The Global Soil Mycobiome consortium dataset for boosting fungal diversity research

Leho Tedersoo; Vladimir Mikryukov; Sten Anslan; Mohammad Bahram; Abdul Nasir Khalid; Adriana Corrales; Ahto Agan; Aída M. Vasco-Palacios; Alessandro Saitta; Alexandre Antonelli; Andrea C. Rinaldi; Annemieke Verbeken; Bobby P. Sulistyo; Boris Tamgnoue; Brendan Furneaux; Camila Duarte Ritter; Casper Nyamukondiwa; Cathy Sharp; César Marín; D. Q. Dai; Daniyal Gohar; Dipon Sharmah; Elisabeth Machteld Biersma; Erin K. Cameron; Eske De Crop; Eveli Otsing; Evgeny A. Davydov; Felipe E. Albornoz; Francis Q. Brearley; Franz Buegger; Genevieve Gates; Geoffrey Zahn; Gregory Bonito; Indrek Hiiesalu; Inga Hiiesalu; Irma Zettur; Isabel C. Barrio; Jaan Pärn; Jacob Heilmann-Clausen; Jelena Ankuda; John Y. Kupagme; Joosep Sarapuu; Jose G. Maciá-Vicente; Joseph Djeugap Fovo; József Geml; Juha M. Alatalo; Julieta Alvarez-Manjarrez; Jutamart Monkai; Kadri Põldmaa; Kadri Runnel; Kalev Adamson; Kari A. Bråthen; Karin Pritsch; Kassim I. Tchan; Kęstutis Armolaitis; Kevin D. Hyde; Kevin K. Newsham; Kristel Panksep; Lateef A. Adebola; Louis J. Lamit; Malka Saba; Marcela E. da Silva Cáceres; Maria Tuomi; Marieka Gryzenhout; Marijn Bauters; Miklós Bálint; Nalin Wijayawardene; Niloufar Hagh-Doust; Nourou S. Yorou; Olavi Kurina; Peter E. Mortimer; Peter Meidl; R. Henrik Nilsson; Rasmus Puusepp; Rebeca Casique-Valdés; Rein Drenkhan; Roberto Garibay-Orijel; Roberto Godoy; Saleh Alfarraj; Saleh Rahimlou; Sergei Põlme; Sergey V. Dudov; Sunil Mundra; Talaat Ahmed; Tarquin Netherway; Terry W. Henkel; Tomas Roslin; Vladimir E. Fedosov; Vladimir G. Onipchenko; W. A.Erandi Yasanthika; Young Woon Lim; Meike Piepenbring; Darta Klavina; Urmas Kõljalg; Kessy Abarenkov

doi:10.1007/s13225-021-00493-7

The Global Soil Mycobiome consortium dataset for boosting fungal diversity research

Leho Tedersoo^*
, Vladimir Mikryukov
, Sten Anslan
, Mohammad Bahram
, Abdul Nasir Khalid
, Adriana Corrales
, Ahto Agan
, Aída M. Vasco-Palacios
, Alessandro Saitta
, Alexandre Antonelli
, Andrea C. Rinaldi
, Annemieke Verbeken
, Bobby P. Sulistyo
, Boris Tamgnoue
, Brendan Furneaux
, Camila Duarte Ritter
, Casper Nyamukondiwa
, Cathy Sharp
, César Marín
, D. Q. Dai

