Escherichia coli is considered to be the best-known microorganism given the large number
of published studies detailing its genes, its genome and the biochemical functions of its …

Genome-scale metabolic models (GEMs) computationally describe gene-protein-reaction
associations for entire metabolic genes in an organism, and can be simulated to predict …

SUMMARY A balanced gut microbiota contributes to health, but the mechanisms
maintaining homeostasis remain elusive. Microbiota assembly during infancy is governed by …

Abstract The BiGG Models knowledge base (http://bigg. ucsd. edu) is a centralized
repository for high-quality genome-scale metabolic models. For the past 12 years, the …

Taurine-respiring gut bacteria produce H2S with ambivalent impact on host health. We
report the isolation and ecophysiological characterization of a taurine-respiring mouse gut …

Genome-scale metabolic models (GEMs) enable the mathematical simulation of the
metabolism of archaea, bacteria, and eukaryotic organisms. GEMs quantitatively define a …

The composition of intrinsic microbial communities determines if invading pathogens will
find a suitable niche for colonization and cause infection or be eliminated. Here, we …

Genome‐scale reconstructions of metabolism are computational species‐specific
knowledge bases able to compute systemic metabolic properties. We present a …

Advances in metagenome sequencing of the human microbiome have provided a plethora
of new insights and revealed a close association of this complex ecosystem with a range of …

Disruptions to the intestinal microbiome during weaning lead to negative effects on host
immune function. However, the critical host-microbe interactions during weaning that are …