PXD020096-2

PXD020096 is an original dataset announced via ProteomeXchange.

Title	Revelation of AbfR in Regulation of Mismatch Repair and Energy Metabolism in S. epidermidis by Integrated Proteomic and Metabolomic Analysis
Description	Staphylococcus epidermidis is a common causative of nosocomial infections associated with indwelling medical devices. To date, the mechanisms of the pathogenicity and drug resistance of S. epidermidis have not been clearly elucidated. AbfR has been previously identified as an oxidation-sensing regulator that regulates bacterial aggregation and biofilm formation by responding to oxidative stress in S. epidermidis; however, the regulatory pathways of AbfR are underexplored. In this study, we investigated the oxidation-sensing regulatory mechanism of AbfR using TMT10-plex labelling quantitative proteomic and untargeted metabolomic approaches. Integrated analysis of two omics datasets indicated that abfR depletion influenced nucleic acid metabolism and activated the DNA mismatch repair pathway. In addition, several energy-related metabolic pathways, including tricarboxylic acid (TCA) cycle, glycolysis, and arginine metabolism, were remarkably impacted by the deletion of abfR. This study revealed the regulatory networks of the transcription factor AbfR from a multi-omics view and demonstrated that AbfR played a broad role in not only mismatch repair but also energy metabolism, enabling S. epidermidis to constantly sense and adapt to environmental stress.
HostingRepository	PRIDE
AnnounceDate	2024-10-22
AnnouncementXML	Submission_2024-10-22_05:09:57.703.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Lei Gu
SpeciesList	scientific name: Bacteria; NCBI TaxID: NCBITaxon:2; scientific name: Staphylococcus epidermidis RP62A; NCBI TaxID: 176279;
ModificationList	TMT6plex-126 reporter+balance reagent acylated residue; monohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Fusion

Revision	Datetime	Status	ChangeLog Entry
0	2020-06-29 04:02:21	ID requested
1	2020-07-28 18:10:42	announced
⏵ 2	2024-10-22 05:10:05	announced	2024-10-22: Updated project metadata.

10.1016/j.jprot.2020.103900;

Gu L, Liu X, Wang YQ, Zhou YT, Zhu HW, Huang J, Lan LF, Zheng J, Yang CG, Zhou H, Revelation of AbfR in regulation of mismatch repair and energy metabolism in S. epidermidis by integrated proteomic and metabolomic analysis. J Proteomics, 226():103900(2020) [pubmed]

submitter keyword: TMT10-plex labelling,Staphylococcus epidermidis

Hu Zhou
contact affiliation	Department of Analytical Chemistry and CAS Key Laboratory of Receptor Research, Shanghai Institute of Materia Medica, Chinese Academy of Sciences, Shanghai, China, 201203
contact email	zhouhu@simm.ac.cn
lab head
Lei Gu
contact affiliation	Center for Single-Cell Omics, School of Public Health, Shanghai Jiao Tong University School of Medicine
contact email	summerrushing@163.com
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD020096
     1. Label: PRIDE project
     2. Name: Revelation of AbfR in Regulation of Mismatch Repair and Energy Metabolism in S. epidermidis by Integrated Proteomic and Metabolomic Analysis