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5. Global richness of arbuscular mycorrhizal fungi

Author

Lutz, Stefanie, Mikryukov, Vladimir, Labouyrie, Maëva, Bahram, Mohammad, Jones, Arwyn, Panagos, Panos, Delgado-Baquerizo, Manuel, Maestre, Fernando T., Orgiazzi, Alberto, Tedersoo, Leho, and van der Heijden, Marcel G.A.

Published
2025
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8. Patterns in soil microbial diversity across Europe

Author

Labouyrie, Maëva, Ballabio, Cristiano, Romero, Ferran, Panagos, Panos, Jones, Arwyn, Schmid, Marc W., Mikryukov, Vladimir, Dulya, Olesya, Tedersoo, Leho, Bahram, Mohammad, Lugato, Emanuele, van der Heijden, Marcel G. A., and Orgiazzi, Alberto

Published
2023
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12. The Global Soil Mycobiome consortium dataset for boosting fungal diversity research

Author

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

Published
2021
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13. 20 years of bibliometric data illustrates a lack of concordance between journal impact factor and fungal species discovery in systematic mycology.

Author

Nilsson, R. Henrik, Jansson, Arnold Tobias, Wurzbacher, Christian, Anslan, Sten, Belford, Pauline, Corcoll, Natàlia, Dombrowski, Alexandra, Ghobad-Nejhad, Masoomeh, Gustavsson, Mikael, Gómez-Martínez, Daniela, Kalsoom Khan, Faheema, Khomich, Maryia, Lennartsdotter, Charlotte, Lund, David, Van Der Merwe, Breyten, Mikryukov, Vladimir, Peterson, Marko, Porter, Teresita M., Põlme, Sergei, and Retter, Alice

Subjects
IDENTIFICATION of fungi, MYCOLOGY, EMPLOYMENT agencies, ACADEMIC libraries, PERIODICAL publishing
Abstract

Journal impact factors were devised to qualify and compare university library holdings but are frequently repurposed for use in ranking applications, research papers, and even individual applicants in mycology and beyond. The widely held assumption that mycological studies published in journals with high impact factors add more to systematic mycology than studies published in journals without high impact factors nevertheless lacks evidential underpinning. The present study uses the species hypothesis system of the UNITE database for molecular identification of fungi and other eukaryotes to trace the publication history and impact factor of sequences uncovering new fungal species hypotheses. The data show that journal impact factors are poor predictors of discovery potential in systematic mycology. There is no clear relationship between journal impact factor and the discovery of new species hypotheses for the years 2000–2021. On the contrary, we found journals with low, and even no, impact factor to account for substantial parts of the species hypothesis landscape, often discovering new fungal taxa that are only later picked up by journals with high impact factors. Funding agencies and hiring committees that insist on upholding journal impact factors as a central funding and recruitment criterion in systematic mycology should consider using indicators such as research quality, productivity, outreach activities, review services for scientific journals, and teaching ability directly rather than using publication in high impact factor journals as a proxy for these indicators. [ABSTRACT FROM AUTHOR]

Published
2024
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14. Correction to: FungalTraits: a user friendly traits database of fungi and fungus-like stramenopiles

Author

Põlme, Sergei, Abarenkov, Kessy, Henrik Nilsson, R., Lindahl, Björn D., Clemmensen, Karina Engelbrecht, Kauserud, Havard, Nguyen, Nhu, Kjøller, Rasmus, Bates, Scott T., Baldrian, Petr, Frøslev, Tobias Guldberg, Adojaan, Kristjan, Vizzini, Alfredo, Suija, Ave, Pfister, Donald, Baral, Hans-Otto, Järv, Helle, Madrid, Hugo, Nordén, Jenni, Liu, Jian-Kui, Pawlowska, Julia, Põldmaa, Kadri, Pärtel, Kadri, Runnel, Kadri, Hansen, Karen, Larsson, Karl-Henrik, Hyde, Kevin David, Sandoval-Denis, Marcelo, Smith, Matthew E., Toome-Heller, Merje, Wijayawardene, Nalin N., Menolli, Jr., Nelson, Reynolds, Nicole K., Drenkhan, Rein, Maharachchikumbura, Sajeewa S. N., Gibertoni, Tatiana B., Læssøe, Thomas, Davis, William, Tokarev, Yuri, Corrales, Adriana, Soares, Adriene Mayra, Agan, Ahto, Machado, Alexandre Reis, Argüelles-Moyao, Andrés, Detheridge, Andrew, de Meiras-Ottoni, Angelina, Verbeken, Annemieke, Dutta, Arun Kumar, Cui, Bao-Kai, Pradeep, C. K., Marín, César, Stanton, Daniel, Gohar, Daniyal, Wanasinghe, Dhanushka N., Otsing, Eveli, Aslani, Farzad, Griffith, Gareth W., Lumbsch, Thorsten H., Grossart, Hans-Peter, Masigol, Hossein, Timling, Ina, Hiiesalu, Inga, Oja, Jane, Kupagme, John Y., Geml, József, Alvarez-Manjarrez, Julieta, Ilves, Kai, Loit, Kaire, Adamson, Kalev, Nara, Kazuhide, Küngas, Kati, Rojas-Jimenez, Keilor, Bitenieks, Krišs, Irinyi, László, Nagy, László G., Soonvald, Liina, Zhou, Li-Wei, Wagner, Lysett, Aime, M. Catherine, Öpik, Maarja, Mujica, María Isabel, Metsoja, Martin, Ryberg, Martin, Vasar, Martti, Murata, Masao, Nelsen, Matthew P., Cleary, Michelle, Samarakoon, Milan C., Doilom, Mingkwan, Bahram, Mohammad, Hagh-Doust, Niloufar, Dulya, Olesya, Johnston, Peter, Kohout, Petr, Chen, Qian, Tian, Qing, Nandi, Rajasree, Amiri, Rasekh, Perera, Rekhani Hansika, dos Santos Chikowski, Renata, Mendes-Alvarenga, Renato L., Garibay-Orijel, Roberto, Gielen, Robin, Phookamsak, Rungtiwa, Jayawardena, Ruvishika S., Rahimlou, Saleh, Karunarathna, Samantha C., Tibpromma, Saowaluck, Brown, Shawn P., Sepp, Siim-Kaarel, Mundra, Sunil, Luo, Zhu-Hua, Bose, Tanay, Vahter, Tanel, Netherway, Tarquin, Yang, Teng, May, Tom, Varga, Torda, Li, Wei, Coimbra, Victor Rafael Matos, de Oliveira, Virton Rodrigo Targino, de Lima, Vitor Xavier, Mikryukov, Vladimir S., Lu, Yongzhong, Matsuda, Yosuke, Miyamoto, Yumiko, Kõljalg, Urmas, and Tedersoo, Leho

Published
2021
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18. EUKARYOME: the rRNA gene reference database for identification of all eukaryotes

Author

Tedersoo, L., Hosseyni Moghaddam, Mahdieh S., Mikryukov, Vladimir, Hakimzadeh, Ali, Bahram, Mohammad, Nilsson, R.H., Yatsiuk, Iryna, Geisen, S.A., Schwelm, A., Piwosz, Kasia, Prous, Marko, Sildever, Sirje, Chmolowska, Dominika, Rueckert, Sonja, Skaloud, Pavel, Laas, Peeter, Tines, Marco, Jung, Jae-Ho, Choi, Ji Hye, Alkahtani, Saad, Anslan, Sten, Tedersoo, L., Hosseyni Moghaddam, Mahdieh S., Mikryukov, Vladimir, Hakimzadeh, Ali, Bahram, Mohammad, Nilsson, R.H., Yatsiuk, Iryna, Geisen, S.A., Schwelm, A., Piwosz, Kasia, Prous, Marko, Sildever, Sirje, Chmolowska, Dominika, Rueckert, Sonja, Skaloud, Pavel, Laas, Peeter, Tines, Marco, Jung, Jae-Ho, Choi, Ji Hye, Alkahtani, Saad, and Anslan, Sten

Abstract

Molecular identification of micro- and macroorganisms based on nuclear markers has revolutionized our understanding of their taxonomy, phylogeny and ecology. Today, research on the diversity of eukaryotes in global ecosystems heavily relies on nuclear ribosomal RNA (rRNA) markers. Here, we present the research community-curated reference database EUKARYOME for nuclear ribosomal 18S rRNA, internal transcribed spacer (ITS) and 28S rRNA markers for all eukaryotes, including metazoans (animals), protists, fungi and plants. It is particularly useful for the identification of arbuscular mycorrhizal fungi as it bridges the four commonly used molecular markers—ITS1, ITS2, 18S V4–V5 and 28S D1–D2 subregions. The key benefits of this database over other annotated reference sequence databases are that it is not restricted to certain taxonomic groups and it includes all rRNA markers. EUKARYOME also offers a number of reference long-read sequences that are derived from (meta)genomic and (meta)barcoding—a unique feature that can be used for taxonomic identification and chimera control of third-generation, long-read, high-throughput sequencing data. Taxonomic assignments of rRNA genes in the database are verified based on phylogenetic approaches. The reference datasets are available in multiple formats from the project homepage, http://www.eukaryome.org.

Published
2024

19. A pile of pipelines: an overview of the bioinformatics software for metabarcoding data analyses

Author

Hakimzadeh, Ali, Abdala Asbun, Alejandro, Albanese, Davide, Bernard, Maria, Buchner, Dominik, Callahan, Benjamin, Caporaso, J. Gregory, Curd, Emily, Djemiel, Christophe, Brandström Durling, Mikael, Elbrecht, Vasco, Gold, Zachary, Gweon, Hyun S., Hajibabaei, Mehrdad, Hildebrand, Falk, Mikryukov, Vladimir, Normandeau, Eric, Özkurt, Ezgi, M. Palmer, Jonathan, Pascal, Géraldine, Porter, Teresita M., Straub, Daniel, Vasar, Martti, Větrovský, Tomáš, Zafeiropoulos, Haris, Anslan, Sten, Hakimzadeh, Ali, Abdala Asbun, Alejandro, Albanese, Davide, Bernard, Maria, Buchner, Dominik, Callahan, Benjamin, Caporaso, J. Gregory, Curd, Emily, Djemiel, Christophe, Brandström Durling, Mikael, Elbrecht, Vasco, Gold, Zachary, Gweon, Hyun S., Hajibabaei, Mehrdad, Hildebrand, Falk, Mikryukov, Vladimir, Normandeau, Eric, Özkurt, Ezgi, M. Palmer, Jonathan, Pascal, Géraldine, Porter, Teresita M., Straub, Daniel, Vasar, Martti, Větrovský, Tomáš, Zafeiropoulos, Haris, and Anslan, Sten

Abstract

Environmental DNA (eDNA) metabarcoding has gained growing attention as a strategy for monitoring biodiversity in ecology. However, taxa identifications produced through metabarcoding require sophisticated processing of high-throughput sequencing data from taxonomically informative DNA barcodes. Various sets of universal and taxon-specific primers have been developed, extending the usability of metabarcoding across archaea, bacteria and eukaryotes. Accordingly, a multitude of metabarcoding data analysis tools and pipelines have also been developed. Often, several developed workflows are designed to process the same amplicon sequencing data, making it somewhat puzzling to choose one among the plethora of existing pipelines. However, each pipeline has its own specific philosophy, strengths and limitations, which should be considered depending on the aims of any specific study, as well as the bioinformatics expertise of the user. In this review, we outline the input data requirements, supported operating systems and particular attributes of thirty-two amplicon processing pipelines with the goal of helping users to select a pipeline for their metabarcoding projects.

