PXD036749 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | A Simple Method to Isolate and Characterize a Bacterial Outer Membrane Proteome by Bottom-Up Mass Spectrometry |
Description | The outer membrane of gram-negative bacteria plays a critical role in protecting the cell against external stressors, including antibiotics. Given its importance to the resistance mechanisms, the outer membrane is a prime target for antimicrobial drug discovery. To facilitate discovery efforts, however, a precise characterization of the outer membrane protein content – or the "outer membrane proteome" - and possible variations during bacterial resistance, is important. This information is necessary to understand how bacteria interact with their host organism during infection. However, proteomic-based investigations of the bacterial outer membrane remain technically challenging, given this cell compartment's lower abundance and high hydrophobicity. We report here a simple but efficacious enrichment of the bacterial outer membrane proteome for downstream characterization by mass spectrometry. We start with a dual detergent approach to preferentially solubilize the outer membrane, followed by reconstitution in peptidisc library to isolate and purify the entire outer membrane proteome at once. Our method identifies 71 outer membrane proteins (OMPs), including 26 integral -barrels and 26 lipoproteins; many of which are present with high-intensity and peptide number values, indicative of a high abundance in the library sample. Given this enrichment, the method may be useful for comparing outer membrane proteomes. We also show that the library can also be employed for downstream protein binding assays. |
HostingRepository | PRIDE |
AnnounceDate | 2023-11-14 |
AnnouncementXML | Submission_2023-11-14_08:43:29.850.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | John Young |
SpeciesList | scientific name: Escherichia coli; NCBI TaxID: 562; |
ModificationList | No PTMs are included in the dataset |
Instrument | LTQ Orbitrap Elite |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2022-09-14 14:28:10 | ID requested | |
1 | 2023-03-11 10:40:10 | announced | |
⏵ 2 | 2023-11-14 08:43:31 | announced | 2023-11-14: Updated project metadata. |
Publication List
Young JW, Zhao Z, Wason IS, Duong van Hoa F, A Dual Detergent Strategy to Capture a Bacterial Outer Membrane Proteome in Peptidiscs for Characterization by Mass Spectrometry and Binding Assays. J Proteome Res, 22(5):1537-1545(2023) [pubmed] |
Keyword List
submitter keyword: peptidiscs, outer membrane proteome, antibiotic resistance,E. coli |
Contact List
Franck Duong |
contact affiliation | Department of Biochemistry and Molecular Biology, Faculty of Medicine, Life Sciences Institute, University of British Columbia, Canada, V6T 1Z3. |
contact email | fduong@mail.ubc.ca |
lab head | |
John Young |
contact affiliation | University of Oxford |
contact email | john.young@chem.ox.ac.uk |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD036749
- Label: PRIDE project
- Name: A Simple Method to Isolate and Characterize a Bacterial Outer Membrane Proteome by Bottom-Up Mass Spectrometry