Evolutionary dynamics of bacteria in the gut microbiome within and across hosts

I recently posted a preprint of my work with Benjamin Good, Oskar Hallatschek, and Katherine Pollard on the evolutionary dynamics of bacteria in the gut microbiome within and across hosts on BioRxiv. In this paper, we use a model-based approach to analyze shotgun metagenomic data to reveal evolutionary forces that operate in the gut microbiome. We offer empirical evidence that gut bacteria evolve within healthy human hosts, and we find that between-host genealogical patterns challenge existing population genetic models of quasi-sexual evolution.

We welcome your feedback on the paper.