PXD035815

PXD035815 is an original dataset announced via ProteomeXchange.

Title	RapidAIM 2.0: a high-throughput assay to study functional response of human gut microbiome to xenobiotics
Description	RapidAIM combines an optimized culturing model, which maintains the taxonomic and functional profiles of the human gut microbiome in vitro, and a high-throughput metaproteomics workflow to gain deep functional insights into microbiome responses. Here we exemplify the described RapidAIM 2.0 workflow with demostration study, in which we evaluated the use of different human stool sample collection and processing workflows on individual gut microbiome responses to kestose, a prebiotic oligosaccharide. Four different stool sample processing strategies, namely gauze filtration (G), 100 µm vacuum filtration (V), 100 µm spin tube filtration (S) and 100 g spinning (100g) workflows were tested. A commercial kit GutAlive® was also evaluated following the manufacturer’s manual for its performance on live microbiome sample collection and preservation under room temperature for 24 hours and 72 hours before being processed using the 100 µm vacuum filtration protocol.
HostingRepository	PRIDE
AnnounceDate	2025-08-31
AnnouncementXML	Submission_2025-08-31_04:56:10.965.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Leyuan Li
SpeciesList	scientific name: human feces metagenome; NCBI TaxID: 2705415;
ModificationList	acetylated residue; monohydroxylated residue; iodoacetamide derivatized residue
Instrument	Orbitrap Exploris 480

Revision	Datetime	Status	ChangeLog Entry
0	2022-08-04 08:02:01	ID requested
⏵ 1	2025-08-31 04:56:11	announced

10.20517/mrr.2023.57;

Li L, Mayne J, Beltran A, Zhang X, Ning Z, Figeys D, RapidAIM 2.0: a high-throughput assay to study functional response of human gut microbiome to xenobiotics. Microbiome Res Rep, 3(2):26(2024) [pubmed]

submitter keyword: in vitro culture,human gut microbiome, metaproteomics

Daniel Figeys
contact affiliation	School of Pharmaceutical Sciences, Ottawa Institute of Systems Biology and Department of Biochemistry, Microbiology and Immunology, Faculty of Medicine, University of Ottawa, Ottawa, Canada
contact email	dfigeys@uottawa.ca
lab head
Leyuan Li
contact affiliation	National Center for Protein Sciences, Beijing
contact email	lileyuan2016@gmail.com
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/PXD035815

PRIDE project URI

• PRIDE
  1. PXD035815
     1. Label: PRIDE project
     2. Name: RapidAIM 2.0: a high-throughput assay to study functional response of human gut microbiome to xenobiotics