PXD069328 is an
original dataset announced via ProteomeXchange.
Dataset Summary
| Title | Extracellular matrix proteolysis maintains synapse plasticity during brain development |
| Description | Maintaining a dynamic neuronal synapse pool is critical to brain development. The extracellular matrix (ECM) regulates synaptic plasticity via mechanisms that are still being defined and are studied predominantly in adulthood. Using live imaging of excitatory synapses in zebrafish hindbrain we observed a bimodal distribution of short-lived (dynamic) and longer-lived (stable) synapses. Disruption of ECM via digestion or brevican deletion destabilized dynamic synapses and led to decreased synapse density. Conversely, loss of matrix metalloproteinase 14 (MMP14) led to accumulation of brevican and increased the lifetime of the dynamic synapse pool without affecting stable synapse pool, resulting in increased synapse density. Microglial MMP14 was essential to these effects in both fish and human iPSC-derived cultures. Both MMP14 and brevican were required for experience-dependent synapse plasticity in a motor learning assay. These data, complemented by mathematical modeling, define an essential role of ECM remodeling in maintaining a dynamic subset of synapses during brain development. |
| HostingRepository | PRIDE |
| AnnounceDate | 2026-03-16 |
| AnnouncementXML | Submission_2026-03-16_03:59:55.030.xml |
| DigitalObjectIdentifier | |
| ReviewLevel | Peer-reviewed dataset |
| DatasetOrigin | Original dataset |
| RepositorySupport | Unsupported dataset by repository |
| PrimarySubmitter | Robert Chalkley |
| SpeciesList | scientific name: Danio rerio (Zebrafish) (Brachydanio rerio); NCBI TaxID: NEWT:7955; |
| ModificationList | monohydroxylated residue; iodoacetamide derivatized residue |
| Instrument | Orbitrap Fusion Lumos |
Dataset History
| Revision | Datetime | Status | ChangeLog Entry |
|---|
| 0 | 2025-10-10 11:17:01 | ID requested | |
| ⏵ 1 | 2026-03-16 03:59:56 | announced | |
Publication List
| Nakajo H, Cao R, Mula SA, McKetney J, Silva NJ, Li KH, Chalkley RJ, Randolph LK, Shah M, Rose IVL, Kampmann M, Swaney DL, Kirst C, Molofsky AV, Extracellular matrix proteolysis maintains synapse plasticity during brain development. Nat Neurosci, 29(3):567-580(2026) [pubmed] |
| 10.1038/s41593-025-02153-4; |
Keyword List
| submitter keyword: Zebra Fish |
| Brain |
| LC-MSMS |
| Extracellular |
| Biotinylation |
Contact List
| Robert Chalkley |
|---|
| contact affiliation | University of California San Francisco |
| contact email | robert.chalkley@ucsf.edu |
| lab head | |
| Robert Chalkley |
|---|
| contact affiliation | University of California San Francsico |
| contact email | robert.chalkley@ucsf.edu |
| dataset submitter | |
Full Dataset Link List
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/2026/03/PXD069328 |
| PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD069328
- Label: PRIDE project
- Name: Extracellular matrix proteolysis maintains synapse plasticity during brain development
