UNITE - Unified system for the DNA based fungal species linked to the classification

doi:10.15468/mkpcy3

UNITE - Unified system for the DNA based fungal species linked to the classification

Citation

UNITE Community, Abarenkov K (2024). UNITE - Unified system for the DNA based fungal species linked to the classification. PlutoF. Checklist dataset https://doi.org/10.15468/mkpcy3 accessed via GBIF.org on 2024-11-03.

Description

UNITE is a rDNA sequence database designed to provide a stable and reliable platform for sequence-borne identification of all fungal species. UNITE provides a unified way for delimiting, identifying, communicating, and working with DNA-based Species Hypotheses (SH). All fungal ITS sequences in the International Nucleotide Sequence Databases (INSD: GenBank, ENA, DDBJ) are clustered to approximately the species level by applying a set of dynamic distance values (0.5 - 3.0%). All species hypotheses are given a unique, stable name in the form of a DOI, and their taxonomic and ecological annotations are verified through distributed, web-based third-party annotation efforts. SHs are connected to a taxon name and its classification as far as possible (phylum, class, order, etc.) by taking into account identifications for all sequences in the SH. An automatically or manually designated sequence is chosen to represent each such SH. These sequences are released (https://unite.ut.ee/repository.php) for use by the scientific community in, for example, local sequence similarity searches and next-generation sequencing analysis pipelines. The system and the data are updated automatically as the number of public fungal ITS sequences grows.

Taxonomic Coverages

Geographic Coverages

Bibliographic Citations

Abarenkov K, Nilsson RH, Larsson K-H, Taylor AFS, May TW, Frøslev TG, Pawlowska J, Lindahl B, Põldmaa K, Truong C, Vu D, Hosoya T, Niskanen T, Piirmann T, Ivanov F, Zirk A, Peterson M, Cheeke TE, Ishigami Y, Jansson AT, Jeppesen TS, Kristiansson E, Mikryukov V, Miller JT, Oono R, Ossandon FJ, Paupério J, Saar I, Schigel D, Suija A, Tedersoo L, Kõljalg U. The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered. Nucleic Acids Res. 2024; 52(D1):D791-D797. - dx.doi.org/10.1093/nar/gkad1039
Kõljalg U, Nilsson HR, Schigel D, Tedersoo L, Larsson K-H, May TW, Taylor AFS, Jeppesen TS, Frøslev TG, Lindahl BD, Põldmaa K, Saar I, Suija A, Savchenko A, Yatsiuk I, Adojaan K, Ivanov F, Piirmann T, Pöhönen R, Zirk A, Abarenkov K. The Taxon Hypothesis Paradigm—On the Unambiguous Detection and Communication of Taxa. Microorganisms. 2020; 8(12):1910. - dx.doi.org/10.3390/microorganisms8121910
Nilsson RH, Larsson K-H, Taylor AFS, Bengtsson-Palme J, Jeppesen TS, Schigel D, Kennedy P, Picard K, Glöckner FO, Tedersoo L, Saar I, Kõljalg U, Abarenkov K. The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications. Nucleic Acids Res. 2019; 47(D1):D259-D264. - dx.doi.org/10.1093/nar/gky1022
Kõljalg U, Nilsson RH, Abarenkov K, Tedersoo L, Taylor AFS, Bahram M, Bates ST, Bruns TD, Bengtsson-Palme J, Callaghan TM, Douglas B, Drenkhan T, Eberhardt U, Dueñas M, Grebenc T, Griffith GW, Hartmann M, Kirk PM, Kohout P, Larsson E, Lindahl BD, Lücking R, Martín MP, Matheny PB, Nguyen NH, Niskanen T, Oja J, Peay KG, Peintner U, Peterson M, Põldmaa K, Saag L, Saar I, Schüßler A, Scott JA, Senés C, Smith ME, Suija A, Taylor DL, Telleria MT, Weiß M, Larsson K-H. 2013. Towards a unified paradigm for sequence-based identification of Fungi. Molecular Ecology. 2013; 22(21):5271-5277. - dx.doi.org/10.1111/mec.12481
Abarenkov K, Nilsson RH, Larsson K-H, Alexander IJ, Eberhardt U, Erland S, Høiland K, Kjøller R, Larsson E, Pennanen T, Sen R, Taylor AFS, Tedersoo L, Ursing BM, Vrålstad T, Liimatainen K, Peintner U, Kõljalg U. The UNITE database for molecular identification of fungi - recent updates and future perspectives. New Phytologist. 2010; 186(2):281-285 - dx.doi.org/10.1111/j.1469-8137.2009.03160.x
Kõjalg U, Larsson K-H, Abarenkov K, Nilsson RH, Alexander IJ, Eberhardt U, Erland S, Høiland K, Kjøller R, Larsson E, Pennanen T, Sen R, Taylor AFS, Tedersoo L, Vrålstad T, Ursing BM. UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi. New Phytologist. 2005; 166:1063-1068 - dx.doi.org/10.1111/j.1469-8137.2005.01376.x

Contacts

UNITE Community
originator
EE
homepage: https://unite.ut.ee

Kessy Abarenkov
metadata author
EE
email: kessy.abarenkov@ut.ee

Kessy Abarenkov
administrative point of contact
EE
email: kessy.abarenkov@ut.ee