S. K. Higginbottom

The paper creates a mutant fitness compendium for Bifidobacterium breve to identify molecular factors affecting colonization and host-microbe interactions.

The paper shows that Prevotella copri requires plant-derived microbiota-accessible carbohydrates for persistence in mice, unlike Bacteroides thetaiotaomicron.

The paper identifies metabolic diversity in commensal protists and shows how it influences intestinal immunity and trans-kingdom competition with bacteria.

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.

This study shows butyrate reduces C. difficile fitness in mice and humans, and inhibits growth of diverse C. difficile isolates, suggesting dietary interventions could help prevent CDI.

The paper develops a metabolomics pipeline to identify microbiota-dependent metabolites and explores their links to host phenotypes using machine learning and comparative genomics.

The paper tracks bacterial evolution and transmission in mice using barcoded E. coli strains, showing rapid selection and migration effects on microbiota composition.

This study develops a high-throughput method to cultivate diverse, stable fecal-derived microbial communities in vitro, demonstrating their utility for modeling the intestinal microbiota and predicting in vivo responses to antibiotics.

The paper shows that gut bacteria use reductive amino acid metabolism to produce metabolites that circulate in the host, linked to energy capture via the Rnf complex.

The paper investigates how gut microbiota recovers after antibiotics, showing diet and environmental factors influence resilience and recovery patterns.

This study identifies a metabolic pathway in Bacteroides thetaiotaomicron for glucosinolate activation into isothiocyanates, showing its role in processing dietary nutrients.