PXD010504

PXD010504 is an original dataset announced via ProteomeXchange.

Title	M.abscessus Proteome and Secretome
Description	Members of the Mycobacterium (M.) abscessus complex (MABC) are rapidly growing mycobacteria showing smooth and/or rough colony morphotype. While not as virulent as M. tuberculosis, they can cause soft tissue infection and fatal pulmonary disease, especially in patients with cystic fibrosis. Diagnosing MABC pulmonary disease is challenging since the isolation of M. abscessus from respiratory samples is in itself not diagnostic and the clinical features are often non-specific. Immunologic assays, which could aid in the understanding and diagnosis of the disease, are not available. In this study eight rough and six smooth colony morphotype isolates were collected from seven clinical MABC strains and the M. abscessus reference strain ATCC19977, as six strains showed both morphotypes simultaneously and two strains only showed a rough morphotype. Clinical isolates were submitted to whole genome sequencing. Quantitative proteomic analysis was performed on bacterial lysates and the culture supernatant of all 14 isolates. Supernatant proteins present in all isolates were compared in a BLAST search against other clinically significant mycobacterial species to determine species-specific proteins of MABC. In silico B- and T-cell epitope prediction was performed for species-specific proteins. All clinical strains were found to be M. abscessus ssp. abscessus. Six of seven rough colony clinical isolates contained genetic changes in the MAB_4099c gene, which is a likely genetic basis for the rough morphotype. Proteomic analysis detected 3 137 different proteins in total of which 79 proteins were found in the culture supernatants of all isolates. BLAST analyses of these 79 proteins identified 12 of those exclusively encoded by all members of MABC plus M. immunogenum. In silico prediction of epitopes predicted B- and T-cell epitopes in all these 12 species-specific proteins, rendering them promising candidates for future studies on immune pathogenesis and immune diagnostic tools for MABC disease.
HostingRepository	PRIDE
AnnounceDate	2022-01-19
AnnouncementXML	Submission_2022-01-19_03:02:52.821.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD010504
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Anja Stefanski
SpeciesList	scientific name: Mycobacterium abscessus; NCBI TaxID: 36809;
ModificationList	Oxidation; Carbamidomethyl
Instrument	Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2018-07-19 23:21:50	ID requested
⏵ 1	2022-01-19 03:02:53	announced

Steindor M, Nkwouano V, Stefanski A, Stuehler K, Ioerger TR, Bogumil D, Jacobsen M, Mackenzie CR, Kalscheuer R, A proteomics approach for the identification of species-specific immunogenic proteins in the Mycobacterium abscessus complex. Microbes Infect, 21(3-4):154-162(2019) [pubmed]

curator keyword: Biomedical

submitter keyword: M.abscessus, Secretome, LC-MS, Non Tuberculous Mycobacteria, Mycobacterium abscessus, Proteomics, Cystic Fibrosis

Kai Stühler
contact affiliation	Molecular Proteomics Laboratory Institute for Molecular Medicine Heinrich-Heine-Universität Düsseldorf 40225 Düsseldorf Germany
contact email	kai.stuehler@hhu.de
lab head
Anja Stefanski
contact affiliation	Molecular Proteomics Laboratory
contact email	anja.stefanski@hhu.de
dataset submitter

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/2022/01/PXD010504

PRIDE project URI

• PRIDE
  1. PXD010504
     1. Label: PRIDE project
     2. Name: M.abscessus Proteome and Secretome