cenik, Can; Mercier, Blandine C.; Singh, Guramrit; Heyer, Erin E.; Ashar-Patel, Ami; Peng, Lingtao; and Moore, Melissa J., "Staufen1 senses overall transcript secondary structure to regulate translation" (2014). GSBS Student Publications. 1991.