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PXD014341

PXD014341 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleSystematic detection of amino acid substitutions in proteomes reveals a mechanistic basis of ribosome errors and selection for translation fidelity
DescriptionThe translation machinery and the genes it decodes co-evolved to achieve production throughput and accuracy. Nonetheless translation errors are frequent and they affect physiology and protein evolution. Mapping translation errors in proteomes and understanding their causes was hindered by lack of a proteome-wide experimental methodology. We present the first methodology for systematic detection and quantification of errors in entire proteomes. Following proteome mass-spectrometry, we identify in E. coli and yeast peptides whose mass indicates specific amino-acid substitutions. Most substitutions result from codon-anticodon mispairing. Errors occur at sites that evolve rapidly, and that minimally affect energetic stability, indicating selection for high translation fidelity. Ribosome density data show that errors occur at sites where ribosome’s velocity is higher, demonstrating a trade-off between speed and accuracy. Treating bacteria with an aminoglycoside antibiotic or deprivation for specific amino-acids resulted particular patterns of errors. These results reveal a mechanistic and evolutionary basis for translation fidelity.
HostingRepositoryPRIDE
AnnounceDate2019-07-29
AnnouncementXMLSubmission_2019-08-01_04:46:21.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterTamar Geiger
SpeciesList scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationListNo PTMs are included in the dataset
InstrumentQ Exactive HF; Q Exactive Plus
Dataset History
RevisionDatetimeStatusChangeLog Entry
02019-06-21 04:04:46ID requested
12019-07-29 07:01:19announced
22019-08-01 04:46:22announcedUpdated publication reference for PubMed record(s): 31353208.
Publication List
Mordret E, Dahan O, Asraf O, Rak R, Yehonadav A, Barnabas GD, Cox J, Geiger T, Lindner AB, Pilpel Y, Systematic Detection of Amino Acid Substitutions in Proteomes Reveals Mechanistic Basis of Ribosome Errors and Selection for Translation Fidelity. Mol Cell, 75(3):427-441.e5(2019) [pubmed]
Keyword List
submitter keyword: Translation
Ribosome errors
Mispairing
Misloading
Mass spectrometry
Contact List
Tamar Geiger
contact affiliationDepartment of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv, Israel
contact emailgeiger@tauex.tau.ac.il
lab head
Tamar Geiger
contact affiliationTel Aviv University
contact emailgeiger@tauex.tau.ac.il
dataset submitter
Full Dataset Link List
Dataset FTP location
PRIDE project URI
Repository Record List
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