Studying within-species variation has traditionally been limited to culturable bacterial
isolates and low-resolution microbial community fingerprinting. Metagenomic sequencing …

Bioindication has become an indispensable part of water quality monitoring in most
countries of the world, with the presence and abundance of bioindicator taxa, mostly …

Marine bacteria and archaea play key roles in global biogeochemistry. To improve our
understanding of this complex microbiome, we employed single-cell genomics and a …

Genomes are an integral component of the biological information about an organism; thus,
the more complete the genome, the more informative it is. Historically, bacterial and …

The structure and distribution of genomic diversity in natural microbial communities is largely
unexplored. Here, we used shotgun metagenomics to assess the diversity of the honey bee …

Population genomics is advancing our understanding of evolution, ecology, conservation,
agriculture, forestry, and human health by allowing new and long-standing questions to be …

Our view of genome size in Archaea and Bacteria has remained skewed as the data has
been dominated by genomes of microorganisms that have been cultivated under laboratory …

Ecology and evolution are considered distinct processes that interact on contemporary time
scales in microbiomes. Here, to observe these processes in a natural system, we collected a …

Evolutionary transitions between fresh and salt water happen infrequently among
bacterioplankton. Within the ubiquitous and highly abundant heterotrophic …

Single-cell genomics is applied to environmental samples as a method to solve the
problems of current metagenomics. However, in the fluorescence-activated cell sorting …