F. Bansept

Inferring interactions from microbiome data

The paper introduces a computational workflow to infer microbial community interactions from time series data, quantifying parameter uncertainty and comparing mechanistic models.

Bacterial c-di-GMP plays a key role in the evolution of host-association

This study shows that c-di-GMP upregulation enables bacteria to adapt to host-association across diverse species.

On the effect of inheritance of microbes in commensal microbiomes

This study models microbial inheritance from parents to offspring and finds it significantly shapes microbiomes in hosts with short lifespans or limited environmental colonization.

Fitness advantage of Bacteroides thetaiotaomicron capsular polysaccharide is dependent on the resident microbiota

This study quantifies colonization bottlenecks and growth dynamics of Bacteroides thetaiotaomicron in the gut, showing that capsular polysaccharide provides a fitness advantage dependent on microbiota composition.

Modeling host-associating microbes under selection

The paper models microbial populations in a two-compartment host-environment system to analyze selection pressures on replication and migration rates.

Enchained growth and cluster dislocation: a possible mechanism for microbiota homeostasis

The paper investigates how IgA antibodies affect bacterial growth and clustering in the gut, finding that faster replicating bacteria are more affected by IgA-mediated chain breaking.

Antibody-mediated cross-linking of gut bacteria hinders the spread of antibiotic resistance

This study develops a multiscale model showing that antibody-mediated bacterial clustering in the gut can hinder the spread of antibiotic resistance in host populations.