Published
2024

20. FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles

Author

Põlme, Sergei, Abarenkov, Kessy, Henrik Nilsson, R., Lindahl, Björn D., Clemmensen, Karina Engelbrecht, Kauserud, Havard, Nguyen, Nhu, Kjøller, Rasmus, Bates, Scott T., Baldrian, Petr, Frøslev, Tobias Guldberg, Adojaan, Kristjan, Vizzini, Alfredo, Suija, Ave, Pfister, Donald, Baral, Hans-Otto, Järv, Helle, Madrid, Hugo, Nordén, Jenni, Liu, Jian-Kui, Pawlowska, Julia, Põldmaa, Kadri, Pärtel, Kadri, Runnel, Kadri, Hansen, Karen, Larsson, Karl-Henrik, Hyde, Kevin David, Sandoval-Denis, Marcelo, Smith, Matthew E., Toome-Heller, Merje, Wijayawardene, Nalin N., Menolli, Jr., Nelson, Reynolds, Nicole K., Drenkhan, Rein, Maharachchikumbura, Sajeewa S. N., Gibertoni, Tatiana B., Læssøe, Thomas, Davis, William, Tokarev, Yuri, Corrales, Adriana, Soares, Adriene Mayra, Agan, Ahto, Machado, Alexandre Reis, Argüelles-Moyao, Andrés, Detheridge, Andrew, de Meiras-Ottoni, Angelina, Verbeken, Annemieke, Dutta, Arun Kumar, Cui, Bao-Kai, Pradeep, C. K., Marín, César, Stanton, Daniel, Gohar, Daniyal, Wanasinghe, Dhanushka N., Otsing, Eveli, Aslani, Farzad, Griffith, Gareth W., Lumbsch, Thorsten H., Grossart, Hans-Peter, Masigol, Hossein, Timling, Ina, Hiiesalu, Inga, Oja, Jane, Kupagme, John Y., Geml, József, Alvarez-Manjarrez, Julieta, Ilves, Kai, Loit, Kaire, Adamson, Kalev, Nara, Kazuhide, Küngas, Kati, Rojas-Jimenez, Keilor, Bitenieks, Krišs, Irinyi, Laszlo, Nagy, László G., Soonvald, Liina, Zhou, Li-Wei, Wagner, Lysett, Aime, M. Catherine, Öpik, Maarja, Mujica, María Isabel, Metsoja, Martin, Ryberg, Martin, Vasar, Martti, Murata, Masao, Nelsen, Matthew P., Cleary, Michelle, Samarakoon, Milan C., Doilom, Mingkwan, Bahram, Mohammad, Hagh-Doust, Niloufar, Dulya, Olesya, Johnston, Peter, Kohout, Petr, Chen, Qian, Tian, Qing, Nandi, Rajasree, Amiri, Rasekh, Perera, Rekhani Hansika, dos Santos Chikowski, Renata, Mendes-Alvarenga, Renato L., Garibay-Orijel, Roberto, Gielen, Robin, Phookamsak, Rungtiwa, Jayawardena, Ruvishika S., Rahimlou, Saleh, Karunarathna, Samantha C., Tibpromma, Saowaluck, Brown, Shawn P., Sepp, Siim-Kaarel, Mundra, Sunil, Luo, Zhu-Hua, Bose, Tanay, Vahter, Tanel, Netherway, Tarquin, Yang, Teng, May, Tom, Varga, Torda, Li, Wei, Coimbra, Victor Rafael Matos, de Oliveira, Virton Rodrigo Targino, de Lima, Vitor Xavier, Mikryukov, Vladimir S., Lu, Yongzhong, Matsuda, Yosuke, Miyamoto, Yumiko, Kõljalg, Urmas, and Tedersoo, Leho

Published
2020
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22. Connecting the multiple dimensions of global soil fungal diversity

