PXD008075 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | Cell wall enrichment unveils proteomic changes in the cell wall during treatment of Mycobacterium smegmatis with sub-lethal concentrations of Rifampicin |
Description | In this study, we successfully developed two gel-free approaches to specifically look at cell wall proteins in Mycobacterium smegmatis. The cell wall was subjected to differential centrifugation, differential detergent solubilisation and phase separation to yield the genuine cell wall proteome. The protein extracts were digested by filter-assisted sample preparation for LC-MS/MS analysis on a Q-Exactive mass spectrometer and identified proteins subjected to a strict bioinformatics pipeline. This resulted in the unprecedented coverage of 96 lipoproteins, 475 membrane proteins containing at least one transmembrane helix and 73 secreted proteins. We used this gel-free approach to study the changes in the cell wall proteome during exposure of M. smegmatis to sub-lethal concentration of Rifampicin in a quantitative manner. This enabled us to characterise in detail the dysregulation of transporters such as TatB and ABC transporters, virulence factors such as MCE proteins and PknG, as well as proteins involved in cell wall and lipid synthesis. |
HostingRepository | PRIDE |
AnnounceDate | 2019-04-09 |
AnnouncementXML | Submission_2019-04-09_08:39:39.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Alexander Giddey |
SpeciesList | scientific name: Mycobacterium smegmatis (strain ATCC 700084 / mc(2)155); NCBI TaxID: 246196; |
ModificationList | iodoacetamide derivatized residue |
Instrument | Q Exactive |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2017-10-30 04:17:30 | ID requested | |
⏵ 1 | 2019-04-09 08:39:41 | announced | |
2 | 2024-10-22 04:41:25 | announced | 2024-10-22: Updated project metadata. |
Publication List
Hermann C, Giddey AD, Nel AJM, Soares NC, Blackburn JM, Cell wall enrichment unveils proteomic changes in the cell wall during treatment of Mycobacterium smegmatis with sub-lethal concentrations of rifampicin. J Proteomics, 191():166-179(2019) [pubmed] |
Keyword List
curator keyword: Biological |
submitter keyword: Cell wall proteomics, Mass spectrometry, Mycobacteria, Rifampicin, TB, TB drugs, sub lethal |
Contact List
Jonathan M Blackburn |
contact affiliation | Division of Chemical and Systems Biology, Department of Integrative Biomedical Science, Institute for Infectious Disease and Molecular Medicine, Faculty of Health Science, University of Cape Town, South Africa. |
contact email | jonathan.blackburn@uct.ac.za |
lab head | |
Alexander Giddey |
contact affiliation | University of Cape Town |
contact email | gddale001@myuct.ac.za |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
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PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD008075
- Label: PRIDE project
- Name: Cell wall enrichment unveils proteomic changes in the cell wall during treatment of Mycobacterium smegmatis with sub-lethal concentrations of Rifampicin