Proteomics

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Rapid Assay of Individual Microbiome responses to drugs part1

ABSTRACT: We developed an approach named Rapid Assay of Individual Microbiome (RapidAIM) to screen xenobiotics against individual microbiomes, and conducted a proof-of-concept (POC) study on the use of RapidAIM. We tested 43 compounds against five individual microbiomes. The individual microbiomes are cultured 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.

INSTRUMENT(S): Q Exactive

ORGANISM(S): Escherichia Coli

SUBMITTER: Leyuan Li  

LAB HEAD: Daniel Figeys

PROVIDER: PXD012724 | Pride | 2020-05-26

REPOSITORIES: Pride

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Leyuan_20170610_V1_ATRV.raw Raw
Leyuan_20170610_V1_AZTH.raw Raw
Leyuan_20170610_V1_BRBR.raw Raw
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Leyuan_20170610_V1_CPRF.raw Raw
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RapidAIM: a culture- and metaproteomics-based Rapid Assay of Individual Microbiome responses to drugs.

Li Leyuan L   Ning Zhibin Z   Zhang Xu X   Mayne Janice J   Cheng Kai K   Stintzi Alain A   Figeys Daniel D  

Microbiome 20200311 1

<h4>Background</h4>Human-targeted drugs may exert off-target effects or can be repurposed to modulate the gut microbiota. However, our understanding of such effects is limited due to a lack of rapid and scalable assay to comprehensively assess microbiome responses to drugs. Drugs and other compounds can drastically change the overall abundance, taxonomic composition, and functions of a gut microbiome.<h4>Results</h4>Here, we developed an approach to screen compounds against individual microbiome  ...[more]

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