Advances in next-generation sequencing have enabled the widespread measurement of
microbiome composition across systems and over the course of microbiome assembly …

Population stratification is a useful approach for a better understanding of complex
biological problems in human health and wellbeing. The proposal that such stratification …

Industrialization has impacted the human gut ecosystem, resulting in altered microbiome
composition and diversity. Whether bacterial genomes may also adapt to the …

Temporal dynamics of the gut microbiota potentially limit the identification of microbial
features associated with health status. Here, we used whole-genome metagenomic and 16S …

Microbial networks are an increasingly popular tool to investigate microbial community
structure, as they integrate multiple types of information and may represent systems-level …

Correlation analyses are often included in bioinformatic pipelines as methods for inferring
taxon–taxon interactions. In this perspective, we highlight the pitfalls of inferring interactions …

Studies of host-associated and environmental microbiomes often incorporate longitudinal
sampling or paired samples in their experimental design. Longitudinal sampling provides …

Abstract The National Institutes of Health (NIH) is the primary federal government agency for
biomedical research in the USA. NIH provides extensive support for human microbiome …

Compositional changes in the gut microbiota have been associated with a variety of medical
conditions such as obesity, Crohn's disease, and diabetes. However, connecting microbial …

Microbial systems appear to exhibit a relatively high switching capacity of moving back and
forth among few dominant communities (taxon memberships). While this switching behavior …