To the Editor—Rapid advances in DNA-sequencing and bioinformatics technologies in the
past two decades have substantially improved understanding of the microbial world. This …

Background Taxonomic classification of marker-gene sequences is an important step in
microbiome analysis. Results We present q2-feature-classifier ( https://github.com/qiime2/q2-…

We present QIIME 2, an opensource microbiome data science platform accessible to users
spanning the microbiome research ecosystem, from scientists and engineers to clinicians …

Background We present the Biological Observation Matrix (BIOM, pronounced “biome”)
format: a JSON-based file format for representing arbitrary observation by sample contingency …

We present a performance-optimized algorithm, subsampled open-reference OTU picking,
for assigning marker gene (eg, 16S rRNA) sequences generated on next-generation …

Multi-omic insights into microbiome function and composition typically advance one study at
a time. However, in order for relationships across studies to be fully understood, data must …

Background It is now apparent that the complex microbial communities found on and in the
human body vary across individuals. What has largely been missing from previous studies is …

The human body harbors 10 to 100 trillion microbes, mainly bacteria in our gut, which greatly
outnumber our own human cells. This bacterial assemblage, referred to as the human …

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

Background The operational taxonomic unit (OTU) is widely used in microbial ecology.
Reproducibility in microbial ecology research depends on the reliability of OTU-based 16S …