PXD037569

PXD037569 is an original dataset announced via ProteomeXchange.

Title	Spatially resolved mapping of proteome turnover dynamics with subcellular precision
Description	We report the development of prox-SILAC method that combines proximity-dependent protein labeling (APEX/HRP) with metabolic incorporation of stable isotopes (pulse-SILAC) to map newly synthesized proteins with subcellular spatial resolution. We apply prox-SILAC to investigate proteome dynamics in the mitochondrial matrix and the ER lumen. Our analysis reveals a highly heterogeneous distribution in protein turnover dynamics within macromolecular machineries such as the mitochondrial ribosome and respiratory complexes I-V, thus shedding light on their mechanism of hierarchical assembly. Furthermore, we investigate the dynamic changes of ER proteome when cells are challenged with stress or when cells are undergoing stimulated differentiation, identifying subsets of proteins with unique patterns of turnover dynamics, which may play key regulatory roles in alleviating stress or promoting differentiation.
HostingRepository	PRIDE
AnnounceDate	2024-01-26
AnnouncementXML	Submission_2024-01-26_14:00:44.989.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yi Li
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2022-10-19 03:10:32	ID requested
⏵ 1	2024-01-26 14:00:46	announced

10.1038/s41467-023-42861-8;

Yuan F, Li Y, Zhou X, Meng P, Zou P, Spatially resolved mapping of proteome turnover dynamics with subcellular precision. Nat Commun, 14(1):7217(2023) [pubmed]

submitter keyword: pusle-SILAC, proximity-dependent labeling,Protein turnover

Peng Zou
contact affiliation	Department of Chemical Biology College of Chemistry and Molecular Engineering Peking University
contact email	zoupeng@pku.edu.cn
lab head
Yi Li
contact affiliation	Department of Chemical Biology College of Chemistry and Molecular Engineering Peking University
contact email	yiliyumu@pku.edu.cn
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/2024/01/PXD037569

PRIDE project URI

• PRIDE
  1. PXD037569
     1. Label: PRIDE project
     2. Name: Spatially resolved mapping of proteome turnover dynamics with subcellular precision