PXD015073

PXD015073 is an original dataset announced via ProteomeXchange.

Title	The core proteome of biofilm-grown clinical Pseudomonas aeruginosa isolates
Description	Comparative genomics has greatly facilitated the identification of shared as well as unique features among individual cells or tissues, and thus offers the potential to find disease markers. While proteomics is recognized for its potential to generate quantitative maps of protein expression, comparative proteomics in bacteria has been largely restricted to the comparison of single cell lines or mutant strains. In this study, we used a data independent acquisition (DIA) technique, which enables global protein quantification of large sample cohorts, to record the proteome profiles of overall 27 whole genome sequenced and transcriptionally profiled clinical isolates of the opportunistic pathogen Pseudomonas aeruginosa. Analysis of the proteome profiles across the 27 clinical isolates grown under planktonic and biofilm growth conditions led to the identification of a core biofilm-associated protein profile. Furthermore, we found that protein-to-mRNA ratios between different P. aeruginosa strains are well correlated, indicating conserved patterns of post-transcriptional regulation. Uncovering core regulatory pathways, which drive biofilm formation and associated antibiotic tolerance in bacterial pathogens, promise to give clues to interactions between bacterial species and their environment and could provide useful targets for new clinical interventions to combat biofilm-associated infections.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_04:57:24.106.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jelena Erdmann
SpeciesList	scientific name: Pseudomonas aeruginosa (strain UCBPP-PA14); NCBI TaxID: 208963; scientific name: Bacteria; NCBI TaxID: NCBITaxon:2;
ModificationList	deaminated residue; iodoacetamide derivatized residue
Instrument	TripleTOF 5600

Revision	Datetime	Status	ChangeLog Entry
0	2019-08-19 03:56:31	ID requested
1	2019-09-30 07:00:40	announced
⏵ 2	2024-10-22 04:57:26	announced	2024-10-22: Updated project metadata.

Erdmann J, Th, ö, ming JG, Pohl S, Pich A, Lenz C, H, ä, ussler S, Isolates. Cells, 8(10):(2019) [pubmed]

10.3390/cells8101129;

submitter keyword: Mass Spectrometry, DIA, Microbiology, SWATH,Bacteria

Christof Lenz
contact affiliation	Institute of Clinical Chemistry, Bioanalytics, University Medical Center Göttingen, Göttingen, Germany
contact email	christof.lenz@med.uni-goettingen.de
lab head
Jelena Erdmann
contact affiliation	Medical School Hannover - ZFA Proteomics & Twincore, Molecular Bacteriology
contact email	erdmann.jelena@mh-hannover.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/2019/10/PXD015073

PRIDE project URI

• PRIDE
  1. PXD015073
     1. Label: PRIDE project
     2. Name: The core proteome of biofilm-grown clinical Pseudomonas aeruginosa isolates