PXD053297

PXD053297 is an original dataset announced via ProteomeXchange.

Title	tRNA modification profile of PA14 transposon insertion mutant library
Description	Transfer RNA (tRNA) modifications have emerged as critical posttranscriptional regulators of gene expression that impact diverse biological and disease processes. While there is extensive knowledge about the enzymes installing the dozens of tRNA modifications – the tRNA epitranscriptome – very little is known about how metabolic, signaling and other networks integrate to regulate tRNA modification levels. Here we took a comprehensive first step at understanding epitranscriptome regulatory networks by developing a high-throughput tRNA modification profiling platform and applying it to a Pseudomonas aeruginosa transposon insertion mutant library comprising over 5,000 strains. Analysis of the more than 200,000 tRNA modification data points validated annotation of hundreds of tRNA modification related genes, uncovered novel tRNA modifying enzymes, and revealed tRNA modification regulatory networks in P. aeruginosa.
HostingRepository	PRIDE
AnnounceDate	2025-08-04
AnnouncementXML	Submission_2025-08-03_16:08:51.945.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Jingjing Sun
SpeciesList	scientific name: Pseudomonas aeruginosa (strain UCBPP-PA14); NCBI TaxID: 208963;
ModificationList	No PTMs are included in the dataset
Instrument	6495C Triple Quadrupole LC/MS

Revision	Datetime	Status	ChangeLog Entry
0	2024-06-22 01:07:20	ID requested
⏵ 1	2025-08-03 16:08:52	announced

Sun J, Wu J, Yuan Y, Fan L, Chua WLP, Ling YHS, Balamkundu S, Dwijapriya, Chay HSS, Begley TJ, de Cr, é, cy-Lagard V, Dziergowska A, Dedon PC, tRNA modification profiling reveals epitranscriptome regulatory networks in Pseudomonas aeruginosa. Nucleic Acids Res, 53(14):(2025) [pubmed]

10.1093/nar/gkaf696;

submitter keyword: tRNA modification,UCBPP-PA14, MRM, LCMS

Peter C.
contact affiliation	Massachusetts Institute of Technology
contact email	pcdedon@mit.edu
lab head
Jingjing Sun
contact affiliation	Singapore-MIT Alliance for Research and Technology Centre
contact email	jingjing.sun@smart.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/2025/08/PXD053297

PRIDE project URI

• PRIDE
  1. PXD053297
     1. Label: PRIDE project
     2. Name: tRNA modification profile of PA14 transposon insertion mutant library