Transcriptomics

Dataset Information

337

Genome-Wide Analysis In Vivo of Translation with Nucleotide Resolution Using Ribosome Profiling


ABSTRACT: Techniques for systematically monitoring protein translation have lagged far behind methods for measuring mRNA levels. Here we present a ribosome profiling strategy, based on deep sequencing of ribosome protected mRNA fragments, that enables genome-wide investigation of translation with sub-codon resolution. We used this technique to monitor translation in budding yeast under both rich and starvation conditions. These studies defined the protein sequences being translated and found extensive translational control both for determining absolute protein abundance and for responding to environmental stress. We also observed distinct phases during translation involving a large decrease in ribosome density going from early to late peptide elongation as well as wide-spread, regulated initiation at non-AUG codons. Ribosome profiling is readily adaptable to other organisms, making high-precision investigation of protein translation experimentally accessible. Examine replicates of ribosome footprints and mRNA abundance in biological replicates of log-phase growth and acute amino acid starvation

ORGANISM(S): Saccharomyces cerevisiae  

SUBMITTER: Nicholas T Ingolia   Sina Ghaemmaghami  Jonathan S Weissman  John R Newman 

PROVIDER: E-GEOD-13750 | ArrayExpress | 2009-02-12

SECONDARY ACCESSION(S): GSE13750SRP000637PRJNA109405

REPOSITORIES: GEO, ArrayExpress, ENA

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Publications

Genome-wide analysis in vivo of translation with nucleotide resolution using ribosome profiling.

Ingolia Nicholas T NT   Ghaemmaghami Sina S   Newman John R S JR   Weissman Jonathan S JS  

Science (New York, N.Y.) 20090212 5924


Techniques for systematically monitoring protein translation have lagged far behind methods for measuring messenger RNA (mRNA) levels. Here, we present a ribosome-profiling strategy that is based on the deep sequencing of ribosome-protected mRNA fragments and enables genome-wide investigation of translation with subcodon resolution. We used this technique to monitor translation in budding yeast under both rich and starvation conditions. These studies defined the protein sequences being translate  ...[more]

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