PXD045886

PXD045886 is an original dataset announced via ProteomeXchange.

Title	Proteome birthdating reveals age-selectivity of protein ubiquitination
Description	Within a cell, proteins have distinct and highly variable half-lives. As a result, molecular ages of proteins can range from seconds to years. How the age of a protein influences its environmental interactions is a largely unexplored area of biology. To investigate the age-selectivity of cellular pathways, we developed a methodology termed “proteome birthdating” that barcodes proteins based on their time of synthesis. We show that this approach provides accurate measurements of protein turnover kinetics without the requirement for multiple kinetic time points. As a first use case of the birthdated proteome, we investigated the age distribution of the human ubiquitinome. Our results indicate that the vast majority of ubiquitinated proteins in a cell consist of newly synthesized proteins and that these young proteins constitute the bulk of the degradative flux through the proteasome. Rapidly ubiquitinated proteins are enriched in cytosolic proteins and subunits of protein complexes. Conversely, proteins destined for the secretory pathway and vesicular transport have older ubiquitinated populations. Our data also identified a smaller subset of very old ubiquitinated cellular proteins that do not appear to be targeted to the proteasome for rapid degradation. Together, our data provide an age census of the human ubiquitinome and establish proteome birthdating as a methodology for investigating the protein age-selectivity of diverse cellular pathways.
HostingRepository	PRIDE
AnnounceDate	2024-06-18
AnnouncementXML	Submission_2024-06-17_20:23:33.292.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Michael Meadow
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	ubiquitinylated lysine
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2023-10-03 16:09:07	ID requested
⏵ 1	2024-06-17 20:23:33	announced

10.1016/J.MCPRO.2024.100791;

submitter keyword: Proteostasis, Aging,Protein turnover

Proteomics, Mass spectrometry (MS), Ubiquitin Proteasome System (UPS)

Sina Ghaemmaghami
contact affiliation	Department of Biology, University of Rochester, NY, 14627, USA University of Rochester Mass Spectrometry Resource Laboratory, NY, 14627, USA
contact email	sina.ghaemmaghami@rochester.edu
lab head
Michael Meadow
contact affiliation	University of Rochester
contact email	Michael_meadow@urmc.Rochester.edu
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/2024/06/PXD045886

PRIDE project URI

• PRIDE
  1. PXD045886
     1. Label: PRIDE project
     2. Name: Proteome birthdating reveals age-selectivity of protein ubiquitination