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Genome-Wide Analysis in Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling
TLDR
A ribosomesome-profiling strategy based on the deep sequencing of ribosome-protected mRNA fragments is presented and enables genome-wide investigation of translation with subcodon resolution and is used to monitor translation in budding yeast under both rich and starvation conditions. Expand
Ribosome Profiling of Mouse Embryonic Stem Cells Reveals the Complexity and Dynamics of Mammalian Proteomes
TLDR
A suite of techniques, based on ribosome profiling, are presented to provide genome-wide maps of protein synthesis as well as a pulse-chase strategy for determining rates of translation elongation, revealing an unanticipated complexity to mammalian proteomes. Expand
Mammalian microRNAs predominantly act to decrease target mRNA levels
TLDR
Results show that changes in mRNA levels closely reflect the impact of miRNAs on gene expression and indicate that destabilization of target mRNAs is the predominant reason for reduced protein output. Expand
The ribosome profiling strategy for monitoring translation in vivo by deep sequencing of ribosome-protected mRNA fragments
TLDR
An adaptation that reveals the sites of translation initiation by pretreating cells with harringtonine to immobilize initiating ribosomes is described, paving the way for genome-wide, quantitative analysis of in vivo translation by deep sequencing. Expand
The translational landscape of mTOR signalling steers cancer initiation and metastasis
TLDR
A clinically relevant ATP site inhibitor of mTOR, INK128, is developed, which reprograms this gene expression signature with therapeutic benefit for prostate cancer metastasis, for which there is presently no cure. Expand
High-Resolution View of the Yeast Meiotic Program Revealed by Ribosome Profiling
TLDR
The authors measured messenger RNA abundance and protein production through the yeast meiotic sporulation program and found strong, stage-specific expression for most genes, achieved through control of both mRNA levels and translational efficiency. Expand
Decoding Human Cytomegalovirus
TLDR
The results reveal an unanticipated complexity to the HCMV coding capacity and illustrate the role of regulated changes in transcript start sites in generating this complexity. Expand
Ribosome profiling reveals pervasive translation outside of annotated protein-coding genes.
TLDR
Hallmarks of translation in ribosome footprints are shown: copurification with the large ribosomal subunit, response to drugs targeting elongation, trinucleotide periodicity, and initiation at early AUGs. Expand
Ribosome Profiling Provides Evidence that Large Noncoding RNAs Do Not Encode Proteins
TLDR
It is shown that classical noncoding RNAs and 5' UTRs show the same ribosomes occupancy as lincRNAs, demonstrating that ribosome occupancy alone is not sufficient to classify transcripts as coding or nonc coding. Expand
Ribosome profiling: new views of translation, from single codons to genome scale
TLDR
It is shown that ribosome profiling is an emerging technique that uses deep sequencing to monitor in vivo translation and provides new insights into the identity and the amount of proteins that are produced by cells, as well as detailed views into the mechanism of protein synthesis itself. Expand
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