Author

Estonian Science Foundation, Estonian Research Council, Novo Nordisk Foundation, Baltic Research Cooperation Programme, King Saud University, European Commission, British Ecological Society, Ministerio de Ciencia e Innovación (España), Agencia Estatal de Investigación (España), Generalitat Valenciana, Swedish Research Council, Ghent University, Federal Ministry of Education and Research (Germany), Fondo Nacional de Desarrollo Científico y Tecnológico (Chile), Academy of Finland, National Science Foundation (US), Czech Science Foundation, Carlsberg Foundation, Qatar Petroleum, Ministry of Science and Higher Education of the Russian Federation, Universidad Nacional de Córdoba (Argentina), Yunnan Province, Leopold III-Fonds, Research Foundation - Flanders, Hungarian Academy of Sciences, Botswana International University of Science and Technology, Higher Education Commission (Pakistan), Mikryukov, Vladimir [0000-0003-2786-2690], Dulya, Olesya [0000-0002-7185-8659], Zizka, Alexander [0000-0002-1680-9192], Bahram, Mohammad [0000-0002-9539-3307], Hagh-Doust, Niloufar [0000-0003-0616-5829], Anslan, Sten [0000-0002-2299-454X], Prylutskyi, Oleh [0000-0001-5730-517X], Delgado-Baquerizo, Manuel [0000-0002-6499-576X], Maestre, Fernando T. [0000-0002-7434-4856], Nilsson, Henrik [0000-0002-8052-0107], Pärn, Jaan [0000-0001-6507-8894], Öpik, Maarja [0000-0001-8025-7460], Moora, Mari [0000-0002-4819-7506], Zobel, Martin [0000-0001-7957-6704], Espenberg, Mikk [0000-0003-0469-6394], Mander, Ülo [0000-0003-2340-6989], Khalid, Abdul Nasir [0000-0002-5635-8031], Corrales, Adriana [0000-0001-9885-4634], Agan, Ahto [0000-0001-9010-8944], Vasco-Palacios, Aída-M. [0000-0003-0539-9711], Rinaldi, Andrea [0000-0002-9352-1037], Verbeken, A. [0000-0002-6266-3091], Sulistyo, Bobby [0000-0002-5203-4822], Furneaux, Brendan [0000-0003-3522-7363], Duarte Ritter, Camila [0000-0002-3371-7425], Nyamukondiwa, Casper [0000-0002-0395-4980], Sharp, Cathy [0009-0003-4985-1543], Marín, César [0000-0002-2529-8929], Gohar, Daniyal [0000-0003-0312-1142], Klavina, Darta [0000-0002-1455-9062], Dai, Dong Qin [0000-0001-8935-8807], Nouhra, Eduardo [0000-0002-7080-8211], Machteld Biersma, Elisabeth [0000-0002-9877-2177], Rähn, Elisabeth [0009-0005-5521-4772], Cameron, Erin [0000-0002-3374-9830], Crop, Eske de [0000-0002-9067-6981], Otsing. Eveli [0000-0001-7416-257X], Albornoz, Felipe [0000-0001-9526-0945], Brearley, Francis [0000-0001-5053-5693], Buegger, Franz [0000-0003-3526-4711], Zahn, Geoffrey [0000-0002-8691-692X], Bonito, Gregory [0000-0002-7262-8978], Hiiesalu, Inga [0000-0002-5457-2376], Barrio, Isabel [0000-0002-8120-5248], Heilmann-Clausen, Jacob [0000-0003-4713-6004], Doležal, Jiří [0000-0002-5829-4051], Kupagme, John [0000-0002-9981-050X], Maciá-Vicente, José [0000-0002-7174-7270], Geml, József [0000-0001-8745-0423], Alatalo, Juha [0000-0001-5084-850X], Álvarez-Manjarrez, Julieta [0000-0002-5581-7443], Põldmaa, Kadri [0000-0002-7936-2455], Runnel, Kadrid [0000-0002-7308-3623], Bråthen, Kari Anne [0000-0003-0942-1074], Pritsch, Karin [0000-0001-6384-2473], Newsham, Kevin K. [0000-0002-9108-0936], Panksep, Kristel [0000-0003-4743-6111], Lateef, Adebola A. [0000-0002-0510-7996], Lamit, Louis J. [0000-0002-0385-6010], Saba, M. [0000-0001-7673-2345], Tuomi, Maria [0000-0002-7154-5177], Gryzenhout, M. [0000-0002-9224-4277], Bauters, Marijn [0000-0003-0978-6639], Wijayawardene, Nalin N. [0000-0003-0522-5498], Yorou, Nourou [0000-0001-6997-811X], Kurina, Olavi [0000-0002-4858-4629], Mortimer, Peter [0000-0003-3188-9327], Kohout, Petr [0000-0002-3985-2310], Puusepp, Rasmus [0000-0002-0617-3776], Garibay-Orijel, Roberto [0000-0002-6977-7550], Godoy, Roberto [0000-0002-3719-3091], Alkahtani, Saad [0000-0001-7381-5110], Rahimlou, Saleh [0000-0003-0427-1329], Dudov, Sergey [0000-0003-1512-0956], Ghosh, Soumya [0000-0002-4945-3516], Mundra, Sunil [0000-0002-0535-118X], Ahmed, Talaat [0000-0001-8022-1855], Netherway, Tarquin [0000-0002-9049-9225], Henkel, Terry [0000-0001-9760-8837], Roslin, Tomas [0000-0002-2957-4791], Nteziryayo, Vincent [0000-0002-0176-5780], Fedosov, V. [0000-0002-5331-6346], Lim, Young Woon [0000-0003-2864-3449], Van Nuland, Michael [0000-0002-3333-0212], Soudzilovskaia, Nadejda A. [0000-0002-9584-2109], Antonelli, Alexandre [0000-0003-1842-9297], Kõljalg, Urmas [0000-0002-5171-1668], Abarenkov, K. [0000-0001-5526-4845, Tedersoo, Leho [0000-0002-1635-1249], Mikryukov, Vladimir, Dulya, Olesya, Zizka, Alexander, Bahram, Mohammad, Hagh-Doust, Niloufar, Anslan, Sten, Prylutskyi, Oleh, Delgado-Baquerizo, Manuel, Maestre, Fernando T., Nilsson, Henrik, Pärn, Jaan, Ahmed, Talaat, Netherway, Tarquin, Henkel, Terry, Roslin, Tomas, Nteziryayo, Vincent, Fedosov, V., Onipchenko, Vladimir, Yasanthika, W. A. Erand, Lim, Young Woon, Van Nuland, Michael, Soudzilovskaia, Nadejda A., Antonelli, Alexandre, Kõljalg, Urmas, Abarenkov, K., Tedersoo, Leho, Öpik, Maarja, Moora, Mari, Zobel, Martin, Espenberg, Mikk, Mander, Ülo, Khalid, Abdul Nasir, Corrales, Adriana, Agan, Ahto, Vasco-Palacios, Aída-M., Saitta, A., Rinaldi, Andrea, Verbeken, A., Sulistyo, Bobby, Tamgnoue, Boris, Furneaux, Brendan, Duarte Ritter, Camila, Nyamukondiwa, Casper, Sharp, Cathy, Marín, César, Gohar, Daniyal, Klavina, Darta, Sharmah, Dipon, Dai, Dong Qin, Nouhra, Eduardo, Machteld Biersma, Elisabeth, Rähn, Elisabeth, Cameron, Erin, Crop, Eske de, Otsing. Eveli, Albornoz, Felipe, Brearley, Francis, Buegger, Franz, Zahn, Geoffrey, Bonito, Gregory, Hiiesalu, Inga, Barrio, Isabel, Heilmann-Clausen, Jacob, Ankuda, Jelena, Doležal, Jiří, Kupagme, John, Maciá-Vicente, José, Djeugap Fovo, Joseph, Geml, József, Alatalo, Juha M., Álvarez-Manjarrez, Julieta, Põldmaa, Kadri, Runnel, Kadrid, Adamson, Kalev, Bråthen, Kari Anne, Pritsch, Karin, Tchan, Kassim I., Armolaitis, Kęstutis, Hyde, K.D., Newsham, Kevin K., Panksep, Kristel, Lateef, Adebola A., Hansson, Linda, Lamit, Louis J., Saba, M., Tuomi, Maria, Gryzenhout, M., Bauters, Marijn, Piepenbring, M., Wijayawardene, Nalin N., Yorou, Nourou, Kurina, Olavi, Mortimer, Peter, Meidl, Peter, Kohout, Petr, Puusepp, Rasmus, Drenkhan, Rein, Garibay-Orijel, Roberto, Godoy, Roberto, Alkahtani, Saad, Rahimlou, Saleh, Dudov, Sergey, Polme, Sergei, Ghosh, Soumya, Mundra, Sunil, Estonian Science Foundation, Estonian Research Council, Novo Nordisk Foundation, Baltic Research Cooperation Programme, King Saud University, European Commission, British Ecological Society, Ministerio de Ciencia e Innovación (España), Agencia Estatal de Investigación (España), Generalitat Valenciana, Swedish Research Council, Ghent University, Federal Ministry of Education and Research (Germany), Fondo Nacional de Desarrollo Científico y Tecnológico (Chile), Academy of Finland, National Science Foundation (US), Czech Science Foundation, Carlsberg Foundation, Qatar Petroleum, Ministry of Science and Higher Education of the Russian Federation, Universidad Nacional de Córdoba (Argentina), Yunnan Province, Leopold III-Fonds, Research Foundation - Flanders, Hungarian Academy of Sciences, Botswana International University of Science and Technology, Higher Education Commission (Pakistan), Mikryukov, Vladimir [0000-0003-2786-2690], Dulya, Olesya [0000-0002-7185-8659], Zizka, Alexander [0000-0002-1680-9192], Bahram, Mohammad [0000-0002-9539-3307], Hagh-Doust, Niloufar [0000-0003-0616-5829], Anslan, Sten [0000-0002-2299-454X], Prylutskyi, Oleh [0000-0001-5730-517X], Delgado-Baquerizo, Manuel [0000-0002-6499-576X], Maestre, Fernando T. [0000-0002-7434-4856], Nilsson, Henrik [0000-0002-8052-0107], Pärn, Jaan [0000-0001-6507-8894], Öpik, Maarja [0000-0001-8025-7460], Moora, Mari [0000-0002-4819-7506], Zobel, Martin [0000-0001-7957-6704], Espenberg, Mikk [0000-0003-0469-6394], Mander, Ülo [0000-0003-2340-6989], Khalid, Abdul Nasir [0000-0002-5635-8031], Corrales, Adriana [0000-0001-9885-4634], Agan, Ahto [0000-0001-9010-8944], Vasco-Palacios, Aída-M. [0000-0003-0539-9711], Rinaldi, Andrea [0000-0002-9352-1037], Verbeken, A. [0000-0002-6266-3091], Sulistyo, Bobby [0000-0002-5203-4822], Furneaux, Brendan [0000-0003-3522-7363], Duarte Ritter, Camila [0000-0002-3371-7425], Nyamukondiwa, Casper [0000-0002-0395-4980], Sharp, Cathy [0009-0003-4985-1543], Marín, César [0000-0002-2529-8929], Gohar, Daniyal [0000-0003-0312-1142], Klavina, Darta [0000-0002-1455-9062], Dai, Dong Qin [0000-0001-8935-8807], Nouhra, Eduardo [0000-0002-7080-8211], Machteld Biersma, Elisabeth [0000-0002-9877-2177], Rähn, Elisabeth [0009-0005-5521-4772], Cameron, Erin [0000-0002-3374-9830], Crop, Eske de [0000-0002-9067-6981], Otsing. Eveli [0000-0001-7416-257X], Albornoz, Felipe [0000-0001-9526-0945], Brearley, Francis [0000-0001-5053-5693], Buegger, Franz [0000-0003-3526-4711], Zahn, Geoffrey [0000-0002-8691-692X], Bonito, Gregory [0000-0002-7262-8978], Hiiesalu, Inga [0000-0002-5457-2376], Barrio, Isabel [0000-0002-8120-5248], Heilmann-Clausen, Jacob [0000-0003-4713-6004], Doležal, Jiří [0000-0002-5829-4051], Kupagme, John [0000-0002-9981-050X], Maciá-Vicente, José [0000-0002-7174-7270], Geml, József [0000-0001-8745-0423], Alatalo, Juha [0000-0001-5084-850X], Álvarez-Manjarrez, Julieta [0000-0002-5581-7443], Põldmaa, Kadri [0000-0002-7936-2455], Runnel, Kadrid [0000-0002-7308-3623], Bråthen, Kari Anne [0000-0003-0942-1074], Pritsch, Karin [0000-0001-6384-2473], Newsham, Kevin K. [0000-0002-9108-0936], Panksep, Kristel [0000-0003-4743-6111], Lateef, Adebola A. [0000-0002-0510-7996], Lamit, Louis J. [0000-0002-0385-6010], Saba, M. [0000-0001-7673-2345], Tuomi, Maria [0000-0002-7154-5177], Gryzenhout, M. [0000-0002-9224-4277], Bauters, Marijn [0000-0003-0978-6639], Wijayawardene, Nalin N. [0000-0003-0522-5498], Yorou, Nourou [0000-0001-6997-811X], Kurina, Olavi [0000-0002-4858-4629], Mortimer, Peter [0000-0003-3188-9327], Kohout, Petr [0000-0002-3985-2310], Puusepp, Rasmus [0000-0002-0617-3776], Garibay-Orijel, Roberto [0000-0002-6977-7550], Godoy, Roberto [0000-0002-3719-3091], Alkahtani, Saad [0000-0001-7381-5110], Rahimlou, Saleh [0000-0003-0427-1329], Dudov, Sergey [0000-0003-1512-0956], Ghosh, Soumya [0000-0002-4945-3516], Mundra, Sunil [0000-0002-0535-118X], Ahmed, Talaat [0000-0001-8022-1855], Netherway, Tarquin [0000-0002-9049-9225], Henkel, Terry [0000-0001-9760-8837], Roslin, Tomas [0000-0002-2957-4791], Nteziryayo, Vincent [0000-0002-0176-5780], Fedosov, V. [0000-0002-5331-6346], Lim, Young Woon [0000-0003-2864-3449], Van Nuland, Michael [0000-0002-3333-0212], Soudzilovskaia, Nadejda A. [0000-0002-9584-2109], Antonelli, Alexandre [0000-0003-1842-9297], Kõljalg, Urmas [0000-0002-5171-1668], Abarenkov, K. [0000-0001-5526-4845, Tedersoo, Leho [0000-0002-1635-1249], Mikryukov, Vladimir, Dulya, Olesya, Zizka, Alexander, Bahram, Mohammad, Hagh-Doust, Niloufar, Anslan, Sten, Prylutskyi, Oleh, Delgado-Baquerizo, Manuel, Maestre, Fernando T., Nilsson, Henrik, Pärn, Jaan, Ahmed, Talaat, Netherway, Tarquin, Henkel, Terry, Roslin, Tomas, Nteziryayo, Vincent, Fedosov, V., Onipchenko, Vladimir, Yasanthika, W. A. Erand, Lim, Young Woon, Van Nuland, Michael, Soudzilovskaia, Nadejda A., Antonelli, Alexandre, Kõljalg, Urmas, Abarenkov, K., Tedersoo, Leho, Öpik, Maarja, Moora, Mari, Zobel, Martin, Espenberg, Mikk, Mander, Ülo, Khalid, Abdul Nasir, Corrales, Adriana, Agan, Ahto, Vasco-Palacios, Aída-M., Saitta, A., Rinaldi, Andrea, Verbeken, A., Sulistyo, Bobby, Tamgnoue, Boris, Furneaux, Brendan, Duarte Ritter, Camila, Nyamukondiwa, Casper, Sharp, Cathy, Marín, César, Gohar, Daniyal, Klavina, Darta, Sharmah, Dipon, Dai, Dong Qin, Nouhra, Eduardo, Machteld Biersma, Elisabeth, Rähn, Elisabeth, Cameron, Erin, Crop, Eske de, Otsing. Eveli, Albornoz, Felipe, Brearley, Francis, Buegger, Franz, Zahn, Geoffrey, Bonito, Gregory, Hiiesalu, Inga, Barrio, Isabel, Heilmann-Clausen, Jacob, Ankuda, Jelena, Doležal, Jiří, Kupagme, John, Maciá-Vicente, José, Djeugap Fovo, Joseph, Geml, József, Alatalo, Juha M., Álvarez-Manjarrez, Julieta, Põldmaa, Kadri, Runnel, Kadrid, Adamson, Kalev, Bråthen, Kari Anne, Pritsch, Karin, Tchan, Kassim I., Armolaitis, Kęstutis, Hyde, K.D., Newsham, Kevin K., Panksep, Kristel, Lateef, Adebola A., Hansson, Linda, Lamit, Louis J., Saba, M., Tuomi, Maria, Gryzenhout, M., Bauters, Marijn, Piepenbring, M., Wijayawardene, Nalin N., Yorou, Nourou, Kurina, Olavi, Mortimer, Peter, Meidl, Peter, Kohout, Petr, Puusepp, Rasmus, Drenkhan, Rein, Garibay-Orijel, Roberto, Godoy, Roberto, Alkahtani, Saad, Rahimlou, Saleh, Dudov, Sergey, Polme, Sergei, Ghosh, Soumya, and Mundra, Sunil

Abstract

How the multiple facets of soil fungal diversity vary worldwide remains virtually unknown, hindering the management of this essential species-rich group. By sequencing high-resolution DNA markers in over 4000 topsoil samples from natural and human-altered ecosystems across all continents, we illustrate the distributions and drivers of different levels of taxonomic and phylogenetic diversity of fungi and their ecological groups. We show the impact of precipitation and temperature interactions on local fungal species richness (alpha diversity) across different climates. Our findings reveal how temperature drives fungal compositional turnover (beta diversity) and phylogenetic diversity, linking them with regional species richness (gamma diversity). We integrate fungi into the principles of global biodiversity distribution and present detailed maps for biodiversity conservation and modeling of global ecological processes.

