FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles
Sergei Põlme
1, 2
,
Kessy Abarenkov
2
,
R Henrik Nilsson
3, 4
,
Björn D Lindahl
5
,
Karina Engelbrecht Clemmensen
6
,
Håvard Kauserud
7
,
Nhu Nguyen
8
,
Rasmus Kjøller
9
,
Scott T. Bates
10
,
Petr Baldrian
11
,
Tobias Guldberg Frøslev
12
,
Kristjan Adojaan
1
,
Alfredo Vizzini
13
,
Ave Suija
1
,
Donald Pfister
14
,
Hans-Otto Baral
15
,
Helle Järv
16
,
Hugo Madrid
17, 18
,
Jenni Nordén
19
,
JIAN-KUI LIU
20
,
Julia Pawlowska
21
,
Kadri Põldmaa
1
,
Kadri Pärtel
1
,
Kadri Runnel
1
,
Karen Hansen
22
,
Karl-Henrik Larsson
3
,
KEVIN-DAVID HYDE
23
,
Marcelo Sandoval Denis
24
,
Matthew E. Smith
25
,
Merje Toome Heller
26
,
Nalin N Wijayawardene
27
,
Nelson Menolli
28, 29
,
Nicole K Reynolds
25
,
Rein Drenkhan
30
,
SAJEEWA S.N. MAHARACHCHIKUMBURA
20
,
Tatiana B Gibertoni
31
,
Thomas Læssøe
32
,
William Davis
33
,
Yuri Tokarev
34
,
Adriana Corrales
35
,
Adriene Mayra Soares
36
,
Ahto Agan
1
,
Alexandre Reis Machado
31
,
Andrés Argüelles Moyao
37
,
Andrew Detheridge
38
,
Angelina De Meiras Ottoni
31
,
Annemieke Verbeken
39
,
Arun Kumar Dutta
40
,
Bao-Kai Cui
41
,
C K Pradeep
42
,
César Marín
43, 44
,
Daniel Stanton
45
,
Daniyal Gohar
1
,
Dhanushka N. Wanasinghe
46
,
Eveli Otsing
1
,
Farzad Aslani
1
,
Gareth W. Griffith
38
,
Thorsten H Lumbsch
47
,
Hans-Peter Grossart
48, 49
,
Hossein Masigol
50
,
Ina Timling
51
,
Inga Hiiesalu
1
,
Jane Oja
1
,
John Y Kupagme
1
,
József Geml
52
,
Julieta Alvarez Manjarrez
37
,
Kai Ilves
1
,
Kaire Loit
53
,
Kalev Adamson
30
,
Kazuhide Nara
54
,
Kati Küngas
1
,
Keilor Rojas-Jimenez
55
,
Krišs Bitenieks
56
,
Laszlo Irinyi
57, 58
,
László G Nagy
59
,
Liina Soonvald
53
,
Li Wei Zhou
60
,
Lysett Wagner
61
,
M. Catherine Aime
62
,
Maarja Öpik
1
,
María Isabel Mujica
63
,
Martin Metsoja
1
,
Martin Ryberg
64
,
Martti Vasar
1
,
Masao Murata
54
,
Matthew P Nelsen
47
,
Michelle CLEARY
65
,
Milan C Samarakoon
23
,
Mingkwan Doilom
46
,
Mohammad Bahram
1, 66
,
Niloufar Hagh Doust
1
,
Olesya Dulya
1, 67
,
PETER JOHNSTON
68
,
Petr Kohout
11
,
Qian Chen
60
,
Qing Tian
23
,
Rajasree Nandi
69
,
Rasekh Amiri
1
,
Rekhani Hansika Perera
23
,
Renata Dos Santos Chikowski
31
,
Renato L Mendes Alvarenga
31
,
Roberto Garibay Orijel
37
,
Robin Gielen
1
,
Rungtiwa Phookamsak
46
,
Ruvishika S Jayawardena
23
,
Saleh Rahimlou
1
,
Samantha C Karunarathna
46
,
Saowaluck Tibpromma
46
,
Shawn P. Brown
70
,
Siim Kaarel Sepp
1
,
Sunil Mundra
7, 71
,
Zhu-Hua Luo
72
,
Tanay Bose
73
,
Tanel Vahter
1
,
Tarquin Netherway
66
,
Yang Teng
74
,
Tom May
75
,
TORDA VARGA
59
,
Wei Li
76
,
Victor Rafael Matos Coimbra
31
,
Virton Rodrigo Targino De Oliveira
31
,
Vitor Xavier De Lima
31
,
Vladimir S Mikryukov
1
,
Yongzhong Lu
77
,
Yosuke Matsuda
78
,
Yumiko MIYAMOTO
79
,
Urmas Kõljalg
1, 2
,
Leho Tedersoo
1, 2
3
Gothenburg Global Biodiversity Centre, Gothenburg, Sweden
|
4
5
15
Tübingen, Germany
|
16
SYNLAB Estonia, Tallinn, Estonia
|
24
Westerdijk Fungal Biodiversity Institute, Utrecht, The Netherlands
|
26
