PXD035297-1

PXD035297 is an original dataset announced via ProteomeXchange.

Title	Queuosine modification of tRNA-Tyr elicits translational reprogramming and enhances growth of Vibrio cholerae with aminoglycosides
Description	Tgt is responsible for the queuosine (Q) modification of the guanine (G) in tRNAs with GUN anti-codon. We have previously identified tgt as being vital for growth in presence sub-lethal concentrations of aminoglycosides in Vibrio cholerae. Here we further explore the role of Q modification in translation fidelity and efficiency of codon decoding upon tobramycin exposure. We characterize the impact on codon decoding efficiency, the overall translation of the bacterial proteome, and the molecular mechanisms underlying the effects of Q modification in antibiotic stress response. Using molecular reporters, we show that Q modification impacts the efficiency of decoding at tyrosine TAT and TAC codons. Proteomics identify the anti-SoxR factor RsxA as better translated in the absence of tgt. RsxA displays a codon bias towards tyrosine TAT and its overabundance leads to decreased expression of genes belonging to SoxR oxidative stress regulon. We also identify conditions which regulate tgt expression. We propose that regulation of Q modification in response to environmental cues leads to translational reprogramming of genes bearing a biased tyrosine codon usage. In silico analysis further identifies candidate genes possibly subjected to such translational regulation, among which DNA repair factors. Such transcripts, which fit the definition of modification tunable transcripts, are plausibly central in the bacterial response to antibiotic stress.
HostingRepository	PRIDE
AnnounceDate	2024-12-11
AnnouncementXML	Submission_2024-12-11_03:58:53.825.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Magalie Duchateau
SpeciesList	scientific name: Vibrio cholerae O1; NCBI TaxID: 127906;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive Plus

Revision	Datetime	Status	ChangeLog Entry
0	2022-07-13 06:09:15	ID requested
⏵ 1	2024-12-11 03:58:54	announced

10.7554/ELIFE.96317.2;

submitter keyword: aminoglycosides, tRNA-Tyr,Queuosine modification

Zeynep Baharoglu
contact affiliation	Département Génomes et Génétique, Institut Pasteur, UMR3525, CNRS, Unité Plasticité du Génome Bactérien, 75015, Paris, France
contact email	baharogl@pasteur.fr
lab head
Magalie Duchateau
contact affiliation	Institut Pasteur
contact email	magalie.duchateau@pasteur.fr
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/2024/12/PXD035297

PRIDE project URI

• PRIDE
  1. PXD035297
     1. Label: PRIDE project
     2. Name: Queuosine modification of tRNA-Tyr elicits translational reprogramming and enhances growth of Vibrio cholerae with aminoglycosides