Published
2023

23. Soil Fungi and Soil Organic Carbon Stocks in the Profile of a Forest Arenosol

Author

Ankuda, Jelena, primary, Sivojienė, Diana, additional, Armolaitis, Kęstutis, additional, Jakutis, Audrius, additional, Aleinikovienė, Jūratė, additional, Drapanauskaitė, Donata, additional, Marozas, Vitas, additional, Mishcherikova, Valeriia, additional, Stakėnas, Vidas, additional, Mikryukov, Vladimir, additional, and Tedersoo, Leho, additional

Published
2024
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24. Lichen recovery in a formerly polluted area: the importance of bark properties for soredia survival.

Author

Mikhailova, Irina and Mikryukov, Vladimir

Subjects
*BIODIVERSITY conservation, *AIR pollution, *ENVIRONMENTAL monitoring, *COPPER, *SMELTING furnaces, *INDUSTRIAL pollution
Abstract

An experiment was conducted on the development of Hypogymnia physodes (L.) Nyl. from soredia to branched lobes near the copper smelter in the Middle Urals 10 years after emission cessation. Soredia were cultivated in fir-spruce forests in heavily polluted and unpolluted areas. In both areas, soredia development was examined on fir bark collected from both the heavily polluted and unpolluted areas. The probability of lobe formation was lower in the polluted area even when soredia were cultivated on bark from the unpolluted area. Bark from the polluted area negatively impacted the success of soredia development, irrespective of the cultivation area. The lowest success of early development occurred when soredia were cultivated on polluted bark in the heavily polluted area, where the already low probability of lobe formation was accompanied by high mortality of the developed lobes. This study underscores the enduring impact of industrial pollution on H. physodes development, highlighting the need for ongoing environmental restoration and monitoring efforts in post-industrial areas to support biodiversity conservation. [ABSTRACT FROM AUTHOR]

Published
2024
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25. Connecting the multiple dimensions of global soil fungal diversity

Author

Mikryukov, Vladimir, primary, Dulya, Olesya, additional, Zizka, Alexander, additional, Bahram, Mohammad, additional, Hagh-Doust, Niloufar, additional, Anslan, Sten, additional, Prylutskyi, Oleh, additional, Delgado-Baquerizo, Manuel, additional, Maestre, Fernando T., additional, Nilsson, Henrik, additional, Pärn, Jaan, additional, Öpik, Maarja, additional, Moora, Mari, additional, Zobel, Martin, additional, Espenberg, Mikk, additional, Mander, Ülo, additional, Khalid, Abdul Nasir, additional, Corrales, Adriana, additional, Agan, Ahto, additional, Vasco-Palacios, Aída-M., additional, Saitta, Alessandro, additional, Rinaldi, Andrea, additional, Verbeken, Annemieke, additional, Sulistyo, Bobby, additional, Tamgnoue, Boris, additional, Furneaux, Brendan, additional, Duarte Ritter, Camila, additional, Nyamukondiwa, Casper, additional, Sharp, Cathy, additional, Marín, César, additional, Gohar, Daniyal, additional, Klavina, Darta, additional, Sharmah, Dipon, additional, Dai, Dong-Qin, additional, Nouhra, Eduardo, additional, Biersma, Elisabeth Machteld, additional, Rähn, Elisabeth, additional, Cameron, Erin, additional, De Crop, Eske, additional, Otsing, Eveli, additional, Davydov, Evgeny, additional, Albornoz, Felipe, additional, Brearley, Francis, additional, Buegger, Franz, additional, Zahn, Geoffrey, additional, Bonito, Gregory, additional, Hiiesalu, Inga, additional, Barrio, Isabel, additional, Heilmann-Clausen, Jacob, additional, Ankuda, Jelena, additional, Doležal, Jiri, additional, Kupagme, John, additional, Maciá-Vicente, Jose, additional, Djeugap Fovo, Joseph, additional, Geml, József, additional, Alatalo, Juha, additional, Alvarez-Manjarrez, Julieta, additional, Põldmaa, Kadri, additional, Runnel, Kadri, additional, Adamson, Kalev, additional, Bråthen, Kari-Anne, additional, Pritsch, Karin, additional, Tchan Issifou, Kassim, additional, Armolaitis, Kęstutis, additional, Hyde, Kevin, additional, Newsham, Kevin K., additional, Panksep, Kristel, additional, Lateef, Adebola Azeez, additional, Hansson, Linda, additional, Lamit, Louis, additional, Saba, Malka, additional, Tuomi, Maria, additional, Gryzenhout, Marieka, additional, Bauters, Marijn, additional, Piepenbring, Meike, additional, Wijayawardene, Nalin N., additional, Yorou, Nourou, additional, Kurina, Olavi, additional, Mortimer, Peter, additional, Meidl, Peter, additional, Kohout, Petr, additional, Puusepp, Rasmus, additional, Drenkhan, Rein, additional, Garibay-Orijel, Roberto, additional, Godoy, Roberto, additional, Alkahtani, Saad, additional, Rahimlou, Saleh, additional, Dudov, Sergey, additional, Põlme, Sergei, additional, Ghosh, Soumya, additional, Mundra, Sunil, additional, Ahmed, Talaat, additional, Netherway, Tarquin, additional, Henkel, Terry, additional, Roslin, Tomas, additional, Nteziryayo, Vincent, additional, Fedosov, Vladimir, additional, Onipchenko, Vladimir, additional, Yasanthika, Weeragalle Arachchillage Erandi, additional, Lim, Young, additional, Van Nuland, Michael, additional, Soudzilovskaia, Nadejda, additional, Antonelli, Alexandre, additional, Kõljalg, Urmas, additional, Abarenkov, Kessy, additional, and Tedersoo, Leho, additional

Published
2023
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27. Pushing the Frontiers of Biodiversity Research: Unveiling the Global Diversity, Distribution, and Conservation of Fungi

Author

Niskanen, Tuula, primary, Lücking, Robert, additional, Dahlberg, Anders, additional, Gaya, Ester, additional, Suz, Laura M., additional, Mikryukov, Vladimir, additional, Liimatainen, Kare, additional, Druzhinina, Irina, additional, Westrip, James R.S., additional, Mueller, Gregory M., additional, Martins-Cunha, Kelmer, additional, Kirk, Paul, additional, Tedersoo, Leho, additional, and Antonelli, Alexandre, additional

Published
2023
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28. The UNITE database for molecular identification and taxonomic communication of fungi and other eukaryotes: sequences, taxa and classifications reconsidered

Author

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

Published
2023
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29. The influence of tree genus, phylogeny, and richness on the specificity, rarity, and diversity of ectomycorrhizal fungi.

Author

Tedersoo, Leho, Drenkhan, Rein, Abarenkov, Kessy, Anslan, Sten, Bahram, Mohammad, Bitenieks, Kriss, Buegger, Franz, Gohar, Daniyal, Hagh‐Doust, Niloufar, Klavina, Darta, Makovskis, Kristaps, Zusevica, Austra, Pritsch, Karin, Padari, Allar, Põlme, Sergei, Rahimlou, Saleh, Rungis, Dainis, and Mikryukov, Vladimir

Subjects
ECTOMYCORRHIZAL fungi, PHYTOPATHOGENIC fungi, MIXED forests, PHYLOGENY, PLANT-fungus relationships, FUNGAL communities, SPECIES diversity
Abstract

Partner specificity is a well‐documented phenomenon in biotic interactions, yet the factors that determine specificity in plant‐fungal associations remain largely unknown. By utilizing composite soil samples, we identified the predictors that drive partner specificity in both plants and fungi, with a particular focus on ectomycorrhizal associations. Fungal guilds exhibited significant differences in overall partner preference and avoidance, richness, and specificity to specific tree genera. The highest level of specificity was observed in root endophytic and ectomycorrhizal associations, while the lowest was found in arbuscular mycorrhizal associations. The majority of ectomycorrhizal fungal species showed a preference for one of their partner trees, primarily at the plant genus level. Specialist ectomycorrhizal fungi were dominant in belowground communities in terms of species richness and relative abundance. Moreover, all tree genera (and occasionally species) demonstrated a preference for certain fungal groups. Partner specificity was not related to the rarity of fungi or plants or environmental conditions, except for soil pH. Depending on the partner tree genus, specific fungi became more prevalent and relatively more abundant with increasing stand age, tree dominance, and soil pH conditions optimal for the partner tree genus. The richness of partner tree species and increased evenness of ectomycorrhizal fungi in multi‐host communities enhanced the species richness of ectomycorrhizal fungi. However, it was primarily the partner‐generalist fungi that contributed to the high diversity of ectomycorrhizal fungi in mixed forests. [ABSTRACT FROM AUTHOR]

Published
2024
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31. A pile of pipelines: An overview of the bioinformatics software for metabarcoding data analyses

Author

Hakimzadeh, Ali, primary, Abdala Asbun, Alejandro, additional, Albanese, Davide, additional, Bernard, Maria, additional, Buchner, Dominik, additional, Callahan, Benjamin, additional, Caporaso, J. Gregory, additional, Curd, Emily, additional, Djemiel, Christophe, additional, Brandström Durling, Mikael, additional, Elbrecht, Vasco, additional, Gold, Zachary, additional, Gweon, Hyun S., additional, Hajibabaei, Mehrdad, additional, Hildebrand, Falk, additional, Mikryukov, Vladimir, additional, Normandeau, Eric, additional, Özkurt, Ezgi, additional, M. Palmer, Jonathan, additional, Pascal, Géraldine, additional, Porter, Teresita M., additional, Straub, Daniel, additional, Vasar, Martti, additional, Větrovský, Tomáš, additional, Zafeiropoulos, Haris, additional, and Anslan, Sten, additional

