PXD057726

PXD057726 is an original dataset announced via ProteomeXchange.

Title	Standardization of in vitro method of Biofilm formation by Clinical Isolates of Pseudomonas aeruginosa and elucidating its Biofilm-specific Proteins through LC-Orbitrap HRMS-based Peptidomics
Description	Pseudomonas aeruginosa has a notorious ability to form biofilms, which often facilitate chronic infections. Despite we lack a consensus methodology for its biofilm quantifica-tion/classification for clinical use. Furthermore, the problem gets exacerbated due to het-erogeneity in its matrix composition due to nutritional and oxygen cues, resulting in phe-notypic variations. Here, we formulated the supplement mix for isolate classification based on biofilm forming capacity and tried to profile multiple clinical isolates of Pseu-domonas aeruginosa that revealed many common and some distinct metabolic and pro-teomic signatures among high, medium, low and non-biofilm producing isolates. We further noted the biofilm degrading and inhibiting effects of some in vogue antibiotics in sub-inhibitory doses. We validated our findings employing growth kinetics, confocal mi-croscopy, scanning electron microscopy, Liquid chromatography-Orbitrap-based high resolution mass spectrometry (LC-HRMS). We noted high level resistance against ceftazidime (43.88%), meropenem (43.17%), imipenem (33.09%), and piperacil-lin-tazobactam (30.94%). Also, we noted, that upon our supplementation, 38.84% isolates were found to be high slime producing, while only 1.14% isolates were non-slime pro-ducing. We noted active anoxic metabolism although P. aeruginosa is a strict aerobe. We noted abundant proteins for cellular adaptation to chemical gradients, including glucose catabolism, arginine and polyamine metabolism, and potential virulence and stress me-diation in high slime producer matrix. This work provides insight toward the potential for metabolic speciation in biofilm and supports the development of biofilm-specific diagnos-tics, and development of futuristic therapeutic modalities.
HostingRepository	PRIDE
AnnounceDate	2026-05-18
AnnouncementXML	Submission_2026-05-17_16:21:10.527.xml
DigitalObjectIdentifier	https://doi.org/10.6019/PXD057726
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Supported dataset by repository
PrimarySubmitter	Ashish Singh
SpeciesList	scientific name: Pseudomonas aeruginosa PAO1H2O; NCBI TaxID: NEWT:1147787; scientific name: Bacteria; NCBI TaxID: NCBITaxon:2;
ModificationList	No PTMs are included in the dataset
Instrument	Orbitrap Eclipse

Revision	Datetime	Status	ChangeLog Entry
0	2024-11-10 22:47:25	ID requested
⏵ 1	2026-05-17 16:21:11	announced

10.2174/0118715265435468260425130003;

Rain Z, Singh AK, Kumari S, Kumar D, Maurya GK, Kumar R, Prakash P, Standardization of In vitro Method of Biofilm Formation by Clinical Isolates of Pseudomonas aeruginosa and Elucidating Its Biofilm-Specific Proteins Through LC-Orbitrap HRMS-Based Peptidomics. Infect Disord Drug Targets, ():(2026) [pubmed]

10.6019/PXD057726;

submitter keyword: Nano-LC, Confocal Microscopy,Virulence, Electron Microscopy, Mass spectrometry, Proteomics

Pradyot Prakash
contact affiliation	Department of Microbiology, Institute of Medical Sciences, Banaras Hindu University, Varanasi, India
contact email	pradyot_micro@bhu.ac.in
lab head
Ashish Singh
contact affiliation	Banaras Hindu University
contact email	ashish.singh@bhu.ac.in
dataset submitter

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PRIDE project URI

• PRIDE
  1. PXD057726
     1. Label: PRIDE project
     2. Name: Standardization of in vitro method of Biofilm formation by Clinical Isolates of Pseudomonas aeruginosa and elucidating its Biofilm-specific Proteins through LC-Orbitrap HRMS-based Peptidomics