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The taxon hypothesi...
The taxon hypothesis paradigm—On the unambiguous detection and communication of taxa
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- Kõljalg, U. (author)
- Univ Tartu, Nat Hist Museum, 14a Ravila, EE-50411 Tartu, Estonia.;Univ Tartu, Inst Ecol & Earth Sci, 14a Ravila, EE-50411 Tartu, Estonia.
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- Nilsson, R. Henrik, 1976 (author)
- Gothenburg University,Göteborgs universitet,Institutionen för biologi och miljövetenskap,Department of Biological and Environmental Sciences,Univ Gothenburg, Gothenburg Global Biodivers Ctr, Dept Biol & Environm Sci, Box 461, S-40530 Gothenburg, Sweden.
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- Schigel, D. (author)
- Global Biodivers Informat Facil, DK-2100 Copenhagen, Denmark.
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- Tedersoo, L. (author)
- Univ Tartu, Inst Ecol & Earth Sci, 14a Ravila, EE-50411 Tartu, Estonia.
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- Larsson, Karl-Henrik, 1948 (author)
- Gothenburg University,Göteborgs universitet,Institutionen för biologi och miljövetenskap,Department of Biological and Environmental Sciences,Univ Gothenburg, Gothenburg Global Biodivers Ctr, Dept Biol & Environm Sci, Box 461, S-40530 Gothenburg, Sweden.
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- May, T. W. (author)
- Royal Bot Gardens Victoria, Birdwood Ave, Melbourne, Vic 3004, Australia.
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- Taylor, A. F. S. (author)
- James Hutton Inst, Aberdeen AB15 8QH, Scotland.;Univ Aberdeen, Inst Biol & Environm Sci, Cruickshank Bldg,St Machar Dr, Aberdeen AB24 3UU, Scotland.,Univ Tartu, Nat Hist Museum, 14a Ravila, EE-50411 Tartu, Estonia.;Univ Tartu, Inst Ecol & Earth Sci, 14a Ravila, EE-50411 Tartu, Estonia.
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- Jeppesen, T. S. (author)
- Global Biodivers Informat Facil, DK-2100 Copenhagen, Denmark.
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- Frøslev, T. G. (author)
- Univ Copenhagen, GLOBE Inst, Oster Voldgade 5-7, DK-1350 Copenhagen, Denmark.
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- Lindahl, B. D. (author)
- Uppsala universitet,Systematisk biologi
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- Põldmaa, K. (author)
- Univ Tartu, Nat Hist Museum, 14a Ravila, EE-50411 Tartu, Estonia.;Univ Tartu, Inst Ecol & Earth Sci, 14a Ravila, EE-50411 Tartu, Estonia.
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- Saar, I. (author)
- Univ Tartu, Inst Ecol & Earth Sci, 14a Ravila, EE-50411 Tartu, Estonia.
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Suija, A. (author)
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Savchenko, A. (author)
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- Yatsiuk, I. (author)
- Univ Tartu, Inst Ecol & Earth Sci, 14a Ravila, EE-50411 Tartu, Estonia.
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- Adojaan, K. (author)
- Univ Tartu, Nat Hist Museum, 14a Ravila, EE-50411 Tartu, Estonia.
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- Ivanov, F. (author)
- Univ Tartu, Nat Hist Museum, 14a Ravila, EE-50411 Tartu, Estonia.
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- Piirmann, T. (author)
- Univ Tartu, Nat Hist Museum, 14a Ravila, EE-50411 Tartu, Estonia.
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- Pöhönen, R. (author)
- Univ Tartu, Nat Hist Museum, 14a Ravila, EE-50411 Tartu, Estonia.
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- Zirk, A. (author)
- Univ Tartu, Nat Hist Museum, 14a Ravila, EE-50411 Tartu, Estonia.
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- Abarenkov, K. (author)
- Univ Tartu, Nat Hist Museum, 14a Ravila, EE-50411 Tartu, Estonia.
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Univ Tartu, Nat Hist Museum, 14a Ravila, EE-50411 Tartu, Estonia;Univ Tartu, Inst Ecol & Earth Sci, 14a Ravila, EE-50411 Tartu, Estonia. Institutionen för biologi och miljövetenskap (creator_code:org_t)
- 2020-11-30
- 2020
- English.
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In: Microorganisms. - : MDPI AG. - 2076-2607. ; 8:12
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https://doi.org/10.3...
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https://uu.diva-port... (primary) (Raw object)
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Abstract
Subject headings
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- Here, we describe the taxon hypothesis (TH) paradigm, which covers the construction, identification, and communication of taxa as datasets. Defining taxa as datasets of individuals and their traits will make taxon identification and most importantly communication of taxa precise and reproducible. This will allow datasets with standardized and atomized traits to be used digitally in identification pipelines and communicated through persistent identifiers. Such datasets are particularly useful in the context of formally undescribed or even physically undiscovered species if data such as sequences from samples of environmental DNA (eDNA) are available. Implementing the TH paradigm will to some extent remove the impediment to hastily discover and formally describe all extant species in that the TH paradigm allows discovery and communication of new species and other taxa also in the absence of formal descriptions. The TH datasets can be connected to a taxonomic backbone providing access to the vast information associated with the tree of life. In parallel to the description of the TH paradigm, we demonstrate how it is implemented in the UNITE digital taxon communication system. UNITE TH datasets include rich data on individuals and their rDNA ITS sequences. These datasets are equipped with digital object identifiers (DOI) that serve to fix their identity in our communication. All datasets are also connected to a GBIF taxonomic backbone. Researchers processing their eDNA samples using UNITE datasets will, thus, be able to publish their findings as taxon occurrences in the GBIF data portal. UNITE species hypothesis (species level THs) datasets are increasingly utilized in taxon identification pipelines and even formally undescribed species can be identified and communicated by using UNITE. The TH paradigm seeks to achieve unambiguous, unique, and traceable communication of taxa and their properties at any level of the tree of life. It offers a rapid way to discover and communicate undescribed species in identification pipelines and data portals before they are lost to the sixth mass extinction. © 2020 by the authors. Licensee MDPI, Basel, Switzerland.
Subject headings
- NATURVETENSKAP -- Biologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences (hsv//eng)
- NATURVETENSKAP -- Biologi -- Biologisk systematik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biological Systematics (hsv//eng)
Keyword
- Biodiversity informatics
- Discovery of species
- DNA taxonomy
- Metabarcoding
- Microbial species
- Species hypotheses
- Taxon hypotheses
- Taxonomy
- microbial species
Publication and Content Type
- ref (subject category)
- art (subject category)
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To the university's database
- By the author/editor
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Kõljalg, U.
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Nilsson, R. Henr ...
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Schigel, D.
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Tedersoo, L.
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Larsson, Karl-He ...
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May, T. W.
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show more...
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Taylor, A. F. S.
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Jeppesen, T. S.
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Frøslev, T. G.
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Lindahl, B. D.
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Põldmaa, K.
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Saar, I.
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Suija, A.
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Savchenko, A.
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Yatsiuk, I.
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Adojaan, K.
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Ivanov, F.
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Piirmann, T.
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Pöhönen, R.
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Zirk, A.
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Abarenkov, K.
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show less...
- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Biological Syste ...
- Articles in the publication
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Microorganisms
- By the university
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University of Gothenburg
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Uppsala University