Nucleic Acids Research · 2023 · 701 citations · 29 references
Life SciencesBioinformaticsMicrobiologyMicrobial SystematicsMicrobial TaxonomySystematicsFungal ClassificationFungal SystematicsPhylogenetic ClassificationProkaryotic ClassificationTaxonomic ClassificationTaxonomic DatabasesBiodiversity DatabasesBiological Knowledge IntegrationCross-kingdom InteractionsDigital TaxonomyFungal Taxonomy DatabasesPhylogenetic Reference DatabasesSpecies HypothesesTaxonomic Reference Databases
UNITE (https://unite.ut.ee) is a web-based database and sequence management environment for molecular identification of eukaryotes. It targets the nuclear ribosomal internal transcribed spacer (ITS) region and offers nearly 10 million such sequences for reference. These are clustered into ∼2.4M species hypotheses (SHs), each assigned a unique digital object identifier (DOI) to promote unambiguous referencing across studies. UNITE users have contributed over 600 000 third-party sequence annotations, which are shared with a range of databases and other community resources. Recent improvements facilitate the detection of cross-kingdom biological associations and the integration of undescribed groups of organisms into everyday biological pursuits. Serving as a digital twin for eukaryotic biodiversity and communities worldwide, the latest release of UNITE offers improved avenues for biodiversity discovery, precise taxonomic communication and integration of biological knowledge across platforms.
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DADA2: High-resolution sample inference from Illumina amplicon data
Benjamin J. Callahan, Paul J. McMurdie, Michael Rosen et al. · Nature Methods · 2016 · 36.3K citations
Patrick D. Schloss, Sarah L. Westcott, Thomas Ryabin et al. · Applied and Environmental Microbiology · 2009 · 21.8K citations · Full text
Search and clustering orders of magnitude faster than BLAST
R. C. Edgar · Bioinformatics · 2010 · 21.7K citations · Full text
VSEARCH: a versatile open source tool for metagenomics
Torbjørn Rognes, Tomáš Flouri, Ben Nichols et al. · PeerJ · 2016 · 11K citations · Full text
Conrad L. Schoch, Keith A. Seifert, Sabine M. Huhndorf et al. · Proceedings of the National Academy of Sciences · 2012 · 5.1K citations · Full text