Summary of project PR002566
This data is available at the NIH Common Fund's National Metabolomics Data Repository (NMDR) website, the Metabolomics Workbench, https://www.metabolomicsworkbench.org, where it has been assigned Project ID PR002566. The data can be accessed directly via it's Project DOI: 10.21228/M8ZK1T This work is supported by NIH grant, U2C- DK119886.
See: https://www.metabolomicsworkbench.org/about/howtocite.php
| Project ID: | PR002566 |
| Project DOI: | doi: 10.21228/M8ZK1T |
| Project Title: | Nutrient competition predicts gut microbiome restructuring under drug perturbations |
| Project Summary: | Human gut bacteria are routinely exposed to stresses, and collateral effects are difficult to predict. To interrogate community-level responses to perturbations, we screened stool-derived in vitro communities with 707 clinically relevant drugs, and anlyzed the exometabolomics data of the resulting communities along with their growth and compositional changes. Drug bioaccumulation and degradation are rare. Compositional and metabolomic responses were predictably impacted by nutrient competition, and each bacterial species in the community maintains most of its nutrient niche. Finally, in defined, simplified communities, the response to drug perturbations of each species are quantitatively predicted from their drug susceptibility and metabolic profiles. Our study reveals that quantitative understanding of the interaction landscape, particularly nutrient competition, can be used to anticipate and potentially mitigate side effects of drug treatment on the gut microbiota. |
| Institute: | Stanford University |
| Last Name: | Shi |
| First Name: | Handuo |
| Address: | 443 Via Ortega, Stanford University, Stanford, CA 94305, USA |
| Email: | handuo@stanford.edu |
| Phone: | 6505615314 |
Summary of all studies in project PR002566
| Study ID | Study Title | Species | Institute | Analysis(* : Contains Untargted data) | Release Date | Version | Samples | Download(* : Contains raw data) |
|---|---|---|---|---|---|---|---|---|
| ST004087 | Bioaccumulation and degradation of drugs in stool-derived communities | Stanford University | MS* | 2025-08-01 | 1 | 236 | Uploaded data (2.3G)* | |
| ST004112 | Nutrient competition predicts gut microbiome restructuring under drug perturbations | Bacteroides thetaiotaomicron | Stanford University | MS* | 2025-08-14 | 1 | 1000 | Uploaded data (83.2G)* |
