A. Weakley

Comprehensive profiling of genomic invertons in defined gut microbial community reveals associations with intestinal colonization and surface adhesion

The paper develops a method to detect invertons in gut microbiome metagenomic data and finds associations between inverton dynamics and intestinal colonization and surface adhesion.

Gut microbiota gate host exposure to cholinesterase inhibitors from dietary Solanums

The paper investigates how gut microbiota modify steroidal alkaloids from Solanum plants, affecting host exposure and physiological effects.

Microcosm cultures of a complex synthetic community reveal ecology and genetics of gut microbial organization

The paper uses synthetic microbial communities in mucin microcosms to study gut microbial spatial organization and identifies genes associated with mucosal versus lumen enrichment.

Strain dropouts reveal interactions that govern the metabolic output of the gut microbiome

The paper investigates how strain dropouts in the gut microbiome affect community metabolism and host physiology, finding that functionally redundant strains can have significant impacts outside their niche.

Mapping the T cell repertoire to a complex gut bacterial community

The paper maps T cell responses to a complex gut bacterial community and identifies a conserved antigen recognized by multiple TCRs.

In vivo augmentation of a complex gut bacterial community

The paper improves a synthetic gut microbiota community by adding strains that persist after fecal challenge and removing those that do not, resulting in a more stable model of the human gut microbiome.

Systematic dissection of a complex gut bacterial community

This study constructs a defined gut bacterial community of 104 strains and investigates strain-strain and strain-nutrient interactions through amino acid dropout experiments.