PXD068636

PXD068636 is an original dataset announced via ProteomeXchange.

Title	Photocatalytic Proximity Labeling Coupled with Cross-linking for Deciphering of the Lysosome Proteome in Living Cells-new
Description	Background: Lysosomes are essential organelles that play vital roles in the degradation and recycling of a variety of bio-mole-cules. To fully understand their molecular mechanisms, high spatiotemporal identification of the lysosome proteome in living cells is critical. Although photocatalytic proximity labeling is a powerful tool for profiling subcellular proteome, it often strug-gles with low labeling efficiency, particularly for low-abundance proteins. Results: To overcome this, we introduced a novel strategy that integrates photocatalytic proximity labeling with cross-linking. The lysosome-targeting photosensitizer (MP-AcDBF) catalyzed the covalent reaction between proximal proteins and enrichable nucleophilic substrate within lysosome based on singlet oxygen. Then the cross-linker allowed difficult-to-label proteins (low-abundance or transiently localized proteins) to be linked to pre-labeled ones, thereby expanding the scope of protein identification while preserving lysosomal specificity via enrichment of labeled handles. Using the cross-linking-assisted photocatalytic proximity labeling (CLAPL) strategy, we successfully identified 238 lysosome-annotated proteins in living HeLa cells, covering luminal, transmembrane and membrane-associated proteins, enabling a relative increase compared to method without cross-linking (238 vs 197). Additionally, CLAPL was further applied to map dynam-ic lysosomal proteome and revealed stress-induced metabolic alterations.
HostingRepository	iProX
AnnounceDate	2025-09-19
AnnouncementXML	Submission_2025-09-22_00:01:46.849.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	He Wang
SpeciesList	scientific name: Homo sapiens; NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive; Orbitrap Fusion Lumos

Revision	Datetime	Status	ChangeLog Entry
0	2025-09-22 00:01:30	ID requested
⏵ 1	2025-09-22 00:01:47	announced

Dataset with its publication pending

submitter keyword: Photocatalytic Proximity Labeling, Cross-linking, Lysosome Proteome, Living Cells

Lihua Zhang
contact affiliation	Dalian Institute of Chemical Physics, Chinese Academy of Sciences
contact email	lihuazhang@dicp.ac.cn
lab head
He Wang
contact affiliation	Dalian Institute of Chemical Physics, Chinese Academy of Sciences
contact email	crane_wanghe@dicp.ac.cn
dataset submitter

iProX dataset URI