PXD034275-1
PXD034275 is an original dataset announced via ProteomeXchange.
Dataset Summary
Title | In-depth Analysis of the Sirtuin 5-regulated Mouse Brain Acylome using Library-free Data-Independent Acquisitions |
Description | Post-translational modifications (PTMs) dynamically regulate proteins and biological pathways, typically through combinatory effects of multiple PTMs. Lysine residues are targeted for various PTMs, including malonylation and succinylation. Due to specific challenges of PTM mass spectrometry-based proteomics encountered during data acquisition and processing, novel and innovative workflows have emerged using data-independent acquisition (DIA) to ensure confident PTM identification, precise site localization, and accurate and robust label-free quantification. In this study, we present a powerful approach combining antibody-based enrichment with comprehensive DIA acquisitions and spectral library-free data processing using directDIA (Spectronaut). The identical DIA data can be used to generate spectral libraries and to comprehensively identify and quantify PTMs, reducing the amount of enriched sample needed, and acquisition time, while offering a fully automated workflow. We analyzed brains from wild-type and Sirtuin 5 (SIRT5)-knock out mice, and discovered and quantified 466 malonylated and 2,211 succinylated peptides. SIRT5 regulation remodeled the acylomes, by targeting 171 malonylated and 640 succinylated sites. Affected pathways included carbohydrate and lipid metabolisms, synaptic vesicle cycle, and neurodegenerative diseases. We revealed 46 common SIRT5-regulated malonylation and succinylation sites, suggesting potential PTM crosstalk. This innovative and efficient workflow offers deeper insights into the mouse brain lysine malonylome and succinylome. |
HostingRepository | MassIVE |
AnnounceDate | 2022-12-14 |
AnnouncementXML | Submission_2022-12-14_15:31:48.484.xml |
DigitalObjectIdentifier | |
ReviewLevel | Non peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Joanna Bons |
SpeciesList | scientific name: Mus musculus; common name: house mouse; NCBI TaxID: 10090; |
ModificationList | Succinyl:13C(4); N6-malonyl-L-lysine |
Instrument | Orbitrap Eclipse |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
---|---|---|---|
0 | 2022-06-04 20:40:35 | ID requested | |
⏵ 1 | 2022-12-14 15:31:48 | announced |
Publication List
no publication |
Keyword List
submitter keyword: Acylome, Brain, Data-independent acquisition, Post-translational modifications, Sirtuin |
Contact List
Birgit Schilling | |
---|---|
contact affiliation | Buck Institute |
contact email | bschilling@buckinstitute.org |
lab head | |
Joanna Bons | |
contact affiliation | Buck Institute for Research on Aging |
contact email | jbons@buckinstitute.org |
dataset submitter |
Full Dataset Link List
MassIVE dataset URI |
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://massive.ucsd.edu/MSV000089606/ |