KIB OpenIR
FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles
Polme,Sergei; Abarenkov,Kessy; Henrik Nilsson,R.; Lindahl,Bjorn D.; Clemmensen,Karina Engelbrecht; Kauserud,Havard; Nguyen,Nhu; Kjoller,Rasmus; Bates,Scott T.; Baldrian,Petr; Froslev,Tobias Guldberg; Adojaan,Kristjan; Vizzini,Alfredo; Suija,Ave; Pfister,Donald; Baral,Hans-Otto; Jarv,Helle; Madrid,Hugo; Norden,Jenni; Liu,Jian-Kui; Pawlowska,Julia; Poldmaa,Kadri; Partel,Kadri; Runnel,Kadri; Hansen,Karen; Larsson,Karl-Henrik; Hyde,Kevin David; Sandoval-Denis,Marcelo; Smith,Matthew E.; Toome-Heller,Merje; Wijayawardene,Nalin N.; Menolli,Nelson,Jr.; Reynolds,Nicole K.; Drenkhan,Rein; Maharachchikumbura,Sajeewa S. N.; Gibertoni,Tatiana B.; Laessoe,Thomas; Davis,William; Tokarev,Yuri; Corrales,Adriana; Soares,Adriene Mayra; Agan,Ahto; Machado,Alexandre Reis; Arguelles-Moyao,Andres; Detheridge,Andrew; de Meiras-Ottoni,Angelina; Verbeken,Annemieke; Dutta,Arun Kumar; Cui,Bao-Kai; Pradeep,C. K.; Marin,Cesar; 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,Jozsef; Alvarez-Manjarrez,Julieta; Ilves,Kai; Loit,Kaire; Adamson,Kalev; Nara,Kazuhide; Kungas,Kati; Rojas-Jimenez,Keilor; Bitenieks,Kriss; Irinyi,Laszlo; Nagy,Laszlo Laszlo; Soonvald,Liina; Zhou,Li-Wei; Wagner,Lysett; Aime,M. Catherine; opik,Maarja; Mujica,Maria 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; Koljalg,Urmas; Tedersoo,Leho
2020
Source PublicationFUNGAL DIVERSITY
ISSN1560-2745
Volume105Issue:1Pages:1-16
AbstractThe 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 Fun(Fun) 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.
KeywordFungal traits Trophic modes Function Guild Bioinformatics High-throughput sequencing Community ecology PLANT IDENTIFICATION ENDOPHYTES ECOLOGY BIODIVERSITY RECOGNITION EVOLUTION LINEAGES PARADIGM DECAY
DOI10.1007/s13225-020-00466-2
WOS IDWOS:000608948200001
Citation statistics
Document Type期刊论文
Identifierhttp://ir.kib.ac.cn/handle/151853/73373
Collection中国科学院昆明植物研究所
Affiliation1.Univ Tartu, Inst Ecol & Earth Sci, 14A Ravila, EE-50411 Tartu, Estonia
2.Univ Tartu, Nat Hist Museum, 46 Vanemuise Str, EE-51003 Tartu, Estonia
3.Gothenburg Global Biodivers Ctr, Box 461, S-40530 Gothenburg, Sweden
4.Henrik Nilsson, R.] Univ Gothenburg, Dept Biol & Environm Sci, Gothenburg, Sweden
5.Lindahl, Bjorn D.] Swedish Univ Agr Sci, Dept Soil & Environm, Box 7014, S-75007 Uppsala, Sweden
6.Swedish Univ Agr Sci, Dept Forest Mycol & Plant Pathol, Box 7026, S-75007 Uppsala, Sweden
7.Univ Oslo, Sect Genet & Evolutionary Biol EvoGene, Dept Biosci, POB 1066, NO-0316 Oslo, Norway
8.Univ Hawaii Manoa, 3190 Maile Way,St John 102, Honolulu, HI 96822 USA
9.Univ Copenhagen, Dept Biol, Univ Parken 15, DK-2100 Copenhagen O, Denmark
10.Bates, Scott T.] Purdue Univ Northwest, Westville, IN 46391 USA
11.Czech Acad Sci, Inst Microbiol, Videnska 1083, Prague 14220 4, Czech Republic
12.Univ Copenhagen, GLOBE Inst, Oster Farimagsgade 5,KH7-2-32, DK-1353 Copenhagen, Denmark
13.Univ Torino, Dipartimento Sci Vita & Biol Sistemi, Viale Mattioli 25, I-10125 Turin, Italy
14.Harvard Univ, Dept Organism & Evolutionary Biol, 22 Divin Ave, Cambridge, MA 02138 USA
