PXD055159-1

PXD055159 is an original dataset announced via ProteomeXchange.

Dataset Summary

Title	Universal and robust bacterial phosphoproteomics analysis
Description	In present work, we established a simple and robust protocol for universal bacterial phosphoproteomic analysis underlying the rationale of methanol-based LLE protein extraction and cleanup. Using the SDS lysis as the conventional protocol control, we carefully evaluated the efficiency of protein extraction and contaminants removal in terms of phosphopeptide enrichment, phosphopeptide identification and quantification in Listeria monocytogenes, a gram-positive bacterium. We found out the addition of urea, a chaotropic agent, facilitating the protein denaturation and then the protein-impurity dissociation, largely enhanced the protein extraction and sample purity. We further demonstrated the feasibility of this unified LLE platform for studying both gram-positive and gram-negative phosphoproteomes.
HostingRepository	jPOST
AnnounceDate	2025-08-04
AnnouncementXML	Submission_2025-08-03_21:16:28.717.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Miao-Hsia Lin
SpeciesList	scientific name: cellular organisms; NCBI TaxID: 131567; scientific name: cellular organisms; NCBI TaxID: 131567; scientific name: cellular organisms; NCBI TaxID: 131567; scientific name: Escherichia coli; NCBI TaxID: 562; scientific name: cellular organisms; NCBI TaxID: 131567;
ModificationList	S-carboxamidomethyl-L-cysteine; alpha-amino acetylated residue; O-phospho-L-serine; O-phospho-L-threonine; O4'-phospho-L-tyrosine; L-methionine sulfoxide
Instrument	instrument

Dataset History

Revision	Datetime	Status	ChangeLog Entry
0	2024-08-23 19:33:55	ID requested
⏵ 1	2025-08-03 21:16:29	announced

Publication List

Wu PS, Chen TA, Chen BY, Ishihama Y, Lin MH, A Methanolic Urea-Enhanced Protein Extraction Enabling the Largest Bacterial Phosphorylation Resource. Mol Cell Proteomics, 24(8):101019(2025) [pubmed]

Wu PS, Chen TA, Chen BY, Ishihama Y, Lin MH, A Methanolic Urea-Enhanced Protein Extraction Enabling the Largest Bacterial Phosphorylation Resource. Mol Cell Proteomics, 24(8):101019(2025) [pubmed]

Keyword List

submitter keyword: Phosphoproteomics, phosphopeptide enrichment, protein extraction

submitter keyword: Phosphoproteomics, phosphopeptide enrichment, protein extraction

Contact List

Miao-Hsia Lin
lab head
Miao-Hsia Lin
contact affiliation	Department of Microbiology, College of Medicine, National Taiwan University
dataset submitter

Full Dataset Link List

jPOST dataset URI
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jPOST 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://ftp.jpostdb.org/JPST003043/