⮝ Full datasets listing

PXD040103

PXD040103 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleOptimising complexome profiling for systematic exploration of DNA-/RNA-protein complexes in human mitochondria
DescriptionHere we aimed to improve native gel electrophoresis-based complexome profiling (CP) method for examination of mitochondrial (mt)DNA-/RNA-protein complexes. We compared the performance of Blue Native PAGE (BNE) and high resolution Clear Native PAGE (hrCNE). We found that hrCNE much better preserves the integrity of mtDNA-/RNA-protein complexes.To further improve the detection of mtDNA-binding proteins, we treated solubilized mitochondrial samples with DNase I prior to separation on hrCNE or BNE. To characterize the detected by hrCNE mtRNA-protein complexes, we performed CP with samples treated with RNase A. To validate the utility of the method, we performed CP using mitochondria isolated from cells treated with ethidium bromide as well as from cells recovering after this treatment. Our study not only helps to validate and unveil proteins involved in mitochondrial DNA- and RNA-related processes, but also offers a convenient and systematic way for analysing these interactions that can be used equally well for the investigation of the nucleus and other DNA-/RNA-containing cell compartments.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_06:00:09.336.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterAlisa Potter
SpeciesList scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListNo PTMs are included in the dataset
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02023-02-13 10:30:57ID requested
12023-08-11 14:32:34announced
22023-11-14 06:43:27announced2023-11-14: Updated project metadata.
32024-10-22 06:00:09announced2024-10-22: Updated project metadata.
Publication List
10.1093/NAR/GKAD697;
Keyword List
submitter keyword: mtDNA,Mitochondria, mass spectrometry, DNA-protein complex, native gel electrophoresis, RNA-protein complex, complexome profiling
Contact List
Johannes N. Spelbrink
contact affiliationRadboud Center for Mitochondrial Medicine, Department of Paediatrics, Radboudumc, Nijmegen, The Netherlands
contact emailHans.Spelbrink@radboudumc.nl
lab head
Alisa Potter
contact affiliationRadboudumc, Department of Paediatrics
contact emailpotteralisa@gmail.com
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/2023/08/PXD040103
PRIDE project URI
Repository Record List
[ + ]