PXD051389-1

PXD051389 is an original dataset announced via ProteomeXchange.

Title	Temporal dynamics and metagenomics of phosphorothioate epigenomes in the human gut microbiome
Description	Epigenetic regulation of gene expression and host defense is well established in microbial communities, with dozens of DNA modifications comprising the epigenomes of prokaryotes and bacteriophage. Phosphorothioation (PT) of DNA, in which a chemically-reactive sulfur atom replaces a non-bridging oxygen in the sugar-phosphate backbone, is catalyzed by dnd and ssp gene families widespread in bacteria and archaea. However, little is known about the role of PTs or other microbial epigenetic modifications in the human microbiome. Here we optimized and applied fecal DNA extraction, mass spectrometric, and metagenomics technologies to characterize the landscape and temporal dynamics of gut microbes possessing PT modifications.
HostingRepository	PRIDE
AnnounceDate	2025-03-03
AnnouncementXML	Submission_2025-03-03_10:40:59.195.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Michael DeMott
SpeciesList	scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationList	sulfur containing modified residue
Instrument	6490 Triple Quadrupole LC/MS; Q Exactive

Revision	Datetime	Status	ChangeLog Entry
0	2024-04-12 03:16:33	ID requested
⏵ 1	2025-03-03 10:40:59	announced

10.1186/S40168-025-02071-4;

submitter keyword: LC-MS/MS, Phosphorothioate epigenetic modification, Human Gut Microbiome, Mouse Gut Microbiome

Peter C. Dedon
contact affiliation	Underwood-Prescott Professor Department of Biological Engineering Massachusetts Institute of Technology 77 Massachusetts Avenue, 56-731 Cambridge, MA 02139-4307 Tel: 617-253-8017
contact email	pcdedon@mit.edu
lab head
Michael DeMott
contact affiliation	Massachusetts Institute of Technology
contact email	msdemott@mit.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/2025/03/PXD051389

PRIDE project URI

• PRIDE
  1. PXD051389
     1. Label: PRIDE project
     2. Name: Temporal dynamics and metagenomics of phosphorothioate epigenomes in the human gut microbiome