Aspden et al. 2014 (PRJNA258156)

General Details

Title Extensive translation of small Open Reading Frames revealed by Poly-Ribo-Seq
Organism
Number of Samples 5
Release Date 2014/08/13 00:00
Sequencing Types
Protocol Details

Study Links

Repository Details

SRA SRP045475
ENA SRP045475
GEO GSE60384
BioProject PRJNA258156

Publication

Title
Authors Aspden JL, Eyre-Walker YC, Phillips RJ, Amin U, Mumtaz MA, Brocard M, Couso JP
Journal eLife
Publication Date 2014 Aug 21
Abstract Thousands of small Open Reading Frames (smORFs) with the potential to encode small peptides of fewer than 100 amino acids exist in our genomes. However, the number of smORFs actually translated, and their molecular and functional roles are still unclear. In this study, we present a genome-wide assessment of smORF translation by ribosomal profiling of polysomal fractions in Drosophila. We detect two types of smORFs bound by multiple ribosomes and thus undergoing productive translation. The 'longer' smORFs of around 80 amino acids resemble canonical proteins in translational metrics and conservation, and display a propensity to contain transmembrane motifs. The 'dwarf' smORFs are in general shorter (around 20 amino-acid long), are mostly found in 5'-UTRs and non-coding RNAs, are less well conserved, and have no bioinformatic indicators of peptide function. Our findings indicate that thousands of smORFs are translated in metazoan genomes, reinforcing the idea that smORFs are an abundant and fundamental genome component.
PMC PMC4359375
PMID 25144939
DOI
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)
SRR1548656 PRJNA258156 Drosophila melanogaster S2 Ribo-Seq 0.0
SRR1548657 PRJNA258156 Drosophila melanogaster S2 Ribo-Seq 0.0
SRR1548658 PRJNA258156 Drosophila melanogaster S2 Ribo-Seq 0.0
SRR1548659 PRJNA258156 Drosophila melanogaster S2 Ribo-Seq 0.0
SRR1548661 PRJNA258156 Drosophila melanogaster S2 RNA-Seq 0.0
Run Accession Study Accession Scientific Name Cell Line Library Type Treatment GWIPS-viz Trips-Viz Reads BAM BigWig (F) BigWig (R)

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