Published
2023
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32. DNA detected biodiversity in cryptic habitats – phylogenetic diversity

Author

Frøslev, Tobias Guldberg, Schigel, Dmitry, and Mikryukov, Vladimir

Subjects
Biodiversity
Abstract

Phylogenetic diversity indices evaluate biological communities from the perspective of the evolutionary interrelationship between species, and thus, help to maximise taxonomic, genetic, or functional diversity conservation effectiveness. Phylogenetic diversity (PD) is an indicator that is pointed out in the recent COP 15 Global Biodiversity Framework to measure biodiversity. This use case aims to improve computation time of the existing pipeline (PhyloNext), to make it a real-time exploration tool. Also, we wish to combine the PhyloNext pipeline with the possibility to feed in some geographic constraints to be able to address specific questions related to prioritisation of nature conservation based on phylogenetic diversity and derived metrics of biodiversity. The poster was first presented at the BioDT Annual Meeting 2023, 13-14 June in Leiden, Netherlands. Learn more

Published
2023
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33. Publisher Correction: Patterns in soil microbial diversity across Europe (Nature Communications, (2023), 14, 1, (3311), 10.1038/s41467-023-37937-4)

Author

Labouyrie, Maëva, Ballabio, Cristiano, Romero, Ferran, Panagos, Panos, Jones, Arwyn, Schmid, Marc W., Mikryukov, Vladimir, Dulya, Olesya, Tedersoo, Leho, Bahram, Mohammad, Lugato, Emanuele, van der Heijden, Marcel G.A., Orgiazzi, Alberto, Labouyrie, Maëva, Ballabio, Cristiano, Romero, Ferran, Panagos, Panos, Jones, Arwyn, Schmid, Marc W., Mikryukov, Vladimir, Dulya, Olesya, Tedersoo, Leho, Bahram, Mohammad, Lugato, Emanuele, van der Heijden, Marcel G.A., and Orgiazzi, Alberto

Abstract

The original version of this Article contained an error in Fig. 1a, in which part of the ‘LUCAS Vegetation cover’ legend was omitted. This has now been corrected in the PDF and HTML versions of the Article.

Published
2023

34. How, not if, is the question mycologists should be asking about DNA-based typification

Author

Nilsson, R. Henrik, Ryberg, Martin, Wurzbacher, Christian, Tedersoo, Leho, Anslan, Sten, Polme, Sergei, Spirin, Viacheslav, Mikryukov, Vladimir, Svantesson, Sten, Hartmann, Martin, Lennartsdotter, Charlotte, Belford, Pauline, Khomich, Maryia, Retter, Alice, Corcoll, Natalia, Martinez, Daniela Gomez, Jansson, Tobias, Ghobad-Nejhad, Masoomeh, Vu, Duong, Sanchez-Garcia, Marisol, Kristiansson, Erik, Abarenkov, Kessy, Nilsson, R. Henrik, Ryberg, Martin, Wurzbacher, Christian, Tedersoo, Leho, Anslan, Sten, Polme, Sergei, Spirin, Viacheslav, Mikryukov, Vladimir, Svantesson, Sten, Hartmann, Martin, Lennartsdotter, Charlotte, Belford, Pauline, Khomich, Maryia, Retter, Alice, Corcoll, Natalia, Martinez, Daniela Gomez, Jansson, Tobias, Ghobad-Nejhad, Masoomeh, Vu, Duong, Sanchez-Garcia, Marisol, Kristiansson, Erik, and Abarenkov, Kessy

Abstract

Fungal metabarcoding of substrates such as soil, wood, and water is uncovering an unprecedented number of fungal species that do not seem to produce tangible morphological structures and that defy our best attempts at cultivation, thus falling outside the scope of the International Code of Nomenclature for algae, fungi, and plants. The present study uses the new, ninth release of the species hypotheses of the UNITE database to show that species discovery through environmental sequencing vastly outpaces traditional, Sanger sequencing-based efforts in a strongly increasing trend over the last five years. Our findings chal-lenge the present stance of some in the mycological community - that the current situation is satisfactory and that no change is needed to "the code" - and suggest that we should be discussing not whether to allow DNA-based descriptions (typifications) of species and by extension higher ranks of fungi, but what the precise requirements for such DNA-based typifications should be. We submit a tentative list of such criteria for further discussion. The present authors hope for a revitalized and deepened discussion on DNA-based typification, because to us it seems harmful and counter-productive to intentionally deny the overwhelming majority of extant fungi a formal standing under the International Code of Nomenclature for algae, fungi, and plants.

Published
2023
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35. Connecting the multiple dimensions of global soil fungal diversity

Author

Universidad de Alicante. Departamento de Ecología, Universidad de Alicante. Instituto Multidisciplinar para el Estudio del Medio "Ramón Margalef", Mikryukov, Vladimir, Dulya, Olesya, Zizka, Alexander, Bahram, Mohammad, Hagh-Doust, Niloufar, Anslan, Sten, Prylutskyi, Oleh, Delgado-Baquerizo, Manuel, Maestre, Fernando T., Nilsson, Henrik, Pärn, Jaan, Van Nuland, Michael, Soudzilovskaia, Nadejda A., Antonelli, Alexandre, Kõljalg, Urmas, Abarenkov, Kessy, Tedersoo, Leho, Öpik, Maarja, Moora, Mari, Zobel, Martin, Espenberg, Mikk, Mander, Ülo, Khalid, Abdul Nasir, Corrales, Adriana, Agan, Ahto, Vasco-Palacios, Aída-M., Saitta, Alessandro, Rinaldi, Andrea C., Verbeken, Annemieke, Sulistyo, Bobby P., Tamgnoue, Boris, Furneaux, Brendan, Duarte Ritter, Camila, Nyamukondiwa, Casper, Sharp, Cathy, Marín, César, Gohar, Daniyal, Klavina, Darta, Sharmah, Dipon, Dai, Dong Qin, Nouhra, Eduardo, Biersma, Elisabeth Machteld, Rähn, Elisabeth, Cameron, Erin K., De Crop, Eske, Otsing, Eveli, Davydov, Evgeny A., Albornoz, Felipe E., Brearley, Francis Q., Buegger, Franz, Zahn, Geoffrey, Bonito, Gregory, Hiiesalu, Inga, Barrio, Isabel C., Heilmann-Clausen, Jacob, Ankuda, Jelena, Doležal, Jiri, Kupagme, John Y., Maciá-Vicente, Jose G., Fovo, Joseph Djeugap, Geml, József, Alatalo, Juha M., Alvarez-Manjarrez, Julieta, Põldmaa, Kadri, Runnel, Kadri, Adamson, Kalev, Bråthen, Kari Anne, Pritsch, Karin, Issifou, Kassim Tchan, Armolaitis, Kęstutis, Hyde, Kevin D., Newsham, Kevin K., Panksep, Kristel, Lateef, Adebola A., Hansson, Linda, Lamit, Louis J., Saba, Malka, Tuomi, Maria, Gryzenhout, Marieka, Bauters, Marijn, Piepenbring, Meike, Wijayawardene, Nalin, Yorou, Nourou S., Kurina, Olavi, Mortimer, Peter E., Meidl, Peter, Kohout, Petr, Puusepp, Rasmus, Drenkhan, Rein, Garibay-Orijel, Roberto, Godoy, Roberto, Alkahtani, Saad, Rahimlou, Saleh, Dudov, Sergey V., Põlme, Sergei, Ghosh, Soumya, Mundra, Sunil, Ahmed, Talaat, Netherway, Tarquin, Henkel, Terry W., Roslin, Tomas, Nteziryayo, Vincent, Fedosov, Vladimir E., Onipchenko, Vladimir G., Yasanthika, W.A. Erandi, Lim, Young Woon, Universidad de Alicante. Departamento de Ecología, Universidad de Alicante. Instituto Multidisciplinar para el Estudio del Medio "Ramón Margalef", Mikryukov, Vladimir, Dulya, Olesya, Zizka, Alexander, Bahram, Mohammad, Hagh-Doust, Niloufar, Anslan, Sten, Prylutskyi, Oleh, Delgado-Baquerizo, Manuel, Maestre, Fernando T., Nilsson, Henrik, Pärn, Jaan, Van Nuland, Michael, Soudzilovskaia, Nadejda A., Antonelli, Alexandre, Kõljalg, Urmas, Abarenkov, Kessy, Tedersoo, Leho, Öpik, Maarja, Moora, Mari, Zobel, Martin, Espenberg, Mikk, Mander, Ülo, Khalid, Abdul Nasir, Corrales, Adriana, Agan, Ahto, Vasco-Palacios, Aída-M., Saitta, Alessandro, Rinaldi, Andrea C., Verbeken, Annemieke, Sulistyo, Bobby P., Tamgnoue, Boris, Furneaux, Brendan, Duarte Ritter, Camila, Nyamukondiwa, Casper, Sharp, Cathy, Marín, César, Gohar, Daniyal, Klavina, Darta, Sharmah, Dipon, Dai, Dong Qin, Nouhra, Eduardo, Biersma, Elisabeth Machteld, Rähn, Elisabeth, Cameron, Erin K., De Crop, Eske, Otsing, Eveli, Davydov, Evgeny A., Albornoz, Felipe E., Brearley, Francis Q., Buegger, Franz, Zahn, Geoffrey, Bonito, Gregory, Hiiesalu, Inga, Barrio, Isabel C., Heilmann-Clausen, Jacob, Ankuda, Jelena, Doležal, Jiri, Kupagme, John Y., Maciá-Vicente, Jose G., Fovo, Joseph Djeugap, Geml, József, Alatalo, Juha M., Alvarez-Manjarrez, Julieta, Põldmaa, Kadri, Runnel, Kadri, Adamson, Kalev, Bråthen, Kari Anne, Pritsch, Karin, Issifou, Kassim Tchan, Armolaitis, Kęstutis, Hyde, Kevin D., Newsham, Kevin K., Panksep, Kristel, Lateef, Adebola A., Hansson, Linda, Lamit, Louis J., Saba, Malka, Tuomi, Maria, Gryzenhout, Marieka, Bauters, Marijn, Piepenbring, Meike, Wijayawardene, Nalin, Yorou, Nourou S., Kurina, Olavi, Mortimer, Peter E., Meidl, Peter, Kohout, Petr, Puusepp, Rasmus, Drenkhan, Rein, Garibay-Orijel, Roberto, Godoy, Roberto, Alkahtani, Saad, Rahimlou, Saleh, Dudov, Sergey V., Põlme, Sergei, Ghosh, Soumya, Mundra, Sunil, Ahmed, Talaat, Netherway, Tarquin, Henkel, Terry W., Roslin, Tomas, Nteziryayo, Vincent, Fedosov, Vladimir E., Onipchenko, Vladimir G., Yasanthika, W.A. Erandi, and Lim, Young Woon

Abstract

How the multiple facets of soil fungal diversity vary worldwide remains virtually unknown, hindering the management of this essential species-rich group. By sequencing high-resolution DNA markers in over 4000 topsoil samples from natural and human-altered ecosystems across all continents, we illustrate the distributions and drivers of different levels of taxonomic and phylogenetic diversity of fungi and their ecological groups. We show the impact of precipitation and temperature interactions on local fungal species richness (alpha diversity) across different climates. Our findings reveal how temperature drives fungal compositional turnover (beta diversity) and phylogenetic diversity, linking them with regional species richness (gamma diversity). We integrate fungi into the principles of global biodiversity distribution and present detailed maps for biodiversity conservation and modeling of global ecological processes.

