Jamie Alcira Lopez

This study shows that gut microbiome recovery after antibiotics is path-dependent, shaped by ecological and evolutionary dynamics including strain sweeps, genetic changes, and phage activity.

This study uses phage-based manipulation to reveal ecological interactions in gut microbiomes by targeting Escherichia fergusonii and analyzing its role in community dynamics.

This study identifies lactic acid from gut microbes as a key factor improving Drosophila survival during starvation by enhancing oxidative phosphorylation.

The paper investigates why waste-product cross-feeding persists in microbial communities by developing a mathematical model showing that intracellular metabolite toxicity can make cross-feeding evolutionarily stable.

The paper estimates phage population dynamics and lifestyle in the human gut using integrated data, finding a low lysis rate and high genome-to-genome ratio suggesting temperate phage dominance.

The paper quantifies nutrient preferences of gut bacteria in mice using isotope tracing and finds dietary fiber, protein, and host-derived metabolites drive microbial growth.