Plant Health and Environment Laboratory, Ministry for Primary Industries, Auckland, New Zealand
|
29
Instituto de Botânica, Núcleo de Pesquisa em Micologia, São Paulo, Brazil
|
30
33
42
Jawaharlal Nehru Tropical Botanic Garden & Research Institute (JNTBGRI), Thiruvananthapuram, India
|
45
47
Science and Education and The Grainger Bioinformatics Center, The Field Museum, Chicago, USA
|
56
Genetic Resource Centre, Latvian State Forest Research Institute “Silava”, Salaspils, Latvia
|
59
Biological Research Center Szeged, Szeged, Hungary
|
69
71
72
Key Laboratory of Marine Biogenetic Resources, Third Institute of Oceanography, Ministry of Natural Resources, Xiamen, China
|
75
Royal Botanic Gardens Victoria, Melbourne, Australia
|
Publication type: Journal Article
Publication date: 2020-11-01
scimago Q1
wos Q1
SJR: 6.546
CiteScore: 46.0
Impact factor: 24.8
ISSN: 15602745, 18789129
Ecology, Evolution, Behavior and Systematics
Ecology
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.
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Põlme S. et al. FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles // Fungal Diversity. 2020. Vol. 105. No. 1. pp. 1-16.
GOST all authors (up to 50)
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Põlme S. et al. FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles // Fungal Diversity. 2020. Vol. 105. No. 1. pp. 1-16.
Cite this
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@article{2020_Põlme,
author = {Sergei Põlme and Kessy Abarenkov and R Henrik Nilsson and Björn D Lindahl and Karina Engelbrecht Clemmensen and Håvard Kauserud and Nhu Nguyen and Rasmus Kjøller and Scott T. Bates and Petr Baldrian and Tobias Guldberg Frøslev and Kristjan Adojaan and Alfredo Vizzini and Ave Suija and Donald Pfister and Hans-Otto Baral and Helle Järv and Hugo Madrid and Jenni Nordén and JIAN-KUI LIU and Julia Pawlowska and Kadri Põldmaa and Kadri Pärtel and Kadri Runnel and Karen Hansen and Karl-Henrik Larsson and KEVIN-DAVID HYDE and Marcelo Sandoval Denis and Matthew E. Smith and Merje Toome Heller and Nalin N Wijayawardene and Nelson Menolli and Nicole K Reynolds and Rein Drenkhan and SAJEEWA S.N. MAHARACHCHIKUMBURA and Tatiana B Gibertoni and Thomas Læssøe and William Davis and Yuri Tokarev and Adriana Corrales and Adriene Mayra Soares and Ahto Agan and Alexandre Reis Machado and Andrés Argüelles Moyao and Andrew Detheridge and Angelina De Meiras Ottoni and Annemieke Verbeken and Arun Kumar Dutta and Bao-Kai Cui and C K Pradeep and others},
title = {FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles},
journal = {Fungal Diversity},
year = {2020},
volume = {105},
publisher = {Springer Nature},
month = {nov},
url = {https://doi.org/10.1007/s13225-020-00466-2},
number = {1},
pages = {1--16},
doi = {10.1007/s13225-020-00466-2}
}
Cite this
MLA
Copy
Põlme, Sergei, et al. “FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles.” Fungal Diversity, vol. 105, no. 1, Nov. 2020, pp. 1-16. https://doi.org/10.1007/s13225-020-00466-2.