PXD005041

PXD005041 is an original dataset announced via ProteomeXchange.

Title	Absolute quantification of yeast proteome
Description	Protein synthesis is the most energy consuming process in a proliferating cell, and understanding what controls protein abundances and how this impacts changes in metabolic fluxes is a key question in biology. We quantified mRNA and protein levels in Saccharomyces cerevisiae under ten environmental conditions. Linear correlation across all proteins predicted only 45% of the final protein abundances based on corresponding mRNAs, however, very good condition-dependent correlation was identified for individual proteins pointing to constant translation efficiency across the ten conditions. Hence, protein turnover was measured and combined with quantitative abundances to calculate translation efficiencies which were found to vary more than 400-fold. Non-linear regression analysis detected that mRNA abundance and translation elongation are the dominant factors controlling protein synthesis rate. Protein turnover was detected to play a minor role in determining protein levels, however, contributing markedly to overall cellular energy metabolism. Mitochondrial fluxes were detected to be the only major exception for flux control being at the posttranscriptional level. The here collected quantitative data provide a valuable resource for future studies.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:32:41.675.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Petri-Jaan Lahtvee
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2016-09-27 02:26:12	ID requested
1	2017-03-07 02:20:49	announced
⏵ 2	2024-10-22 04:32:42	announced	2024-10-22: Updated project metadata.

Dataset with its publication pending

ProteomeXchange project tag: benchmarking, peptide observability, machine learning

curator keyword: Biological

submitter keyword: osmolarity, chemostats, temperature, stress response, ethanol, protein turnover, integrative data analysis,Saccaromyces cerevisiae, absolute quantification

Jens Nielsen
contact affiliation	Jens Nielsen, PhD, Dr. Tech. Professor Director of Systems and Synthetic Biology Chief Scientific Officer Novo Nordisk Foundation Center for Biosustainability Systems and Synthetic Biology Chalmers University of Technology Kemivägen 10 SE-412 96 Göteborg SWEDEN
contact email	nielsenj@chalmers.se
lab head
Petri-Jaan Lahtvee
contact affiliation	University of Tartu
contact email	lahtvee@ut.ee
dataset submitter

Dataset FTP location NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2017/03/PXD005041

PRIDE project URI

• PRIDE
  1. PXD005041
     1. Label: PRIDE project
     2. Name: Absolute quantification of yeast proteome