PXD034591

PXD034591 is an original dataset announced via ProteomeXchange.

Title	Proteomics of THP-1 macrophages polarization to M1 and M2 phenotype and treated with BB-Cl-amidine
Description	Macrophages are effector cells of the innate immune system and undergo phenotypical changes in response to organ injury and repair. They are most often classified as proinflammatory M1 and anti-inflammatory M2 macrophages. Protein arginine deiminase (PAD) enzymes, that catalyze the conversion of protein-bound arginine into citrulline, an irreversible posttranslational modification, are expressed in macrophages. However, the substrate scope of the PADs and their role in the immune cells remain not well defined. This study aims to investigate the role of PADs in the THP-1 macrophage polarization to M1 and M2 phenotype and identify the citrullinated proteins, and the modified Arg that are associated with this biological switch using mass spectrometry. Our study showed that PAD2, and to a lesser extent PAD1 and PAD4 were dominantly expressed in M1 macrophages. We showed that inhibiting PADs by BB-Cl-amidine decreased the macrophage’s polarization to M1 and increased to M2 phenotype. The process was mediated by the downregulation of proteins involved in NF-kβ pathway. Silencing of PAD2 confirmed activation to M2 macrophages through upregulation of the antiviral innate immune response and interferon signaling. 192 novel citrullination sites that belong to inflammation, cell death and DNA/RNA processing pathways were identified in M1 and M2 macrophages.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_08:37:59.380.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Maciej Suski
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue
Instrument	TripleTOF 6600

Revision	Datetime	Status	ChangeLog Entry
0	2022-06-16 03:10:38	ID requested
1	2023-03-10 23:36:36	announced
⏵ 2	2023-11-14 08:38:03	announced	2023-11-14: Updated project metadata.

Stachowicz A, Pandey R, Sundararaman N, Venkatraman V, Van Eyk JE, Fert-Bober J, Protein arginine deiminase 2 (PAD2) modulates the polarization of THP-1 macrophages to the anti-inflammatory M2 phenotype. J Inflamm (Lond), 19(1):20(2022) [pubmed]

submitter keyword: SWATH, protein arginine deiminase, citrullination,macrophages polarization

Justyna Fert-Bober
contact affiliation	Advanced Clinical Biosystems Research Institute, Smidt Heart Institute, Cedars-Sinai Medical Center 127 S San Vicente Blvd, Los Angeles, CA 90048, USA
contact email	Justyna.Fert-Bober@cshs.org
lab head
Maciej Suski
contact affiliation	Chair of Pharmacology
contact email	maciej.suski@uj.edu.pl
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/2023/03/PXD034591

PRIDE project URI

• PRIDE
  1. PXD034591
     1. Label: PRIDE project
     2. Name: Proteomics of THP-1 macrophages polarization to M1 and M2 phenotype and treated with BB-Cl-amidine