Spatiotemporal deciphering of dynamic the FUS interactome during liquid-liquid phase separation in living cells

Sunfengda Song, Haiyang Xie, Qingwen Wang, Xinyi Sun, Jiasu Xu, Rui Chen, Yuankang Zhu, Lai Jiang and Xianting Ding ()
Additional contact information
Sunfengda Song: Shanghai Jiao Tong University
Haiyang Xie: Shanghai Jiao Tong University
Qingwen Wang: Shanghai Jiao Tong University
Xinyi Sun: Shanghai Jiao Tong University
Jiasu Xu: Shanghai Jiao Tong University
Rui Chen: Shanghai Jiao Tong University
Yuankang Zhu: Shanghai Jiao Tong University
Lai Jiang: Shanghai Jiao Tong University
Xianting Ding: Shanghai Jiao Tong University

Nature Communications, 2025, vol. 16, issue 1, 1-16

Abstract: Abstract Liquid-liquid phase separations (LLPS) are membraneless organelles driven by biomolecule assembly and are implicated in cellular physiological activities. However, spatiotemporal deciphering of the dynamic proteome in living cells during LLPS formation remains challenging. Here, we introduce the Composition of LLPS proteome Assembly by Proximity labeling-assisted Mass spectrometry (CLAPM). We demonstrate that CLAPM can instantaneously label and monitor the FUS interactome shifts within intracellular droplets undergoing spatiotemporal LLPS. We report 129, 182 and 822 proteins specifically present in the LLPS droplets of HeLa, HEK 293 T and neuronal cells respectively. CLAPM further categorizes spatiotemporal dynamic proteome in droplets for living neuronal cells and identifies 596 LLPS-aboriginal proteins, 226 LLPS-dependent proteins and 58 LLPS-sensitive proteins. For validation, we uncover 11 previously unknown LLPS proteins in vivo. CLAPM provides a versatile tool to decipher proteins involved in LLPS and enables the accurate characterization of dynamic proteome in living cells.

Date: 2025
References: Add references at CitEc
Citations:

Downloads: (external link)
https://www.nature.com/articles/s41467-025-59457-z Abstract (text/html)

Related works:
This item may be available elsewhere in EconPapers: Search for items with the same title.

Export reference: BibTeX RIS (EndNote, ProCite, RefMan) HTML/Text

Persistent link: https://EconPapers.repec.org/RePEc:nat:natcom:v:16:y:2025:i:1:d:10.1038_s41467-025-59457-z

Ordering information: This journal article can be ordered from
https://www.nature.com/ncomms/

DOI: 10.1038/s41467-025-59457-z

Access Statistics for this article

Nature Communications is currently edited by Nathalie Le Bot, Enda Bergin and Fiona Gillespie

More articles in Nature Communications from Nature
Bibliographic data for series maintained by Sonal Shukla () and Springer Nature Abstracting and Indexing ().