Shotgun metagenomics and marker gene amplicon sequencing can be used to directly
measure or predict the functional repertoire of the microbiota en masse, but current methods�…

Background: The objectives of any metagenomic study typically include identification of
resident microbes and their relative proportions (taxonomic analysis), profiling functional�…

Deciphering microbiota functions is crucial to predict ecosystem sustainability in response to
global change. High-throughput sequencing at the individual or community level has�…

Functional analysis of a clinical microbiome facilitates the elucidation of mechanisms by
which microbiome perturbation can cause a phenotypic change in the patient. The direct�…

Functional metagenomic analyses commonly involve a normalization step, where measured
levels of genes or pathways are converted into relative abundances. Here, we demonstrate�…

Communities of microorganisms (microbiota) are present in all habitats on Earth and are
relevant for agriculture, health, and climate. Deciphering the mechanisms that determine�…

We recently presented a three-pronged association study that integrated human intestinal
microbiome data derived from shotgun-based sequencing with untargeted serum�…

Metagenomic sequencing has greatly improved our ability to profile the composition of
environmental and host-associated microbial communities. However, the dependency of�…

Background Advances in microbiome science are being driven in large part due to our
ability to study and infer microbial ecology from genomes reconstructed from mixed�…

Abstract Background Sequencing of 16S rRNA genes has become a powerful technique to
study microbial communities and their responses towards changing environmental�…