Daniyal Gohar, Dipon Sharmah, Elisabeth Machteld Biersma, Erin K. Cameron, Eske De Crop, Eveli Otsing, Evgeny A. Davydov, Felipe E. Albornoz, Francis Q. Brearley, Franz Buegger, Genevieve Gates, Geoffrey Zahn, Gregory Bonito, Indrek Hiiesalu, Inga Hiiesalu, Irma Zettur, Isabel C. Barrio, Jaan Pärn, Jacob Heilmann-Clausen, Jelena Ankuda, John Y. Kupagme, Joosep Sarapuu, Jose G. Maciá-Vicente, Joseph Djeugap Fovo, József Geml, Juha M. Alatalo, Julieta Alvarez-Manjarrez, Jutamart Monkai, Kadri Põldmaa, Kadri Runnel, Kalev Adamson, Kari A. Bråthen, Karin Pritsch, Kassim I. Tchan, Kęstutis Armolaitis, Kevin D. Hyde, Kevin K. Newsham, Kristel Panksep, Lateef A. Adebola, Louis J. Lamit, Malka Saba, Marcela E. da Silva Cáceres, Maria Tuomi, Marieka Gryzenhout, Marijn Bauters, Miklós Bálint, Nalin Wijayawardene, Niloufar Hagh-Doust, Nourou S. Yorou, Olavi Kurina, Peter E. Mortimer, Peter Meidl, R. Henrik Nilsson, Rasmus Puusepp, Rebeca Casique-Valdés, Rein Drenkhan, Roberto Garibay-Orijel, Roberto Godoy, Saleh Alfarraj, Saleh Rahimlou, Sergei Põlme, Sergey V. Dudov, Sunil Mundra, Talaat Ahmed, Tarquin Netherway, Terry W. Henkel, Tomas Roslin, Vladimir E. Fedosov, Vladimir G. Onipchenko, W. A.Erandi Yasanthika, Young Woon Lim, Meike Piepenbring, Darta Klavina, Urmas Kõljalg, Kessy Abarenkov

^*Corresponding author for this work

Mycology and Microbiology Center
University of Tartu
Department of Ecology
Swedish University of Agricultural Sciences
Department of Botany
University of the Punjab
Centro de Investigaciones en Microbiología y Biotecnología-UR (CIMBIUR)
Universidad del Rosario
Grupo de Microbiología Ambiental y BioMicro
Universidad de Antioquia
Department of Agricultural
University of Palermo
Royal Botanic Gardens, Kew
Department of Biomedical Sciences
University of Cagliari
Department Biology
Ghent University
Department of Biomedicine
Indonesia International Institute for Life Sciences
Plant Pathology and Agricultural Zoology Research Unit
Université de Dschang
Department of Ecology and Genetics
Uppsala University
Eukaryotic Microbiology
University of Duisburg-Essen
Department of Biological Sciences and Biotechnology
Botswana International University of Science and Technology
Natural History Museum of Zimbabwe
Czech Academy of Sciences
Center for Yunnan Plateau Biological Resources Protection and Utilization
Qujing Normal University
Department of Botany
Pondicherry University
British Antarctic Survey
University of Copenhagen
Department of Environmental Science
Saint Mary's University Halifax
Altai State University
CSIRO
Department of Natural Sciences
Manchester Metropolitan University
Helmholtz Zentrum München - German Research Center for Environmental Health
University of Tasmania
Biology Department
Utah Valley University
Michigan State University
Faculty of Environmental and Forest Sciences
Agricultural University of Iceland
Center for Macroecology
Department of Silviculture and Ecology
Lithuanian Research Centre for Agriculture and Forestry
Plant Ecology and Nature Conservation
Wageningen University & Research
Eszterhazy Karoly University
Qatar University
Instituto de Geología
Universidad Nacional Autónoma de México
Mae Fah Luang University
Institute of Forestry and Engineering
Estonian University of Life Sciences
Department of Arctic and Marine Biology
University of Tromsø – The Arctic University of Norway
Research Unit Tropical Mycology and Plant-Soil Fungi Interactions
Université de Parakou
Hydrobiology and Fishery
Department of Plant Biology
University of Ilorin
Department of Biology
Syracuse University
Department of Environmental and Forest Biology
SUNY College of Environmental Science and Forestry
Department of Plant Sciences
Quaid-I-Azam University
Departamento de Biociências
Universidade Federal de Sergipe
Department of Genetics
University of The Free State
Department of Environment
LOEWE Centre for Translational Biodiversity Genomics
Faculty of Agronomy
Institute of Agricultural and Environmental Sciences
CAS - Kunming Institute of Botany
Department of Biological and Environmental Sciences
University of Gothenburg
Instituto de Ciencias y Humanidades Lic. Salvador González Lobo
Universidad Autonoma de Coahuila
Instituto de Biología
Instituto Ciencias Ambientales y Evolutivas
Universidad Austral de Chile
Zoology Department
King Saud University
Department of Ecology and Plant Geography
Lomonosov Moscow State University
Department of Biology
United Arab Emirates University
Department of Biological Sciences
California State Polytechnic University, Humboldt
Botanical Garden-Institute FEB RAS
Seoul National University
Seoul National University
Goethe University Frankfurt
Latvian State Forest Research Institute Silava