Published
2023

36. Publisher Correction: Patterns in soil microbial diversity across Europe (Nature Communications, (2023), 14, 1, (3311), 10.1038/s41467-023-37937-4)

Author

Sub Plant-Microbe Interactions, Plant Microbe Interactions, Labouyrie, Maëva, Ballabio, Cristiano, Romero, Ferran, Panagos, Panos, Jones, Arwyn, Schmid, Marc W., Mikryukov, Vladimir, Dulya, Olesya, Tedersoo, Leho, Bahram, Mohammad, Lugato, Emanuele, van der Heijden, Marcel G.A., Orgiazzi, Alberto, Sub Plant-Microbe Interactions, Plant Microbe Interactions, Labouyrie, Maëva, Ballabio, Cristiano, Romero, Ferran, Panagos, Panos, Jones, Arwyn, Schmid, Marc W., Mikryukov, Vladimir, Dulya, Olesya, Tedersoo, Leho, Bahram, Mohammad, Lugato, Emanuele, van der Heijden, Marcel G.A., and Orgiazzi, Alberto

Published
2023

37. Connecting the multiple dimensions of global soil fungal diversity

Author

Mikryukov, Vladimir, Dulya, Olesya, Zizka, Alexander, Bahram, Mohammad, Hagh-Doust, Niloufar, Anslan, Sten, Prylutskyi, Oleh, Delgado-Baquerizo, Manuel, Maestre, Fernando T., Nilsson, Henrik, Pärn, Jaan, Öpik, Maarja, Moora, Mari, Zobel, Martin, Espenberg, Mikk, Mander, Ülo, Khalid, Abdul Nasir, Corrales, Adriana, Agan, Ahto, Vasco-Palacios, Aída-M., Saitta, Alessandro, Rinaldi, Andrea, Verbeken, Annemieke, Sulistyo, Bobby, Tamgnoue, Boris, Furneaux, Brendan, Duarte Ritter, Camila, Nyamukondiwa, Casper, Sharp, Cathy, Marín, César, Gohar, Daniyal, Klavina, Darta, Sharmah, Dipon, Dai, Dong-Qin, Nouhra, Eduardo, Biersma, Elisabeth Machteld, Rähn, Elisabeth, Cameron, Erin, De Crop, Eske, Otsing, Eveli, Davydov, Evgeny, Albornoz, Felipe, Brearley, Francis, Buegger, Franz, Zahn, Geoffrey, Bonito, Gregory, Hiiesalu, Inga, Barrio, Isabel, Heilmann-Clausen, Jacob, Ankuda, Jelena, Doležal, Jiri, Kupagme, John, Maciá-Vicente, Jose, Djeugap Fovo, Joseph, Geml, József, Alatalo, Juha, Alvarez-Manjarrez, Julieta, Põldmaa, Kadri, Runnel, Kadri, Adamson, Kalev, Bråthen, Kari-Anne, Pritsch, Karin, Tchan Issifou, Kassim, Armolaitis, Kęstutis, Hyde, Kevin, Newsham, Kevin K., Panksep, Kristel, Lateef, Adebola Azeez, Hansson, Linda, Lamit, Louis, Saba, Malka, Tuomi, Maria, Gryzenhout, Marieka, Bauters, Marijn, Piepenbring, Meike, Wijayawardene, Nalin N., Yorou, Nourou, Kurina, Olavi, Mortimer, Peter, Meidl, Peter, Kohout, Petr, Puusepp, Rasmus, Drenkhan, Rein, Garibay-Orijel, Roberto, Godoy, Roberto, Alkahtani, Saad, Rahimlou, Saleh, Dudov, Sergey, Põlme, Sergei, Ghosh, Soumya, Mundra, Sunil, Ahmed, Talaat, Netherway, Tarquin, Henkel, Terry, Roslin, Tomas, Nteziryayo, Vincent, Fedosov, Vladimir, Onipchenko, Vladimir, Yasanthika, Weeragalle Arachchillage Erandi, Lim, Young, Van Nuland, Michael, Soudzilovskaia, Nadejda, Antonelli, Alexandre, Kõljalg, Urmas, Abarenkov, Kessy, Tedersoo, Leho, Mikryukov, Vladimir, Dulya, Olesya, Zizka, Alexander, Bahram, Mohammad, Hagh-Doust, Niloufar, Anslan, Sten, Prylutskyi, Oleh, Delgado-Baquerizo, Manuel, Maestre, Fernando T., Nilsson, Henrik, Pärn, Jaan, Öpik, Maarja, Moora, Mari, Zobel, Martin, Espenberg, Mikk, Mander, Ülo, Khalid, Abdul Nasir, Corrales, Adriana, Agan, Ahto, Vasco-Palacios, Aída-M., Saitta, Alessandro, Rinaldi, Andrea, Verbeken, Annemieke, Sulistyo, Bobby, Tamgnoue, Boris, Furneaux, Brendan, Duarte Ritter, Camila, Nyamukondiwa, Casper, Sharp, Cathy, Marín, César, Gohar, Daniyal, Klavina, Darta, Sharmah, Dipon, Dai, Dong-Qin, Nouhra, Eduardo, Biersma, Elisabeth Machteld, Rähn, Elisabeth, Cameron, Erin, De Crop, Eske, Otsing, Eveli, Davydov, Evgeny, Albornoz, Felipe, Brearley, Francis, Buegger, Franz, Zahn, Geoffrey, Bonito, Gregory, Hiiesalu, Inga, Barrio, Isabel, Heilmann-Clausen, Jacob, Ankuda, Jelena, Doležal, Jiri, Kupagme, John, Maciá-Vicente, Jose, Djeugap Fovo, Joseph, Geml, József, Alatalo, Juha, Alvarez-Manjarrez, Julieta, Põldmaa, Kadri, Runnel, Kadri, Adamson, Kalev, Bråthen, Kari-Anne, Pritsch, Karin, Tchan Issifou, Kassim, Armolaitis, Kęstutis, Hyde, Kevin, Newsham, Kevin K., Panksep, Kristel, Lateef, Adebola Azeez, Hansson, Linda, Lamit, Louis, Saba, Malka, Tuomi, Maria, Gryzenhout, Marieka, Bauters, Marijn, Piepenbring, Meike, Wijayawardene, Nalin N., Yorou, Nourou, Kurina, Olavi, Mortimer, Peter, Meidl, Peter, Kohout, Petr, Puusepp, Rasmus, Drenkhan, Rein, Garibay-Orijel, Roberto, Godoy, Roberto, Alkahtani, Saad, Rahimlou, Saleh, Dudov, Sergey, Põlme, Sergei, Ghosh, Soumya, Mundra, Sunil, Ahmed, Talaat, Netherway, Tarquin, Henkel, Terry, Roslin, Tomas, Nteziryayo, Vincent, Fedosov, Vladimir, Onipchenko, Vladimir, Yasanthika, Weeragalle Arachchillage Erandi, Lim, Young, Van Nuland, Michael, Soudzilovskaia, Nadejda, Antonelli, Alexandre, Kõljalg, Urmas, Abarenkov, Kessy, and Tedersoo, Leho

Abstract

How the multiple facets of soil fungal diversity vary worldwide remains virtually unknown, hindering the management of this essential species-rich group. By sequencing high-resolution DNA markers in over 4000 topsoil samples from natural and human-altered ecosystems across all continents, we illustrate the distributions and drivers of different levels of taxonomic and phylogenetic diversity of fungi and their ecological groups. We show the impact of precipitation and temperature interactions on local fungal species richness (alpha diversity) across different climates. Our findings reveal how temperature drives fungal compositional turnover (beta diversity) and phylogenetic diversity, linking them with regional species richness (gamma diversity). We integrate fungi into the principles of global biodiversity distribution and present detailed maps for biodiversity conservation and modeling of global ecological processes.

Published
2023

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

Author

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

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 ∼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.

