P. Dorrestein

The caddisfly gut microbiome contributes to the consumption of riparian leaf litter within rivers

Synthesis-driven reverse metabolomics reveals 3-hydroxy N-acyl amides as gut microbial molecules

ABSTRACT 3-Hydroxy N-acyl amides are bioactive lipids with reported anti-obesity and glucose-regulating effects, yet they are rarely detected in untargeted metabolomics studies because they are largely absent from existing spectral reference libraries. To address this gap, we synthesized an MS/MS spectral resource comp...

Emerging Microbial Lipid Shifts in a Multistage Simulated Gut Inoculated with Human Fecal Microbiota.

Food residues that bypass human digestion are further digested by gut microbes, leading to the production of diverse metabolites, including lipids. To investigate how lipids in our intestine are affected during this transition, we used a colon simulator with four distinct vessels (V1-V4) that mimic the proximal to dist...

FoodScribe: an open-source semantic framework for nutrient estimation from free-text dietary records

This work presents FoodScribe, which translates free-text meal descriptions into quantitative nutrient profiles by combining ingredient parsing with nutrient retrieval by querying the USDA FoodData Central (FDC) database.

Joint-RPCA: domain-aware multi-omics integration for systems microbiology.

Joint Robust Principal Component Analysis (Joint-RPCA), a method designed with these statistical properties in mind and broadly applicable to multi-omics settings with similar challenges, reveals replicable and interpretable multi-omic patterns.