Research output: Contribution to journal › Article › peer-review

153 Citations (Scopus)

Abstract

Fungi are highly important biotic components of terrestrial ecosystems, but we still have a very limited understanding about their diversity and distribution. This data article releases a global soil fungal dataset of the Global Soil Mycobiome consortium (GSMc) to boost further research in fungal diversity, biogeography and macroecology. The dataset comprises 722,682 fungal operational taxonomic units (OTUs) derived from PacBio sequencing of full-length ITS and 18S-V9 variable regions from 3200 plots in 108 countries on all continents. The plots are supplied with geographical and edaphic metadata. The OTUs are taxonomically and functionally assigned to guilds and other functional groups. The entire dataset has been corrected by excluding chimeras, index-switch artefacts and potential contamination. The dataset is more inclusive in terms of geographical breadth and phylogenetic diversity of fungi than previously published data. The GSMc dataset is available over the PlutoF repository.

Original language	English
Pages (from-to)	573-588
Number of pages	16
Journal	Fungal Diversity
Volume	111
Issue number	1
DOIs	https://doi.org/10.1007/s13225-021-00493-7
Publication status	Published - Nov 2021
Externally published	Yes

Keywords

Fungal richness
Global dataset
PacBio sequencing
Soil fungi

Access to Document

10.1007/s13225-021-00493-7

Cite this

Tedersoo, L., Mikryukov, V., Anslan, S., Bahram, M., Khalid, A. N., Corrales, A., Agan, A., Vasco-Palacios, A. M., Saitta, A., Antonelli, A., Rinaldi, A. C., Verbeken, A., Sulistyo, B. P., Tamgnoue, B., Furneaux, B., Ritter, C. D., Nyamukondiwa, C., Sharp, C., Marín, C., ... Abarenkov, K. (2021). The Global Soil Mycobiome consortium dataset for boosting fungal diversity research. Fungal Diversity, 111(1), 573-588. https://doi.org/10.1007/s13225-021-00493-7

@article{082cc540dad74c44974a22d050a2354b,

title = "The Global Soil Mycobiome consortium dataset for boosting fungal diversity research",

abstract = "Fungi are highly important biotic components of terrestrial ecosystems, but we still have a very limited understanding about their diversity and distribution. This data article releases a global soil fungal dataset of the Global Soil Mycobiome consortium (GSMc) to boost further research in fungal diversity, biogeography and macroecology. The dataset comprises 722,682 fungal operational taxonomic units (OTUs) derived from PacBio sequencing of full-length ITS and 18S-V9 variable regions from 3200 plots in 108 countries on all continents. The plots are supplied with geographical and edaphic metadata. The OTUs are taxonomically and functionally assigned to guilds and other functional groups. The entire dataset has been corrected by excluding chimeras, index-switch artefacts and potential contamination. The dataset is more inclusive in terms of geographical breadth and phylogenetic diversity of fungi than previously published data. The GSMc dataset is available over the PlutoF repository.",

