PXD018754 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | A global data-driven census of Salmonella small proteins and their potential functions in bacterial virulence |
Description | Small proteins are an emerging class of gene products with diverse roles in bacterial physiology. However, a full understanding of their importance has been hampered by insufficient genome annotations and a lack of characterization in microbes other than Escherichia coli. Here, we have taken an integrative approach to accelerate the discovery of small proteins and their putative virulence-associated functions in Salmonella Typhimurium. We merged the annotated small proteome of Salmonella with new small proteins predicted with in silico and experimental approaches. We then exploited existing and newly generated global datasets that provide information on small open reading frame expression during infection of epithelial cells (dual RNA-seq), contribution to bacterial fitness inside macrophages (TraDIS), and potential engagement in molecular interactions (Grad-seq). This integrative approach suggested a new role for the small protein MgrB beyond its known function in regulating PhoQ. We demonstrated a virulence and motility defect of a Salmonella ΔmgrB mutant and revealed an effect of MgrB in regulating the Salmonella transcriptome and proteome under infection-relevant conditions. Overall, our study highlights the power of interpreting available “omics” datasets with a focus on small proteins, and may serve as a blueprint for a data integration-based survey of small proteins in diverse bacteria. |
HostingRepository | PRIDE |
AnnounceDate | 2024-10-22 |
AnnouncementXML | Submission_2024-10-22_05:16:18.420.xml |
DigitalObjectIdentifier | |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Unsupported dataset by repository |
PrimarySubmitter | Sandra Maass |
SpeciesList | scientific name: Salmonella enterica subsp. enterica serovar Typhimurium; NCBI TaxID: 90371; |
ModificationList | monohydroxylated residue; iodoacetamide derivatized residue |
Instrument | LTQ Orbitrap Elite |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2020-04-23 01:02:56 | ID requested | |
1 | 2020-12-07 00:49:41 | announced | |
⏵ 2 | 2024-10-22 05:16:18 | announced | 2024-10-22: Updated project metadata. |
Publication List
Dataset with its publication pending |
Keyword List
submitter keyword: Salmonella Typhimurium, virulence, dual RNA-seq, Grad-seq, TraDIS, host-pathogen interaction, infection, MgrB, sPepfinder,small proteins, Ribo-seq |
Contact List
Dörte Becher |
contact affiliation | Institute of Microbiology, Department of Microbial Proteomics, University of Greifswald, Greifswald, Germany |
contact email | dbecher@uni-greifswald.de |
lab head | |
Sandra Maass |
contact affiliation | University of Greifswald, Department for Microbial Proteomics |
contact email | sandra.maass@uni-greifswald.de |
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/2020/12/PXD018754 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD018754
- Label: PRIDE project
- Name: A global data-driven census of Salmonella small proteins and their potential functions in bacterial virulence