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Mapping snoRNA-target RNA interactions in an RNA binding protein-dependent manner with chimeric eCLIP [chimeric eCLIP]

ABSTRACT: To indentify the targets of snoRNAs, we adapted an enhanced chimeric eCLIP approach,utilizing both established core proteins and lesser-known snoRNA-associated RBPs as bait. .

ORGANISM(S): Mus musculus Homo sapiens

PROVIDER: GSE277414 | GEO | 2025/01/16

REPOSITORIES: GEO

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Mapping snoRNA-target RNA interactions in an RNA binding protein-dependent manner with chimeric eCLIP [eCLIP]

Project description:To identify the snoRNAs, we perfromed eCLIP with all snoRNA binding proteins as baits.

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Mapping snoRNA-target RNA interactions in an RNA binding protein-dependent manner with chimeric eCLIP [Ribo_Meth-seq]

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Annotation of snoRNA abundance across human tissues reveals complex snoRNA-host gene relationships

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Project description:Small nucleolar RNAs (snoRNA) are non-coding RNAs known for guiding RNA modifications including 2ʹ-O-methylation (Nm) and pseudouridine (Ψ). While snoRNAs may also interact with other RNAs such as mRNA, the full repertoire of RNAs targeted by snoRNA remains elusive due to the lack of effective technologies that identify snoRNA targets transcriptome-wide. Here we develop a chemical crosslinking-based approach that comprehensively detects cellular RNA targets of snoRNAs, yielding thousands of previously unrecognized snoRNA-mRNA interactions in human cells and mouse brain tissues. Many interactions occur outside of snoRNA-guided rRNA modification sites, hinting at non-canonical functions beyond RNA modification. We find that one of these snoRNAs, SNORA73, targets mRNAs that encode secretory proteins and membrane proteins. SNORA73 also interacts with 7SL RNA, part of the signal recognition particle (SRP) required for protein secretion. The mRNA-SNORA73-7SL RNA interactions enhance the association of the SNORA73-target mRNAs with SRP, thereby facilitating secretion of the encoded proteins.

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