PXD075589

PXD075589 is an original dataset announced via ProteomeXchange.

Title	Proteomic stable isotope probing (proteomic SIP) using 13C‑E. coli spike‑ins analyzed by DDA LC–MS/MS
Description	This project applies proteomic stable isotope probing (proteomic SIP) to evaluate detection and quantification of 13C‑labeled E. coli peptides within a complex mouse fecal microbiome background. Proteins were extracted, digested, and quantified before preparing spike‑in mixtures. Mouse fecal peptides (2 µg) were combined with E. coli peptides at 10:1 or 100:1 ratios using defined 13C labeling levels (2%, 5%, 50%), each in triplicate. Peptides were analyzed by nanoLC–MS/MS on an XSelect CSH C18 column coupled to an Orbitrap Fusion Tribrid mass spectrometer in data‑dependent acquisition mode. The dataset enables controlled evaluation of isotopic incorporation, quantitative behavior, and sensitivity of proteomic SIP in microbiome samples.
HostingRepository	PRIDE
AnnounceDate	2026-08-30
AnnouncementXML	Submission_2026-08-29_19:44:06.212.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Yi Xiong
SpeciesList	scientific name: gut metagenome; NCBI TaxID: NEWT:749906;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2026-03-12 22:50:03	ID requested
⏵ 1	2026-08-29 19:44:06	announced

10.1186/S40168-024-01866-1;

submitter keyword: proteomic SIP

stable isotope probing

metaproteomics

13C labeling

E. coli spike‑in

mouse fecal microbiome

DDA

Orbitrap Fusion

Chongle Pan
contact affiliation	School of Computer Science, School of Biomedical Engineering, the University of Oklahoma
contact email	cpan@ou.edu
lab head
Yi Xiong
contact affiliation	The School of Biological Sciences, The University of Oklahoma
contact email	yixiong@ou.edu
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/2026/08/PXD075589

PRIDE project URI

• PRIDE
  1. PXD075589
     1. Label: PRIDE project
     2. Name: Proteomic stable isotope probing (proteomic SIP) using 13C‑E. coli spike‑ins analyzed by DDA LC–MS/MS