PXD061792-1

PXD061792 is an original dataset announced via ProteomeXchange.

Title	Proteome analysis of Corynebacterium diphtheriae - macrophage interaction
Description	Contact of Corynebacterium diphtheriae with macrophages induce adaptations on both bacterial and cellular sides. Using an experimental design involving gentamicin protection and liquid chromagraphy followed by mass-spectrometry, a multi-species proteomic dataset was analyzed at different time points of the infection assay. Several previously undescribed Corynebacterium proteins were differentially regulated, as well as key macrophage components of the phagolysosome. Overall, Bacteria responded to phagocytosis by changes in DNA repair, transcription and cell wall synthesis proteins, while macrophages showed changes in components of the innate immune system. This dataset consists of: - ThermoFisher's .raw files of three biological replicates of the infection assays (total proteome mixture of bacteria and eukaryotic cells and tagged using TMT-10). They can be downloaded all at once via the .zip file. - Protein abundance data for Macrophage THP-1 cells (M0) obtained by LC-MS/MS followed by peptide sequencing using Proteome Discoverer (ThermoFisher) -see .zip folder. - Protein abundance data for Macrophage C. diphtheriae ISS3319 (CD) obtained by LC-MS/MS followed by peptide sequencing using Proteome Discoverer (ThermoFisher) - see .zip folder. - Differential protein abundance analysis for CD and M0 using LIMMA. - Data underlying the growth curves observed in CD in RPMI + 10% FBS conditions (infection assay conditions). - BLASTP searches, PFAM clans, and InterPro annotations for CD. - STRING-based PPI network (baseline) and APSPs between differentially abundant proteins in CD. - Related R scripts.
HostingRepository	MassIVE
AnnounceDate	2025-03-18
AnnouncementXML	Submission_2025-03-18_11:28:44.724.xml
DigitalObjectIdentifier
ReviewLevel	Non peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Luca Musella
SpeciesList	scientific name: Homo sapiens; common name: human; NCBI TaxID: 9606; scientific name: Corynebacterium diphtheriae NCTC 13129; NCBI TaxID: 257309; scientific name: Corynebacterium diphtheriae bv. mitis str. ISS3319;
ModificationList	No PTMs are included in the dataset
Instrument	instrument model; instrument model; Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2025-03-13 06:21:35	ID requested
⏵ 1	2025-03-18 11:28:45	announced

no publication

submitter keyword: Host-pathogen interaction, Microbiology, Macrophage, THP-1 Null cells, Gentamicin protection assay, Corynebacterium diphtheriae, Diphtheria, DatasetType:Proteomics

Andreas Burkovski
contact affiliation	Friedrich-Alexander-Universitaet Erlangen-Nuernberg (FAU)
contact email	andreas.burkovski@fau.de
lab head
Luca Musella
contact affiliation	Uniklinikum Erlangen and FAU Erlangen-Nuernberg
contact email	luca.musella@uk-erlangen.de
dataset submitter

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/v09/MSV000097308/