PXD038178

PXD038178 is an original dataset announced via ProteomeXchange.

Title	Epitranscriptomic regulation of the oxidative stress response by the radical S-adenosylmethionine methyltransferase RlmN
Description	Bacteria possess elaborate systems to manage reactive oxygen and nitrogen species (ROS) arising from exposure to the mammalian immune system and environmental stresses. Here we report the discovery of an ROS-sensing RNA-modifying enzyme that regulates translation of stress-response proteins in the gut commensal and opportunistic pathogen Enterococcus faecalis. Following exposure to menadione or sublethal doses of ROS-inducing erythromycin and chloramphenicol, analysis of 25 modified ribonucleosides of the epitranscriptome revealed large decreases in N2-methyladenosine (m2A) in both 23S ribosomal RNA (rRNA) and transfer RNA (tRNA) caused by ROS-mediated inactivation of the Fe-S cluster-containing methyltransferase, RlmN. Loss of RlmN altered protein expression in a way that mimicked menadione exposure, such as increased superoxide dismutase and decreased virulence proteins. These studies suggest that RlmN acts as a redox-sensitive molecular switch that links environmental and antibiotic-induced ROS exposure to epitranscriptome dynamics in ribosomal and transfer RNA to effect translation of stress response proteins.
HostingRepository	PRIDE
AnnounceDate	2024-10-04
AnnouncementXML	Submission_2024-10-04_02:17:52.277.xml
DigitalObjectIdentifier	https://dx.doi.org/10.6019/PXD038178
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	AMEYA SINHA
SpeciesList	scientific name: Enterococcus faecalis (Streptococcus faecalis); NCBI TaxID: 1351;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Q Exactive HF

Revision	Datetime	Status	ChangeLog Entry
0	2022-11-16 14:33:28	ID requested
1	2023-05-09 08:22:18	announced
⏵ 2	2024-10-04 02:17:53	announced	2024-10-04: Updated project metadata.

10.1038/s41467-023-39790-x;

Lee WL, Sinha A, Lam LN, Loo HL, Liang J, Ho P, Cui L, Chan CSC, Begley T, Kline KA, Dedon P, An RNA modification enzyme directly senses reactive oxygen species for translational regulation in Enterococcus faecalis. Nat Commun, 14(1):4093(2023) [pubmed]

10.6019/PXD038178;

submitter keyword: E. faecalis, RlmN, oxidative stress,Epitranscriptome

Peter Dedon
contact affiliation	MIT
contact email	pcdedon@mit.edu
lab head
AMEYA SINHA
contact affiliation	NTU
contact email	ameya.sinha@gmail.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD038178
     1. Label: PRIDE project
     2. Name: Epitranscriptomic regulation of the oxidative stress response by the radical S-adenosylmethionine methyltransferase RlmN