… of OTUs, the lowest number of observed taxa, and the highest F measure (Table 2). Since
the F measure is computed using true-positive taxonomies based on the expected composition…

Background VSEARCH is an open source and free of charge multithreaded 64-bit tool for
processing and preparing metagenomics, genomics and population genomics nucleotide …

Marine plankton support global biological and geochemical processes. Surveys of their
biodiversity have hitherto been geographically restricted and have not accounted for the full …

The interrogation of genetic markers in environmental meta-barcoding studies is currently
seriously hindered by the lack of taxonomically curated reference data sets for the targeted …

Popular de novo amplicon clustering methods suffer from two fundamental flaws: arbitrary
global clustering thresholds, and input-order dependency induced by centroid selection. …

Universal taxonomic frameworks have been critical tools to structure the fields of botany,
zoology, mycology, and bacteriology as well as their large research communities. Animals, …

Background Biological communities are normally composed of a few abundant and many
rare species. This pattern is particularly prominent in microbial communities, in which most …

Previously we presented Swarm v1, a novel and open source amplicon clustering program
that produced fine-scale molecular operational taxonomic units (OTUs), free of arbitrary …

The ocean is home to myriad small planktonic organisms that underpin the functioning of
marine ecosystems. However, their spatial patterns of diversity and the underlying drivers …

High animal and plant richness in tropical rainforest communities has long intrigued naturalists.
It is unknown if similar hyperdiversity patterns are reflected at the microbial scale with …