PXD014341

PXD014341 is an original dataset announced via ProteomeXchange.

Title	Systematic detection of amino acid substitutions in proteomes reveals a mechanistic basis of ribosome errors and selection for translation fidelity
Description	The 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.
HostingRepository	PRIDE
AnnounceDate	2019-07-29
AnnouncementXML	Submission_2019-08-01_04:46:21.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Tamar Geiger
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF; Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2019-06-21 04:04:46	ID requested
1	2019-07-29 07:01:19	announced
⏵ 2	2019-08-01 04:46:22	announced	Updated publication reference for PubMed record(s): 31353208.

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]

submitter keyword: Translation

Ribosome errors

Mispairing

Misloading

Mass spectrometry

Tamar Geiger
contact affiliation	Department of Human Molecular Genetics and Biochemistry, Sackler Faculty of Medicine, Tel Aviv University, Tel Aviv, Israel
contact email	geiger@tauex.tau.ac.il
lab head
Tamar Geiger
contact affiliation	Tel Aviv University
contact email	geiger@tauex.tau.ac.il
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD014341
     1. Label: PRIDE project
     2. Name: Systematic detection of amino acid substitutions in proteomes reveals a mechanistic basis of ribosome errors and selection for translation fidelity