PXD038747

PXD038747 is an original dataset announced via ProteomeXchange.

Title	The mass spectrometry-based proteomics analysis of macrophages
Description	Defective autophagy is linked to proinflammatory diseases. However, the mechanisms by which autophagy limits inflammation remain elusive. Here, we found that the pan-FGFR inhibitor LY2874455 efficiently activated autophagy and suppressed innate inflammation in macrophages stimulated by lipopolysaccharide (LPS). The mass spectrometry-based proteomics analysis of RAW264.7 cells treated with LPS (20ng/ml) and LY2874455 was performed. The protein levels of macrophages were systematically analyzed and quantified. Then, the protein levels were compared. The fold change and significance were analyzed. Multiplex proteomic profiling identified the immunoproteasome, a specific isoform of the 20s constitutive proteasome, as substrates that are degraded by selective autophagy. SQSTM1/p62 was found to be a selective autophagy-related receptor that mediated this degradation. Autophagy deficiency or p62 knockdown blocked the effects of LY2874455, leading to the accumulation of immunoproteasomes and increases in inflammatory reactions.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_06:42:06.456.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kefeng Lu
SpeciesList	scientific name: Mus musculus (Mouse); NCBI TaxID: 10090;
ModificationList	No PTMs are included in the dataset
Instrument	timsTOF

Revision	Datetime	Status	ChangeLog Entry
0	2022-12-12 04:58:25	ID requested
1	2024-05-24 00:57:14	announced
⏵ 2	2024-10-22 06:42:10	announced	2024-10-22: Updated project metadata.

Zhou J, Li C, Lu M, Jiang G, Chen S, Li H, Lu K, Pharmacological induction of autophagy reduces inflammation in macrophages by degrading immunoproteasome subunits. PLoS Biol, 22(3):e3002537(2024) [pubmed]

10.1371/journal.pbio.3002537;

submitter keyword: Macrophage

LPS

immunoproteasome

Kefeng Lu
contact affiliation	Sichuan University
contact email	lukf@scu.edu.cn
lab head
Kefeng Lu
contact affiliation	Sichuan University
contact email	lukf@scu.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/2024/05/PXD038747

PRIDE project URI

• PRIDE
  1. PXD038747
     1. Label: PRIDE project
     2. Name: The mass spectrometry-based proteomics analysis of macrophages