keywords = "Fungal richness, Global dataset, PacBio sequencing, Soil fungi",

author = "Leho Tedersoo and Vladimir Mikryukov and Sten Anslan and Mohammad Bahram and Khalid, \{Abdul Nasir\} and Adriana Corrales and Ahto Agan and Vasco-Palacios, \{A{\'i}da M.\} and Alessandro Saitta and Alexandre Antonelli and Rinaldi, \{Andrea C.\} and Annemieke Verbeken and Sulistyo, \{Bobby P.\} and Boris Tamgnoue and Brendan Furneaux and Ritter, \{Camila Duarte\} and Casper Nyamukondiwa and Cathy Sharp and C{\'e}sar Mar{\'i}n and Dai, \{D. Q.\} and Daniyal Gohar and Dipon Sharmah and Biersma, \{Elisabeth Machteld\} and Cameron, \{Erin K.\} and \{De Crop\}, Eske and Eveli Otsing and Davydov, \{Evgeny A.\} and Albornoz, \{Felipe E.\} and Brearley, \{Francis Q.\} and Franz Buegger and Genevieve Gates and Geoffrey Zahn and Gregory Bonito and Indrek Hiiesalu and Inga Hiiesalu and Irma Zettur and Barrio, \{Isabel C.\} and Jaan P{\"a}rn and Jacob Heilmann-Clausen and Jelena Ankuda and Kupagme, \{John Y.\} and Joosep Sarapuu and Maci{\'a}-Vicente, \{Jose G.\} and Fovo, \{Joseph Djeugap\} and J{\'o}zsef Geml and Alatalo, \{Juha M.\} and Julieta Alvarez-Manjarrez and Jutamart Monkai and Kadri P{\~o}ldmaa and Kadri Runnel and Kalev Adamson and Br{\aa}then, \{Kari A.\} and Karin Pritsch and Tchan, \{Kassim I.\} and K{\c e}stutis Armolaitis and Hyde, \{Kevin D.\} and Newsham, \{Kevin K.\} and Kristel Panksep and Adebola, \{Lateef A.\} and Lamit, \{Louis J.\} and Malka Saba and \{da Silva C{\'a}ceres\}, \{Marcela E.\} and Maria Tuomi and Marieka Gryzenhout and Marijn Bauters and Mikl{\'o}s B{\'a}lint and Nalin Wijayawardene and Niloufar Hagh-Doust and Yorou, \{Nourou S.\} and Olavi Kurina and Mortimer, \{Peter E.\} and Peter Meidl and Nilsson, \{R. Henrik\} and Rasmus Puusepp and Rebeca Casique-Vald{\'e}s and Rein Drenkhan and Roberto Garibay-Orijel and Roberto Godoy and Saleh Alfarraj and Saleh Rahimlou and Sergei P{\~o}lme and Dudov, \{Sergey V.\} and Sunil Mundra and Talaat Ahmed and Tarquin Netherway and Henkel, \{Terry W.\} and Tomas Roslin and Fedosov, \{Vladimir E.\} and Onipchenko, \{Vladimir G.\} and Yasanthika, \{W. A.Erandi\} and Lim, \{Young Woon\} and Meike Piepenbring and Darta Klavina and Urmas K{\~o}ljalg and Kessy Abarenkov",

note = "Publisher Copyright: {\textcopyright} 2021, MUSHROOM RESEARCH FOUNDATION.",

