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The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications
Open accessAbstract
UNITE (https://unite.ut.ee/) is a web-based database and sequence management environment for the molecular identification of fungi. It targets the formal fungal barcode-the nuclear ribosomal internal transcribed spacer (ITS) region-and offers all ∼1 000 000 public fungal ITS sequences for reference. These are clustered into ∼459 000 species hypotheses and assigned digital object identifiers (DOIs) to promote unambiguous reference across studies. In-house and web-based third-party sequence curation and annotation have resulted in more than 275 000 improvements to the data over the past 15 years. UNITE serves as a data provider for a range of metabarcoding software pipelines and regularly exchanges data with all major fungal sequence databases and other community resources. Recent improvements include redesigned handling of unclassifiable species hypotheses, integration with the taxonomic backbone of the Global Biodiversity Information Facility, and support for an unlimited number of parallel taxonomic classification systems.
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Citations
Cites
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Self-citationImproved tools for biological sequence comparison.
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“Sequences from type material (e.g. GenBank RefSeq Loci; 22) are used to inform the taxonomic annotation of similar sequences.”
Method
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MGnify: the microbiome analysis resource in 2020
Mitchell, A. L., Almeida, A., Beracochea, M., Boland, M., Burgin, J., Cochrane, G., Crusoe, M. R., Kale, V., Potter, S. C., Richardson, L. J., et al. (2019) · Nucleic Acids Research · doi:10.1093/nar/gkz1035 · Cited by 562
Pan-cancer analyses reveal cancer-type-specific fungal ecologies and bacteriome interactions
Narunsky-Haziza, L., Sepich-Poore, G. D., Livyatan, I., Asraf, O., Martino, C., Nejman, D., Gavert, N., Stajich, J. E., Amit, G., González, A., et al. (2022) · Cell · doi:10.1016/j.cell.2022.09.005 · Cited by 538
Reduction of microbial diversity in grassland soil is driven by long-term climate warming
Wu, L., Zhang, Y., Guo, X., Ning, D., Zhou, X., Feng, J., Yuan, M. M., Liu, S., Guo, J., Gao, Z., et al. (2022) · Nature Microbiology · doi:10.1038/s41564-022-01147-3 · Cited by 404
Pérez-Cobas, A. E., Gomez-Valero, L., & Buchrieser, C. (2020) · Microbial Genomics · doi:10.1099/mgen.0.000409 · Cited by 314
Root microbiota assembly and adaptive differentiation among European Arabidopsis populations
Thiergart, T., Durán, P., Ellis, T., Vannier, N., Garrido-Oter, R., Kemen, E., Roux, F., Alonso-Blanco, C., Ågren, J., Schulze-Lefert, P., et al. (2019) · Nature Ecology & Evolution · doi:10.1038/s41559-019-1063-3 · Cited by 282
Metadata
- Authors
- Nilsson, R. H., Larsson, K.-H., Taylor, A. F. S., Bengtsson-Palme, J., Jeppesen, T. S., Schigel, D., Kennedy, P., Picard, K., Glöckner, F. O., Tedersoo, L., Saar, I., Kõljalg, U., & Abarenkov, K.
- Venue
- Nucleic Acids Research
- Publisher
- Oxford University Press (OUP)
- Published
- 2018-10-29
- Volume
- 47
- Issue
- D1
- Pages
- D259-D264
- ISSN
- 0305-1048 (ISSN-L)
- 1362-4962
- OpenAlex
- W2900030356
- Cited by
- 3,530
- References
- 6
- FWCI
- 176.80
- Type
- journal article
- Language
- en
- Open access
- gold
- Funders
- Alfred P. Sloan Foundation (G-2015-14062)
- Swedish Research Council of Environment, Agricultural Sciences, and Spatial Planning (215-2011-498)
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- Nilsson, R. H., Larsson, K.-H., Taylor, A. F. S., Bengtsson-Palme, J., Jeppesen, T. S., Schigel, D., Kennedy, P., Picard, K., Glöckner, F. O., Tedersoo, L., Saar, I., Kõljalg, U., & Abarenkov, K. (2019). The UNITE database for molecular identification of fungi: handling dark taxa and parallel taxonomic classifications. Nucleic Acids Research. https://doi.org/10.1093/nar/gky1022
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