The genus Prevotella includes more than 50 characterized species that occur in varied
natural habitats, although most Prevotella spp. are associated with humans. In the human …

Gut bacteria play an important role in the digestion of food, immune activation, and
regulation of entero-endocrine signaling pathways, but also communicate with the central …

Metagenomic assembly enables new organism discovery from microbial communities, but it
can only capture few abundant organisms from most metagenomes. Here we present …

The levels of the thousands of metabolites in the human plasma metabolome are strongly
influenced by an individual's genetics and the composition of their diet and gut microbiome …

The composition of the gut microbiome has been associated with clinical responses to
immune checkpoint inhibitor (ICI) treatment, but there is limited consensus on the specific …

Bacteriophages have important roles in the ecology of the human gut microbiome but are
under-represented in reference databases. To address this problem, we assembled the …

Over the last two decades our understanding of the gut microbiota and its contribution to
health and disease has been transformed. Among a new 'generation'of potentially beneficial …

The association of gut microbial features with type 2 diabetes (T2D) has been inconsistent
due in part to the complexity of this disease and variation in study design. Even in cases in …

Firmicutes and Bacteroidetes are the predominant bacterial phyla colonizing the healthy
human gut. Accumulating evidence suggests that dietary fiber plays a crucial role in host …

Abstract Machine learning is increasingly important in microbiology where it is used for tasks
such as predicting antibiotic resistance and associating human microbiome features with …