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

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

Research output: Contribution to journalArticlepeer-review

Abstract

The cryptic lifestyle of most fungi necessitates molecular identification of the guild in environmental studies. Over the past decades, rapid development and affordability of molecular tools have tremendously improved insights of the fungal diversity in all ecosystems and habitats. Yet, in spite of the progress of molecular methods, knowledge about functional properties of the fungal taxa is vague and interpretation of environmental studies in an ecologically meaningful manner remains challenging. In order to facilitate functional assignments and ecological interpretation of environmental studies we introduce a user friendly traits and character database FungalTraits operating at genus and species hypothesis levels. Combining the information from previous efforts such as FUNGuild and FunFun together with involvement of expert knowledge, we reannotated 10,210 and 151 fungal and Stramenopila genera, respectively. This resulted in a stand-alone spreadsheet dataset covering 17 lifestyle related traits of fungal and Stramenopila genera, designed for rapid functional assignments of environmental studies. In order to assign the trait states to fungal species hypotheses, the scientific community of experts manually categorised and assigned available trait information to 697,413 fungal ITS sequences. On the basis of those sequences we were able to summarise trait and host information into 92,623 fungal species hypotheses at 1% dissimilarity threshold.

Original languageEnglish (US)
JournalFungal Diversity
Volume105
Issue number1
DOIs
StatePublished - Nov 2020

Bibliographical note

Publisher Copyright:
© 2021, MUSHROOM RESEARCH FOUNDATION.

Keywords

  • Bioinformatics
  • Community ecology
  • Function
  • Fungal traits
  • Guild
  • High-throughput sequencing
  • Trophic modes

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