PXD025999

PXD025999 is an original dataset announced via ProteomeXchange.

Title	Development of a mass spectrometric method for the analysis of periplasmic proteins from Gram-negative bacteria
Description	Mass spectrometry-based proteomics has emerged as a powerful technique in the field of clinical diagnostics but requires a multistep process for sample preparation. The purpose of clinical mass spectrometry is to detect and quantify protein targets using well-established methods. Here, we found that the osmotic shock (OS) process allowed us to reduce the salt concentration and simultaneously enrich periplasmic proteins, specifically target proteins associated with antibiotic resistance in Gram-negative bacteria. Furthermore, we demonstrated that an optimized condition of the OS lysis allows the highest sensitivity in the MS analysis, and the OS lysate containing the proteins of interest (e.g., KPC-2) can be directly injected into multiple mass spectrometers without desalting process. Our study provides a detergent-free, straightforward method for periplasmic protein analysis using mass spectrometry.
HostingRepository	PRIDE
AnnounceDate	2023-11-14
AnnouncementXML	Submission_2023-11-14_07:26:31.883.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Dong Huey Cheon
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	No PTMs are included in the dataset
Instrument	Q Exactive HF-X

Revision	Datetime	Status	ChangeLog Entry
0	2021-05-13 03:30:29	ID requested
1	2023-09-06 00:29:05	announced
⏵ 2	2023-11-14 07:26:32	announced	2023-11-14: Updated project metadata.

Dataset with its publication pending

submitter keyword: osmotic shock lysis,Gram-negative bacteria, KPC-2 producing E. coli, bottom-up, top-down, OS supernatant, LC-MS/MS

Je-Hyun Baek
contact affiliation	Research & Development Center for Clinical Mass Spectrometry, Seegene Medical Foundation, Seongdong-gu, Seoul, Korea
contact email	jhbaek@mf.seegene.com
lab head
Dong Huey Cheon
contact affiliation	Seegene Medical Foundation
contact email	caam203@gmail.com
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/2023/09/PXD025999

PRIDE project URI

• PRIDE
  1. PXD025999
     1. Label: PRIDE project
     2. Name: Development of a mass spectrometric method for the analysis of periplasmic proteins from Gram-negative bacteria