Published
2023

39. Connecting the multiple dimensions of global soil fungal diversity

Author

Tedersoo, Leho, Mikryukov, Vladimir, Zizka, Alexander, Bahram, Mohammad, Hagh-Doust, Niloufar, Anslan, Sten, Prylutskyi, Oleh, Delgado-Baquerizo, Manuel, Maestre, Fernando T., Pärn, Jaan, Öpik, Maarja, Moora, Mari, Zobel, Martin, Espenberg, Mikk, Mander, Ülo, Khalid, Abdul Nasir, Corrales, Adriana, Agan, Ahto, Vasco-Palacios, Aída M., Saitta, Alessandro, Rinaldi, Andrea C., Verbeken, Annemieke, Sulistyo, Bobby P., Tamgnoue, Boris, Furneaux, Brendan, Ritter, Camila Duarte, Nyamukondiwa, Casper, Sharp, Cathy, Marín, César, Gohar, Daniyal, Klavina, Darta, Sharmah, Dipon, Dai, Dong Qin, Nouhra, Eduardo, Biersma, Elisabeth Machteld, Rähn, Elisabeth, Cameron, Erin K., De Crop, Eske, Otsing, Eveli, Davydov, Evgeny A., Albornoz, Felipe E., Brearley, Francis Q., Buegger, Franz, Zahn, Geoffrey, Bonito, Gregory, Hiiesalu, Inga, Barrio, Isabel C., Heilmann-Clausen, Jacob, Ankuda, Jelena, Kupagme, John Y., Maciá-Vicente, Jose G., Fovo, Joseph Djeugap, Geml, József, Alatalo, Juha M., Alvarez-Manjarrez, Julieta, Põldmaa, Kadri, Runnel, Kadri, Adamson, Kalev, Bråthen, Kari Anne, Pritsch, Karin, Tchan, Kassim I., Armolaitis, Kęstutis, Hyde, Kevin D., Newsham, Kevin K., Panksep, Kristel, Lateef, Adebola A., Tiirmann, Liis, Hansson, Linda, Lamit, Louis J., Saba, Malka, Tuomi, Maria, Gryzenhout, Marieka, Bauters, Marijn, Piepenbring, Meike, Wijayawardene, Nalin, Yorou, Nourou S., Kurina, Olavi, Mortimer, Peter E., Meidl, Peter, Kohout, Petr, Nilsson, Rolf Henrik, Puusepp, Rasmus, Drenkhan, Rein, Garibay-Orijel, Roberto, Godoy, Roberto, Alkahtani, Saad, Rahimlou, Saleh, Dudov, Sergey V., Põlme, Sergei, Ghosh, Soumya, Mundra, Sunil, Ahmed, Talaat, Netherway, Tarquin, Henkel, Terry W., Roslin, Tomas, Nteziryayo, Vincent, Fedosov, Vladimir E., Onipchenko, Vladimir G., Erandi Yasanthika, W.A., Lim, Young Woon, Soudzilovskaia, Nadejda A., Antonelli, Alexandre, Kõljalg, Urmas, Abarenkov, Kessy, Tedersoo, Leho, Mikryukov, Vladimir, Zizka, Alexander, Bahram, Mohammad, Hagh-Doust, Niloufar, Anslan, Sten, Prylutskyi, Oleh, Delgado-Baquerizo, Manuel, Maestre, Fernando T., Pärn, Jaan, Öpik, Maarja, Moora, Mari, Zobel, Martin, Espenberg, Mikk, Mander, Ülo, Khalid, Abdul Nasir, Corrales, Adriana, Agan, Ahto, Vasco-Palacios, Aída M., Saitta, Alessandro, Rinaldi, Andrea C., Verbeken, Annemieke, Sulistyo, Bobby P., Tamgnoue, Boris, Furneaux, Brendan, Ritter, Camila Duarte, Nyamukondiwa, Casper, Sharp, Cathy, Marín, César, Gohar, Daniyal, Klavina, Darta, Sharmah, Dipon, Dai, Dong Qin, Nouhra, Eduardo, Biersma, Elisabeth Machteld, Rähn, Elisabeth, Cameron, Erin K., De Crop, Eske, Otsing, Eveli, Davydov, Evgeny A., Albornoz, Felipe E., Brearley, Francis Q., Buegger, Franz, Zahn, Geoffrey, Bonito, Gregory, Hiiesalu, Inga, Barrio, Isabel C., Heilmann-Clausen, Jacob, Ankuda, Jelena, Kupagme, John Y., Maciá-Vicente, Jose G., Fovo, Joseph Djeugap, Geml, József, Alatalo, Juha M., Alvarez-Manjarrez, Julieta, Põldmaa, Kadri, Runnel, Kadri, Adamson, Kalev, Bråthen, Kari Anne, Pritsch, Karin, Tchan, Kassim I., Armolaitis, Kęstutis, Hyde, Kevin D., Newsham, Kevin K., Panksep, Kristel, Lateef, Adebola A., Tiirmann, Liis, Hansson, Linda, Lamit, Louis J., Saba, Malka, Tuomi, Maria, Gryzenhout, Marieka, Bauters, Marijn, Piepenbring, Meike, Wijayawardene, Nalin, Yorou, Nourou S., Kurina, Olavi, Mortimer, Peter E., Meidl, Peter, Kohout, Petr, Nilsson, Rolf Henrik, Puusepp, Rasmus, Drenkhan, Rein, Garibay-Orijel, Roberto, Godoy, Roberto, Alkahtani, Saad, Rahimlou, Saleh, Dudov, Sergey V., Põlme, Sergei, Ghosh, Soumya, Mundra, Sunil, Ahmed, Talaat, Netherway, Tarquin, Henkel, Terry W., Roslin, Tomas, Nteziryayo, Vincent, Fedosov, Vladimir E., Onipchenko, Vladimir G., Erandi Yasanthika, W.A., Lim, Young Woon, Soudzilovskaia, Nadejda A., Antonelli, Alexandre, Kõljalg, Urmas, and Abarenkov, Kessy

Abstract

How the multiple facets of soil fungal diversity vary worldwide remains virtually unknown, hindering the management of this essential species-rich group. By sequencing high-resolution DNA markers in over 4000 topsoil samples from natural and human-altered ecosystems across all continents, we illustrate the distributions and drivers of different levels of taxonomic and phylogenetic diversity of fungi and their ecological groups. We show the impact of precipitation and temperature interactions on fungal local species richness (alpha diversity) across different climates. Our findings reveal how temperature drives fungal compositional turnover (beta diversity) and phylogenetic diversity, linking them with regional species richness (gamma diversity). Our work integrates fungi into the principles of global biodiversity distribution and presents detailed maps for biodiversity conservation and modeling of global ecological processes., How the multiple facets of soil fungal diversity vary worldwide remains virtually unknown, hindering the management of this essential species-rich group. By sequencing high-resolution DNA markers in over 4000 topsoil samples from natural and human-altered ecosystems across all continents, we illustrate the distributions and drivers of different levels of taxonomic and phylogenetic diversity of fungi and their ecological groups. We show the impact of precipitation and temperature interactions on fungal local species richness (alpha diversity) across different climates. Our findings reveal how temperature drives fungal compositional turnover (beta diversity) and phylogenetic diversity, linking them with regional species richness (gamma diversity). Our work integrates fungi into the principles of global biodiversity distribution and presents detailed maps for biodiversity conservation and modeling of global ecological processes. ### Data overview These datasets contain comprehensive estimates of alpha, beta, and gamma diversity. The data are provided in two formats: TIFF (Tagged Image File Format) and GeoPackage formats, which are commonly used to store geospatially-referenced data. Alpha Diversity: `Alpha_S_*` files: These files contain estimates of alpha diversity (local species diversity) for each grid cell of a raster file. `Alpha_AOA_*` files: These files outline the 'Area of Applicability' for the alpha diversity estimates. `Alpha_Uncertainty_*` files: These files contain data related to the uncertainty of the alpha diversity predictions. Uncertainty here represents the range or degree of error associated with the diversity estimates. `Alpha_Hotspots_and_ProtectedAreas` contains information on fungal diversity hotspots and their area under protection (based on IUCN classification). 'Hotspots' are areas with exceptionally high alpha diversity. Beta Diversity: `Beta_*` f

Published
2023

40. Patterns in soil microbial diversity across Europe.

Author

Labouyrie, Maëva; https://orcid.org/0000-0002-0313-0404, Ballabio, Cristiano, Romero, Ferran; https://orcid.org/0000-0002-2986-4166, Panagos, Panos; https://orcid.org/0000-0003-1484-2738, Jones, Arwyn, Schmid, Marc W; https://orcid.org/0000-0001-9554-5318, Mikryukov, Vladimir, Dulya, Olesya, Tedersoo, Leho; https://orcid.org/0000-0002-1635-1249, Bahram, Mohammad; https://orcid.org/0000-0002-9539-3307, Lugato, Emanuele; https://orcid.org/0000-0002-8947-352X, van der Heijden, Marcel G A; https://orcid.org/0000-0001-7040-1924, Orgiazzi, Alberto; https://orcid.org/0000-0002-8390-6654, Labouyrie, Maëva; https://orcid.org/0000-0002-0313-0404, Ballabio, Cristiano, Romero, Ferran; https://orcid.org/0000-0002-2986-4166, Panagos, Panos; https://orcid.org/0000-0003-1484-2738, Jones, Arwyn, Schmid, Marc W; https://orcid.org/0000-0001-9554-5318, Mikryukov, Vladimir, Dulya, Olesya, Tedersoo, Leho; https://orcid.org/0000-0002-1635-1249, Bahram, Mohammad; https://orcid.org/0000-0002-9539-3307, Lugato, Emanuele; https://orcid.org/0000-0002-8947-352X, van der Heijden, Marcel G A; https://orcid.org/0000-0001-7040-1924, and Orgiazzi, Alberto; https://orcid.org/0000-0002-8390-6654

Abstract

Factors driving microbial community composition and diversity are well established but the relationship with microbial functioning is poorly understood, especially at large scales. We analysed microbial biodiversity metrics and distribution of potential functional groups along a gradient of increasing land-use perturbation, detecting over 79,000 bacterial and 25,000 fungal OTUs in 715 sites across 24 European countries. We found the lowest bacterial and fungal diversity in less-disturbed environments (woodlands) compared to grasslands and highly-disturbed environments (croplands). Highly-disturbed environments contain significantly more bacterial chemoheterotrophs, harbour a higher proportion of fungal plant pathogens and saprotrophs, and have less beneficial fungal plant symbionts compared to woodlands and extensively-managed grasslands. Spatial patterns of microbial communities and predicted functions are best explained when interactions among the major determinants (vegetation cover, climate, soil properties) are considered. We propose guidelines for environmental policy actions and argue that taxonomical and functional diversity should be considered simultaneously for monitoring purposes.

Published
2023

41. Figure 1 from: Nilsson RH, Ryberg M, Wurzbacher C, Tedersoo L, Anslan S, Põlme S, Spirin V, Mikryukov V, Svantesson S, Hartmann M, Lennartsdotter C, Belford P, Khomich M, Retter A, Corcoll N, Gómez Martinez D, Jansson T, Ghobad-Nejhad M, Vu D, Sanchez-Garcia M, Kristiansson E, Abarenkov K (2023) How, not if, is the question mycologists should be asking about DNA-based typification. MycoKeys 96: 143-157. https://doi.org/10.3897/mycokeys.96.102669

Author

Nilsson, R. Henrik, primary, Ryberg, Martin, additional, Wurzbacher, Christian, additional, Tedersoo, Leho, additional, Anslan, Sten, additional, Põlme, Sergei, additional, Spirin, Viacheslav, additional, Mikryukov, Vladimir, additional, Svantesson, Sten, additional, Hartmann, Martin, additional, Lennartsdotter, Charlotte, additional, Belford, Pauline, additional, Khomich, Maryia, additional, Retter, Alice, additional, Corcoll, Natàlia, additional, Gómez Martinez, Daniela, additional, Jansson, Tobias, additional, Ghobad-Nejhad, Masoomeh, additional, Vu, Duong, additional, Sanchez-Garcia, Marisol, additional, Kristiansson, Erik, additional, and Abarenkov, Kessy, additional

Published
2023
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42. Figure 2 from: Nilsson RH, Ryberg M, Wurzbacher C, Tedersoo L, Anslan S, Põlme S, Spirin V, Mikryukov V, Svantesson S, Hartmann M, Lennartsdotter C, Belford P, Khomich M, Retter A, Corcoll N, Gómez Martinez D, Jansson T, Ghobad-Nejhad M, Vu D, Sanchez-Garcia M, Kristiansson E, Abarenkov K (2023) How, not if, is the question mycologists should be asking about DNA-based typification. MycoKeys 96: 143-157. https://doi.org/10.3897/mycokeys.96.102669

