Supplementary Data for the Project Multiomics and quantitative modelling disentangle diet, host, and microbiota contributions to the host metabolome
Year: 2022
Type: supplementary-materials
Abstract: List of Supplementary Tables Supplementary Table 1. List of 18 genome-sequenced human gut bacteria with metabolic characteristics that were used for community assembly. Supplementary Table 2. Experimental metadata (Diet composition, mouse information). Supplementary Table 3. Species relative abundance. Supplementary Table 4. Gene abundance and expression changes. Supplementary Table 5. Gene pathway enrichment results. Supplementary Table 6. Metabolomics data. Supplementary Table 7. Metabolite fold changes, spatial clustering and chemical group enrichment of the spatial clusters. Supplementary Table 8. Description of the intestinal flux model, model parameters and hierarchical clustering, and chemical group enrichment of the manually defined clusters for the DC mice dataset. Supplementary Table 9. Drug metabolism data from (Zimmermann et al. 2019) used to establish and validate the modelling pipeline. Supplementary Table 10. Enzymatic paths between substrates and products. Supplementary Table 11. Pearson’s correlation coefficients between potential substrates and products, and metagenomic and metatranscriptomic measurements. Supplementary Table 12. Model parameters, hierarchical clustering and chemical class enrichment for the CVR mice dataset. Supplementary Table 13. Preprocessed input data, and model parameters for metabolites measured in an independent study with CVR mice fed chow diet (Meier et al. 2023). Supplementary Table 14. ShortBRED analysis of the selected enzyme abundances in metagenomics and metatranscriptomic samples of DC and CVR mice. Supplementary Table 15. Correlation between ShortBRED-quantified enzyme abundances and metabolite levels in DC and CVR mice.
Authors: Zimmermann-Kogadeeva, Maria, Henseler, Zachariah, Bencivenga-Barry, Natasha A., Groß, Matthias, Zimmermann, Michael, Bartmanski, Bartosz, Bork, Peer, Goodman, Andrew L.
Language: English
Topic: Gut microbiota and health
Subfield: Molecular Biology
Domain: Life Sciences
Open Access status: green
OpenAlex ID: W4393810447