year = "2021",

month = nov,

doi = "10.1007/s13225-021-00493-7",

language = "English",

volume = "111",

pages = "573--588",

journal = "Fungal Diversity",

issn = "1560-2745",

publisher = "Springer Nature",

number = "1",

}

Tedersoo, L, Mikryukov, V, Anslan, S, Bahram, M, Khalid, AN, Corrales, A, Agan, A, Vasco-Palacios, AM, Saitta, A, Antonelli, A, Rinaldi, AC, Verbeken, A, Sulistyo, BP, Tamgnoue, B, Furneaux, B, Ritter, CD, Nyamukondiwa, C, Sharp, C, Marín, C, Dai, DQ, Gohar, D, Sharmah, D, Biersma, EM, Cameron, EK, De Crop, E, Otsing, E, Davydov, EA, Albornoz, FE, Brearley, FQ, Buegger, F, Gates, G, Zahn, G, Bonito, G, Hiiesalu, I, Hiiesalu, I, Zettur, I, Barrio, IC, Pärn, J, Heilmann-Clausen, J, Ankuda, J, Kupagme, JY, Sarapuu, J, Maciá-Vicente, JG, Fovo, JD, Geml, J, Alatalo, JM, Alvarez-Manjarrez, J, Monkai, J, Põldmaa, K, Runnel, K, Adamson, K, Bråthen, KA, Pritsch, K, Tchan, KI, Armolaitis, K, Hyde, KD, Newsham, KK, Panksep, K, Adebola, LA, Lamit, LJ, Saba, M, da Silva Cáceres, ME, Tuomi, M, Gryzenhout, M, Bauters, M, Bálint, M, Wijayawardene, N, Hagh-Doust, N, Yorou, NS, Kurina, O, Mortimer, PE, Meidl, P, Nilsson, RH, Puusepp, R, Casique-Valdés, R, Drenkhan, R, Garibay-Orijel, R, Godoy, R, Alfarraj, S, Rahimlou, S, Põlme, S, Dudov, SV, Mundra, S, Ahmed, T, Netherway, T, Henkel, TW, Roslin, T, Fedosov, VE, Onipchenko, VG, Yasanthika, WAE, Lim, YW, Piepenbring, M, Klavina, D, Kõljalg, U & Abarenkov, K 2021, 'The Global Soil Mycobiome consortium dataset for boosting fungal diversity research', Fungal Diversity, vol. 111, no. 1, pp. 573-588. https://doi.org/10.1007/s13225-021-00493-7

TY - JOUR

T1 - The Global Soil Mycobiome consortium dataset for boosting fungal diversity research

AU - Tedersoo, Leho

AU - Mikryukov, Vladimir

AU - Anslan, Sten

AU - Bahram, Mohammad

AU - Khalid, Abdul Nasir

AU - Corrales, Adriana

AU - Agan, Ahto

AU - Vasco-Palacios, Aída M.

AU - Saitta, Alessandro

AU - Antonelli, Alexandre

AU - Rinaldi, Andrea C.

AU - Verbeken, Annemieke

AU - Sulistyo, Bobby P.

AU - Tamgnoue, Boris

AU - Furneaux, Brendan

AU - Ritter, Camila Duarte

AU - Nyamukondiwa, Casper

AU - Sharp, Cathy

AU - Marín, César

AU - Dai, D. Q.

AU - Gohar, Daniyal

AU - Sharmah, Dipon

AU - Biersma, Elisabeth Machteld

AU - Cameron, Erin K.

AU - De Crop, Eske

AU - Otsing, Eveli

AU - Davydov, Evgeny A.

AU - Albornoz, Felipe E.

AU - Brearley, Francis Q.

AU - Buegger, Franz

AU - Gates, Genevieve

AU - Zahn, Geoffrey

AU - Bonito, Gregory

AU - Hiiesalu, Indrek

AU - Hiiesalu, Inga

AU - Zettur, Irma

AU - Barrio, Isabel C.

AU - Pärn, Jaan

AU - Heilmann-Clausen, Jacob

AU - Ankuda, Jelena

AU - Kupagme, John Y.

AU - Sarapuu, Joosep

AU - Maciá-Vicente, Jose G.

AU - Fovo, Joseph Djeugap

AU - Geml, József

AU - Alatalo, Juha M.

AU - Alvarez-Manjarrez, Julieta

AU - Monkai, Jutamart

AU - Põldmaa, Kadri

AU - Runnel, Kadri

AU - Adamson, Kalev

AU - Bråthen, Kari A.

AU - Pritsch, Karin

AU - Tchan, Kassim I.