Author

Nilsson, R. Henrik, primary, Ryberg, Martin, additional, Wurzbacher, Christian, additional, Tedersoo, Leho, additional, Anslan, Sten, additional, Põlme, Sergei, additional, Spirin, Viacheslav, additional, Mikryukov, Vladimir, additional, Svantesson, Sten, additional, Hartmann, Martin, additional, Lennartsdotter, Charlotte, additional, Belford, Pauline, additional, Khomich, Maryia, additional, Retter, Alice, additional, Corcoll, Natàlia, additional, Gómez Martinez, Daniela, additional, Jansson, Tobias, additional, Ghobad-Nejhad, Masoomeh, additional, Vu, Duong, additional, Sanchez-Garcia, Marisol, additional, Kristiansson, Erik, additional, and Abarenkov, Kessy, additional

Published
2023
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43. Partner specificity in ectomycorrhizal symbiosis

Author

Tedersoo, Leho, primary, Drenkhan, Rein, additional, Abarenkov, Kessy, additional, Anslan, Sten, additional, Bahram, Mohammad, additional, Bitenieks, Krišs, additional, Buegger, Franz, additional, Gohar, Daniyal, additional, Doust, Niloufar, additional, Klavina, Darta, additional, Makovskis, Kristaps, additional, Zuševica, Austra, additional, Pritsch, Karin, additional, Padari, Allar, additional, Põlme, Sergei, additional, Rahimlou, Saleh, additional, Rungis, Dainis, additional, and Mikryukov, Vladimir, additional

Published
2023
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44. How, not if, is the question mycologists should be asking about DNA-based typification

Author

Nilsson, R. Henrik, primary, Ryberg, Martin, additional, Wurzbacher, Christian, additional, Tedersoo, Leho, additional, Anslan, Sten, additional, Põlme, Sergei, additional, Spirin, Viacheslav, additional, Mikryukov, Vladimir, additional, Svantesson, Sten, additional, Hartmann, Martin, additional, Lennartsdotter, Charlotte, additional, Belford, Pauline, additional, Khomich, Maryia, additional, Retter, Alice, additional, Corcoll, Natàlia, additional, Gómez Martinez, Daniela, additional, Jansson, Tobias, additional, Ghobad-Nejhad, Masoomeh, additional, Vu, Duong, additional, Sanchez-Garcia, Marisol, additional, Kristiansson, Erik, additional, and Abarenkov, Kessy, additional

Published
2023
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46. Construction of the Ishikawa diagram for the incorporation into employment of graduates of the Ministry of emergency situations of Russia

Author

Mikryukov Vladimir Olegovich, Melkov Sergey Anatolievich, Lyabakh Andrey Yurievich, Ilyushin Sergey Nikolaevich, and Boeva Aleksandra Olegovna

Subjects
ishikawa chart, employment, emercom of russia, expert survey, road map, Social Sciences
Abstract

The paper presents the results of the author’s study of the problem of employment of universities graduates of the Ministry of Emergency Situations (EMERCOM) of Russia for vacant posts in the EMERCOM of Russia. The purpose of the study is to develop a draft “road map” aimed at solving the management problem of insufficient active participation of EMERCOM universities in the employment of graduates for civil service in the EMERCOM of Russia. The authors have used the following methods: traditional document analysis, expert sociological survey in the form of a questionnaire; method of studying statistical data; method for constructing the Kaworu Ishikawa chart. As a result of processing statistical data and experts’ answers, the paper presents the author’s view of the draft “road map” the implementation of which will solve the problem of effective employment of graduates of EMERCOM universities. The paper presents for the first time the results of the causal relationship between the need for employment of graduates of EMERCOM universities and the low percentage of this employment presented in the form of the Ishikawa chart.

Published
2021
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47. Application of practice-oriented technologies in teaching undergraduates in creative areas of training

Author

Mikryukov Vladimir, Orlova Elena, Mazhura Anastasia, Mladkovskaya Ekaterina, and Milyanenko Alexander

Subjects
practice-oriented technologies, metropolis, journalism, advertising, public relations, Social Sciences
Abstract

The article analyzes the experience in the application of practice-oriented technologies in teaching students in creative areas of “Journalism”, and “Advertising and Public Relations” at higher education institutions in Moscow and the Moscow Region. The purpose of the conducted research is to identify the most effective practice-oriented technologies in the preparation of bachelors in the field of journalism, advertising, and public relations to the benefit of a modern metropolis. The authors give the classification of technologies and their effect on the result of students’ education and reveal how a particular technology is used in the training of university students. The article considers specific examples of technologies, their relevance, and impact on the level of professional training of university graduates, as well as on improving their competitiveness. The article also presents the analysis results of the students’ and graduates’ opinions (using the method of a free interview of 97 respondents without sample calculation) that confirms the main hypothesis that the structure of knowledge and skills of future specialists is being changed, as well as the level of preparedness to work in the metropolis and large cities. The present article summarizes the authors’ long-term experience in applying practice-oriented technologies in teaching students at many universities where the authors worked.

Published
2021
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48. What mycologists should talk about when they are talking about the International Code of Nomenclature for algae, fungi, and plants

Author

Nilsson, R. Henrik, primary, Ryberg, Martin, additional, Wurzbacher, Christian, additional, Tedersoo, Leho, additional, Anslan, Sten, additional, Põlme, Sergei, additional, Spirin, Viacheslav, additional, Mikryukov, Vladimir, additional, Svantesson, Sten, additional, Hartmann, Martin, additional, Lennartsdotter, Charlotte, additional, Belford, Pauline, additional, Khomich, Maryia, additional, Retter, Alice, additional, Corcoll, Natàlia, additional, Martinez, Daniela Gómez, additional, Jansson, Tobias, additional, Ghobad-Nejhad, Masoomeh, additional, Vu, Duong, additional, Sanchez-Garcia, Marisol, additional, Kristiansson, Erik, additional, and Abarenkov, Kessy, additional

Published
2023
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49. About the Impact of The Concept Of E-Government on Modern Education in Russia

Author

Mikryukov Vladimir Olegovich, Melkov Sergey Anatolevich, Sushanskiy Artur Sergeevich, Kholikov Ivan Vladimirovich, and Gruver Nadezhda Vsevolodovna

Subjects
Social Sciences
Abstract

The hermeneutics of the concept of “e-government” is implemented, and the results are interpreted in the article using the method of expert survey. The goal of the study was to find out the relation between the digitalization of public administration in modern Russia and higher education. The conclusions on the impact of the concept of e-government on Russian education have been drawn, based on the interpretation of the experts’ answers. Some conclusions from a pedagogical experiment conducted on an ongoing basis at the Academy of Civil Defense of the Ministry of the Russian Federation for Civil Defense, Emergencies and Elimination of Consequences of Natural Disasters since 2016 have been also provided in the article. The goal of this experiment is to find out which pedagogical and information technologies are the most efficient for teaching at a university. The authors are confident that the problems of the mutual influence of the e-government and modern education in Russia described in the article are inexhaustible and will be continued by them.

Published
2020
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50. Global patterns in endemicity and vulnerability of soil fungi

Author

Tedersoo, Leho, primary, Mikryukov, Vladimir, additional, Zizka, Alexander, additional, Bahram, Mohammad, additional, Hagh‐Doust, Niloufar, additional, Anslan, Sten, additional, Prylutskyi, Oleh, additional, Delgado‐Baquerizo, Manuel, additional, Maestre, Fernando T., additional, Pärn, Jaan, additional, Öpik, Maarja, additional, Moora, Mari, additional, Zobel, Martin, additional, Espenberg, Mikk, additional, Mander, Ülo, additional, Khalid, Abdul Nasir, additional, Corrales, Adriana, additional, Agan, Ahto, additional, Vasco‐Palacios, Aída‐M., additional, Saitta, Alessandro, additional, Rinaldi, Andrea C., additional, Verbeken, Annemieke, additional, Sulistyo, Bobby P., additional, Tamgnoue, Boris, additional, Furneaux, Brendan, additional, Ritter, Camila Duarte, additional, Nyamukondiwa, Casper, additional, Sharp, Cathy, additional, Marín, César, additional, Gohar, Daniyal, additional, Klavina, Darta, additional, Sharmah, Dipon, additional, Dai, Dong Qin, additional, Nouhra, Eduardo, additional, Biersma, Elisabeth Machteld, additional, Rähn, Elisabeth, additional, Cameron, Erin K., additional, De Crop, Eske, additional, Otsing, Eveli, additional, Davydov, Evgeny A., additional, Albornoz, Felipe E., additional, Brearley, Francis Q., additional, Buegger, Franz, additional, Zahn, Geoffrey, additional, Bonito, Gregory, additional, Hiiesalu, Inga, additional, Barrio, Isabel C., additional, Heilmann‐Clausen, Jacob, additional, Ankuda, Jelena, additional, Kupagme, John Y., additional, Maciá‐Vicente, Jose G., additional, Fovo, Joseph Djeugap, additional, Geml, József, additional, Alatalo, Juha M., additional, Alvarez‐Manjarrez, Julieta, additional, Põldmaa, Kadri, additional, Runnel, Kadri, additional, Adamson, Kalev, additional, Bråthen, Kari Anne, additional, Pritsch, Karin, additional, Tchan, Kassim I., additional, Armolaitis, Kęstutis, additional, Hyde, Kevin D., additional, Newsham, Kevin K., additional, Panksep, Kristel, additional, Lateef, Adebola A., additional, Tiirmann, Liis, additional, Hansson, Linda, additional, Lamit, Louis J., additional, Saba, Malka, additional, Tuomi, Maria, additional, Gryzenhout, Marieka, additional, Bauters, Marijn, additional, Piepenbring, Meike, additional, Wijayawardene, Nalin, additional, Yorou, Nourou S., additional, Kurina, Olavi, additional, Mortimer, Peter E., additional, Meidl, Peter, additional, Kohout, Petr, additional, Nilsson, Rolf Henrik, additional, Puusepp, Rasmus, additional, Drenkhan, Rein, additional, Garibay‐Orijel, Roberto, additional, Godoy, Roberto, additional, Alkahtani, Saad, additional, Rahimlou, Saleh, additional, Dudov, Sergey V., additional, Põlme, Sergei, additional, Ghosh, Soumya, additional, Mundra, Sunil, additional, Ahmed, Talaat, additional, Netherway, Tarquin, additional, Henkel, Terry W., additional, Roslin, Tomas, additional, Nteziryayo, Vincent, additional, Fedosov, Vladimir E., additional, Onipchenko, Vladimir G., additional, Yasanthika, W. A. Erandi, additional, Lim, Young Woon, additional, Soudzilovskaia, Nadejda A., additional, Antonelli, Alexandre, additional, Kõljalg, Urmas, additional, and Abarenkov, Kessy, additional

Published
2022
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