A. Aranda-Diaz

Assembly of gut-derived bacterial communities follows "early-bird" resource utilization dynamics

This study shows that gut microbiota assembly follows 'early-bird' dynamics where fast-growing species dominate nutrient sources, and develops a predictive model for community composition based on nutrient inputs.

Profiling of the human intestinal microbiome and bile acids under physiologic conditions using an ingestible sampling device

The paper develops an ingestible device to collect intestinal samples and identifies regional differences in microbiota and bile acids compared to stool.

A gut commensal niche regulates stable association of a multispecies microbiota

The study identifies a strain-specific bacterial niche in the Drosophila foregut that stabilizes microbiota composition through spatial and competitive interactions.

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.

Quantifying the interplay between rapid bacterial evolution within the mouse intestine and transmission between hosts

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

Environmental and physiological factors affecting high-throughput measurements of bacterial growth

The paper presents a framework for accurate bacterial growth measurements, revealing effects of culturing conditions, initial cell density, and glycerol on growth rates and fitness.

High-throughput cultivation of stable, diverse, fecal-derived microbial communities to model the intestinal microbiota

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.

Recovery of the gut microbiota after antibiotics depends on host diet and environmental reservoirs

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

Bacterial interspecies interactions modulate pH-mediated antibiotic tolerance in a model gut microbiota

This study shows that interspecies interactions in a fruit fly gut microbiota modulate pH and antibiotic tolerance, with Lactobacillus plantarum showing rifampin tolerance influenced by Acetobacter species.