AU - Armolaitis, Kęstutis

AU - Hyde, Kevin D.

AU - Newsham, Kevin K.

AU - Panksep, Kristel

AU - Adebola, Lateef A.

AU - Lamit, Louis J.

AU - Saba, Malka

AU - da Silva Cáceres, Marcela E.

AU - Tuomi, Maria

AU - Gryzenhout, Marieka

AU - Bauters, Marijn

AU - Bálint, Miklós

AU - Wijayawardene, Nalin

AU - Hagh-Doust, Niloufar

AU - Yorou, Nourou S.

AU - Kurina, Olavi

AU - Mortimer, Peter E.

AU - Meidl, Peter

AU - Nilsson, R. Henrik

AU - Puusepp, Rasmus

AU - Casique-Valdés, Rebeca

AU - Drenkhan, Rein

AU - Garibay-Orijel, Roberto

AU - Godoy, Roberto

AU - Alfarraj, Saleh

AU - Rahimlou, Saleh

AU - Põlme, Sergei

AU - Dudov, Sergey V.

AU - Mundra, Sunil

AU - Ahmed, Talaat

AU - Netherway, Tarquin

AU - Henkel, Terry W.

AU - Roslin, Tomas

AU - Fedosov, Vladimir E.

AU - Onipchenko, Vladimir G.

AU - Yasanthika, W. A.Erandi

AU - Lim, Young Woon

AU - Piepenbring, Meike

AU - Klavina, Darta

AU - Kõljalg, Urmas

AU - Abarenkov, Kessy

PY - 2021/11

Y1 - 2021/11

N2 - Fungi are highly important biotic components of terrestrial ecosystems, but we still have a very limited understanding about their diversity and distribution. This data article releases a global soil fungal dataset of the Global Soil Mycobiome consortium (GSMc) to boost further research in fungal diversity, biogeography and macroecology. The dataset comprises 722,682 fungal operational taxonomic units (OTUs) derived from PacBio sequencing of full-length ITS and 18S-V9 variable regions from 3200 plots in 108 countries on all continents. The plots are supplied with geographical and edaphic metadata. The OTUs are taxonomically and functionally assigned to guilds and other functional groups. The entire dataset has been corrected by excluding chimeras, index-switch artefacts and potential contamination. The dataset is more inclusive in terms of geographical breadth and phylogenetic diversity of fungi than previously published data. The GSMc dataset is available over the PlutoF repository.

AB - Fungi are highly important biotic components of terrestrial ecosystems, but we still have a very limited understanding about their diversity and distribution. This data article releases a global soil fungal dataset of the Global Soil Mycobiome consortium (GSMc) to boost further research in fungal diversity, biogeography and macroecology. The dataset comprises 722,682 fungal operational taxonomic units (OTUs) derived from PacBio sequencing of full-length ITS and 18S-V9 variable regions from 3200 plots in 108 countries on all continents. The plots are supplied with geographical and edaphic metadata. The OTUs are taxonomically and functionally assigned to guilds and other functional groups. The entire dataset has been corrected by excluding chimeras, index-switch artefacts and potential contamination. The dataset is more inclusive in terms of geographical breadth and phylogenetic diversity of fungi than previously published data. The GSMc dataset is available over the PlutoF repository.

KW - Fungal richness

KW - Global dataset

KW - PacBio sequencing

KW - Soil fungi

UR - https://www.scopus.com/pages/publications/85120358779

U2 - 10.1007/s13225-021-00493-7

DO - 10.1007/s13225-021-00493-7

M3 - Article

AN - SCOPUS:85120358779

SN - 1560-2745

VL - 111

SP - 573

EP - 588

JO - Fungal Diversity

JF - Fungal Diversity

IS - 1

ER -

The Global Soil Mycobiome consortium dataset for boosting fungal diversity research

Abstract

Keywords

Access to Document

Other files and links

Fingerprint

Cite this