PXD059295

PXD059295 is an original dataset announced via ProteomeXchange.

Title	lcFAX-MS-Powered Biomolecular Condensate Analysis Reveals TRIM28-Mediated G3BP1/2 SUMOylation in Regulating Stress Granule Dynamics
Description	Membraneless organelles are formed through liquid-liquid phase separation (LLPS) without the need for lipid membranes. Various membraneless organelles, such as stress granules (SGs), nucleoli, and P-bodies, play critical roles in regulating cellular homeostasis, and proteins undergoing LLPS have been linked to numerous human diseases. However, due to their transient, heterogeneous, and membraneless nature, capturing their states with preserved integrity is challenging. In this study, we introduce a low-concentration formaldehyde crosslinking (lcFAX) method that effectively stabilizes membraneless organelles, including arsenite (AS)-induced G3BP1 SGs and TDP43 formed nuclear bodies. Using lcFAX-MS, we identified hundreds of new SG proteins. Specifically, we demonstrate that TRIM28 SUMOylates G3BP1 at K287 and G3BP2 at K281, respectively, a crucial mechanism for regulating SG dynamics. Furthermore, lcFAX-seq provides insights into the RNA composition of SGs. Altogether, lcFAX is a powerful tool for stabilizing membraneless organelles, facilitating comprehensive proteomic and transcriptomic analyses that reveal new regulatory mechanisms. Notably, lcFAX-MS highlights the critical role of TRIM28-mediated SUMOylation in modulating SG dynamics.
HostingRepository	iProX
AnnounceDate	2024-12-27
AnnouncementXML	Submission_2025-09-22_00:38:27.020.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yi Yuan
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	iodoacetamide derivatized residue; methionine oxidation with neutral loss of 64 Da
Instrument	Q Exactive HF-X

Revision	Datetime	Status	ChangeLog Entry
0	2024-12-29 18:55:47	ID requested
⏵ 1	2025-09-22 00:38:27	announced

Dataset with its publication pending

submitter keyword: Stress granules, proteomics, formaldehyde crosslinking, SUMOylation, G3BP1, TRIM28

Yaoyang Zhang
contact affiliation	Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences
contact email	zyy@sioc.ac.cn
lab head
Yi Yuan
contact affiliation	Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences
contact email	yuanyi@mail.sioc.ac.cn
dataset submitter

iProX dataset URI