The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered

Kessy Abarenkov; R. Henrik Nilsson; Karl-Henrik Larsson; Andy F. S. Taylor; Tom W. May; Tobias Guldberg Froslev; Julia Pawlowska; Bjoern Lindahl; Kadri Poldmaa; Camille Truong; Duong Vu; Tsuyoshi Hosoya; Tuula Niskanen; Timo Piirmann; Filipp Ivanov; Allan Zirk; Marko Peterson; Tanya E. Cheeke; Yui Ishigami; Arnold Tobias Jansson; Thomas Stjernegaard Jeppesen; Erik Kristiansson; Vladimir Mikryukov; Joseph T. Miller; Ryoko Oono; Francisco J. Ossandon; Joana Pauperio; Irja Saar; Dmitry Schigel; Ave Suija; Leho Tedersoo; Urmas Koljalg

doi:10.1093/nar/gkad1039

The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered

Kessy Abarenkov
, R. Henrik Nilsson
, Karl-Henrik Larsson
, Andy F. S. Taylor
, Tom W. May
, Tobias Guldberg Froslev
, Julia Pawlowska
, Bjoern Lindahl
, Kadri Poldmaa
, Camille Truong
, Duong Vu
, Tsuyoshi Hosoya
, Tuula Niskanen
, Timo Piirmann
, Filipp Ivanov
, Allan Zirk
, Marko Peterson
, Tanya E. Cheeke
, Yui Ishigami
, Arnold Tobias Jansson

Thomas Stjernegaard Jeppesen, Erik Kristiansson, Vladimir Mikryukov, Joseph T. Miller, Ryoko Oono, Francisco J. Ossandon, Joana Pauperio, Irja Saar, Dmitry Schigel, Ave Suija, Leho Tedersoo, Urmas Koljalg

Department of Soil and Environment

Publication: Contribution to journal › Journal article › peer-review

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Abstract

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 similar to 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.

Original language	English
Pages (from-to)	D791–D797
Number of pages	7
Journal	Nucleic Acids Research
Volume	52
Issue number	D1
DOIs	https://doi.org/10.1093/nar/gkad1039
Publication status	Published - 2024

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SDG 15 Life on Land

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Abarenkov, K., Nilsson, R. H., Larsson, K.-H., Taylor, A. F. S., May, T. W., Froslev, T. G., Pawlowska, J., Lindahl, B., Poldmaa, K., Truong, C., Vu, D., Hosoya, T., Niskanen, T., Piirmann, T., Ivanov, F., Zirk, A., Peterson, M., Cheeke, T. E., Ishigami, Y., ... Koljalg, U. (2024). The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered. Nucleic Acids Research, 52(D1), D791–D797. https://doi.org/10.1093/nar/gkad1039

@article{2b87be6ec04f49238a58180d46a48158,

title = "The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered",

abstract = "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 similar to 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.",

author = "Kessy Abarenkov and Nilsson, \{R. Henrik\} and Karl-Henrik Larsson and Taylor, \{Andy F. S.\} and May, \{Tom W.\} and Froslev, \{Tobias Guldberg\} and Julia Pawlowska and Bjoern Lindahl and Kadri Poldmaa and Camille Truong and Duong Vu and Tsuyoshi Hosoya and Tuula Niskanen and Timo Piirmann and Filipp Ivanov and Allan Zirk and Marko Peterson and Cheeke, \{Tanya E.\} and Yui Ishigami and Jansson, \{Arnold Tobias\} and Jeppesen, \{Thomas Stjernegaard\} and Erik Kristiansson and Vladimir Mikryukov and Miller, \{Joseph T.\} and Ryoko Oono and Ossandon, \{Francisco J.\} and Joana Pauperio and Irja Saar and Dmitry Schigel and Ave Suija and Leho Tedersoo and Urmas Koljalg",

year = "2024",

doi = "10.1093/nar/gkad1039",

language = "English",

volume = "52",

pages = "D791{\textendash}D797",

journal = "Nucleic Acids Research",

issn = "0305-1048",

publisher = "Oxford University Press",

number = "D1",

}

Abarenkov, K, Nilsson, RH, Larsson, K-H, Taylor, AFS, May, TW, Froslev, TG, Pawlowska, J, Lindahl, B, Poldmaa, 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, Pauperio, J, Saar, I, Schigel, D, Suija, A, Tedersoo, L & Koljalg, U 2024, 'The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered', Nucleic Acids Research, vol. 52, no. D1, pp. D791–D797. https://doi.org/10.1093/nar/gkad1039

TY - JOUR

T1 - The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered

AU - Abarenkov, Kessy

AU - Nilsson, R. Henrik

AU - Larsson, Karl-Henrik

AU - Taylor, Andy F. S.

AU - May, Tom W.

AU - Froslev, Tobias Guldberg

AU - Pawlowska, Julia

AU - Lindahl, Bjoern

AU - Poldmaa, Kadri

AU - Truong, Camille

AU - Vu, Duong

AU - Hosoya, Tsuyoshi

AU - Niskanen, Tuula

AU - Piirmann, Timo

AU - Ivanov, Filipp

AU - Zirk, Allan

AU - Peterson, Marko

AU - Cheeke, Tanya E.

AU - Ishigami, Yui

AU - Jansson, Arnold Tobias

AU - Jeppesen, Thomas Stjernegaard

AU - Kristiansson, Erik

AU - Mikryukov, Vladimir

AU - Miller, Joseph T.

AU - Oono, Ryoko

AU - Ossandon, Francisco J.

AU - Pauperio, Joana

AU - Saar, Irja

AU - Schigel, Dmitry

AU - Suija, Ave

AU - Tedersoo, Leho

AU - Koljalg, Urmas

PY - 2024

Y1 - 2024

N2 - 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 similar to 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.

AB - 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 similar to 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.

UR - https://res.slu.se/id/publ/127269

U2 - 10.1093/nar/gkad1039

DO - 10.1093/nar/gkad1039

M3 - Journal article

C2 - 37953409

SN - 0305-1048

VL - 52

SP - D791–D797

JO - Nucleic Acids Research

JF - Nucleic Acids Research

IS - D1

ER -

The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered

Abstract

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