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PXD012725

PXD012725 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleRapid Assay of Individual Microbiome responses to drugs data part2
DescriptionWe developed an approach named Rapid Assay of Individual Microbiome (RapidAIM) to screen xenobiotics against individual microbiomes. To evaluate technical reproducibility, we tested 43 compounds against an individual's microbiome. The individual microbiome is cultured in triplicates in 96-well plates for 24 hours and the samples are then analyzed using a metaproteomics-based analytical approach to gain functional insight into the individual microbiomes responses following drug treatments.The tested compounds significantly affected overall microbiome abundance, microbiome composition and functional pathways at multiple taxonomic levels. The microbiome responses to berberine, metformin, diclofenac, fructooligosaccharide and most antibiotics were consistent among most individual microbiomes. Interestingly, most of our tested NSAIDs, statins, and histamine-2 blockers induced individually distinct responses. Our workflow offers an effective solution to systematically study the effects of many different compounds on individual microbiomes.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_05:06:08.499.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterLeyuan Li
SpeciesList scientific name: Escherichia coli; NCBI TaxID: 562;
ModificationListmonohydroxylated residue; acetylated residue; iodoacetamide derivatized residue
InstrumentQ Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02019-02-15 01:55:40ID requested
12020-05-26 17:12:24announced
22024-10-22 05:06:14announced2024-10-22: Updated project metadata.
Publication List
10.1186/s40168-020-00806-z;
Li L, Ning Z, Zhang X, Mayne J, Cheng K, Stintzi A, Figeys D, RapidAIM: a culture- and metaproteomics-based Rapid Assay of Individual Microbiome responses to drugs. Microbiome, 8(1):33(2020) [pubmed]
Keyword List
curator keyword: Biological, Biomedical
submitter keyword: in vitro culture, drug,microbiome, metaproteomics
Contact List
Daniel Figeys
contact affiliationDepartment of Biochemistry, Microbiology and Immunology, Faculty of Medicine, University of Ottawa, Ottawa, Canada
contact emaildfigeys@uottawa.ca
lab head
Leyuan Li
contact affiliationUniverstiy of Ottawa
contact emaillli8@uottawa.ca
dataset submitter
Full Dataset Link List
Dataset FTP location
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PRIDE project URI
Repository Record List
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