PXD018361

PXD018361 is an original dataset announced via ProteomeXchange.

Title	Proteome re-allocation in amino acid supplemented S. cerevisiae using TMT-based quantitative proteomics
Description	In recent years, more attention in systems biology has been given to the concept of protein constraints and the cell’s necessity to allocate its proteome between important processes. From this point of view, attempts to elucidate cellular maximum capacity of growth as a function of protein availability has been investigated. Elucidating the possibility of optimizing cell proliferation, by tailoring proteome allocation. To experimentally investigate this concept further we cultivated Saccharomyces cerevisiae in bioreactors with or without amino acid supplementation and performed proteomics to analyze global changes in proteome allocation, during anaerobic as well as aerobic growth on glucose. Analysis of proteomic data implies that proteome mass is mainly being re-allocated from amino acid biosynthetic processes into translation, in regard to absolute levels of change, accompanied by an increased growth rate during supplementation. Similar findings were obtained from both aerobic and anaerobic cultivations, and subsequently independent of the two examined metabolic states. Indicating the possibility of increasing growth rate through freeing up proteome mass and increasing proteome allocation towards translational machinery.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:10:21.488.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Proteomics Core Facility
SpeciesList	scientific name: Saccharomyces cerevisiae (Baker's yeast); NCBI TaxID: 4932;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2020-04-04 09:12:49	ID requested
1	2020-08-05 06:37:40	announced
2	2020-08-22 16:46:23	announced	2020-08-23: Updated publication reference for PubMed record(s): 32817546.
⏵ 3	2024-10-22 05:10:24	announced	2024-10-22: Updated project metadata.

Bj, ö, rkeroth J, Campbell K, Malina C, Yu R, Di Bartolomeo F, Nielsen J, Proteome reallocation from amino acid biosynthesis to ribosomes enables yeast to grow faster in rich media. Proc Natl Acad Sci U S A, 117(35):21804-21812(2020) [pubmed]

10.1073/pnas.1921890117;

submitter keyword: metabolism,Yeast, oxygen, TMT, Saccharomyces cerevisiae, glucose, tandem mass tag, amino acid, Orbitrap Fusion

Jens Nielsen
contact affiliation	Professor, Department of Biology and Biological Engineering, Chalmers University of Technology, SE-41296 Gothenburg, Sweden; Wallenberg Center for Protein Research, Chalmers University of Technology, SE-41296 Gothenburg, Sweden; Novo Nordisk Foundation Center for Biosustainability, Chalmers University of Technology, SE-41296 Gothenburg, Sweden; Novo Nordisk Foundation Center for Biosustainability, Technical University of Denmark, DK-2800 Lyngby, Denmark
contact email	nielsenj@chalmers.se
lab head
Proteomics Core Facility
contact affiliation	SAMBIO Core Facilities, Sahgrenska Academy, University of Gothenburg
contact email	gupcf@outlook.com
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/2020/08/PXD018361

PRIDE project URI

• PRIDE
  1. PXD018361
     1. Label: PRIDE project
     2. Name: Proteome re-allocation in amino acid supplemented S. cerevisiae using TMT-based quantitative proteomics