15.Harvard Univ, Farlow Lib & Herbarium, 22 Divin Ave, Cambridge, MA 02138 USA
16.Blaihofstr 42, D-72074 Tubingen, Germany
17.SYNLAB Estonia, Veerenni 53a, EE-11313 Tallinn, Estonia
18.Univ Santo Tomas, Escuela Tecnol Med, Los Carreras 753, Osorno, Chile
19.Univ Mayor, Ctr Genom & Bioinformat, Camino La Piramide 5750, Santiago, Chile
20.Norwegian Inst Nat Res NINA, Sognsveien 68, N-0855 Oslo, Norway
21.Liu, Jian-Kui; Maharachchikumbura, Sajeewa S. N.] Univ Elect Sci & Technol China, Sch Life Sci & Technol, Chengdu 611731, Peoples R China
22.Univ Warsaw, Biol & Chem Res Ctr, Evolutionary Biol, Fac Biol, Ul Zwirki & Wigury 101, PL-02089 Warsaw, Poland
23.Swedish Museum Nat Hist, Dept Bot, POB 50007, S-10405 Stockholm, Sweden
24.Gothenburg Global Biodivers Ctr, POB 461, S-40530 Gothenburg, Sweden
25.Hyde, Kevin David; Samarakoon, Milan C.; Tian, Qing; Perera, Rekhani Hansika; Jayawardena, Ruvishika S.] Mae Fah Luang Univ, Ctr Excellence Fungal Res, Chiang Rai 57100, Thailand
26.Westerdijk Fungal Biodivers Inst, Utrecht, Netherlands
27.Smith, Matthew E.; Reynolds, Nicole K.] Univ Florida, Dept Plant Pathol, Gainesville, FL 32611 USA
28.Minist Primary Ind, Plant Hlth & Environm Lab, Auckland 1140, New Zealand
29.Wijayawardene, Nalin N.] Qujing Normal Univ, Ctr Yunnan Plateau Biol Resources Protect & Utili, Qujing 655011, Yunnan, Peoples R China
30.Menolli, Nelson, Jr.] Inst Fed Educ Ciencia & Tecnol Sao Paulo IFSP, Campus Sao Paulo,Rua Pedro Vicente 625, BR-01109010 Sao Paulo, SP, Brazil
31.Menolli, Nelson, Jr.] Inst Bot, Nucl Pesquisa Micol, Av Miguel Stefano 3687, BR-04301012 Sao Paulo, SP, Brazil
32.Estonian Univ Life Sci, Inst Agr & Environm Sci, Fr R Kreutzwaldi 5, EE-51006 Tartu, Estonia
33.Univ Fed Pernambuco, Dept Micol, Ave Engn,S-N Cidade Univ, BR-50740600 Recife, PE, Brazil
34.Univ Copenhagen, Globe Inst, Univ Parken 15, DK-2100 Copenhagen O, Denmark
35.Oak Ridge Inst Sci & Educ, ARS Res Participat Program, Oak Ridge, TN 37830 USA
36.All Russian Inst Plant Protect, Podbelskogo 3 Pushkin, St Petersburg 196608, Russia
37.Univ Rosario, Dept Biol, Carrera 24 63C-69, Bogota 111221, DC, Colombia
38.Univ Fed Rural Amazonia, Ciencias Biol, Rodovia PA-451,Km 03, BR-68680000 Bairro Acaizal, Brazil
39.Univ Nacl Autonoma Mexico, Inst Biol, Mexico City, DF, Mexico
40.Detheridge, Andrew; Griffith, Gareth W.] Aberystwyth Univ, Inst Biol Environm & Rural Sci, Aberystwyth, Dyfed, Wales
41.Univ Ghent, Dept Biol, Res Grp Mycol, Ledeganckstr 35, B-9000 Ghent, Belgium
42.West Bengal State Univ, Dept Bot, North-24-Parganas, Barasat 700126, W Bengal, India
43.Beijing Forestry Univ, Inst Microbiol, Sch Ecol & Nat Conservat, Beijing 100083, Peoples R China
44.Pradeep, C. K.] Jawaharlal Nehru Trop Bot Garden Res & Inst JNTBG, Thiruvananthapuram 695562, Kerala, India
45.Univ Higgins, Inst Agrifood Anim & Environm Sci ICA3, San Fernando 3070000, Chile
46.Pontificia Univ Catolica Chile, Ctr Appl Ecol & Sustainabil CAPES, Santiago 8320000, Chile
47.Univ Minnesota Twin Cities, Dept Ecol Evolut & Behav, St Paul, MN 55108 USA
48.Chinese Acad Sci, Kunming Inst Bot, CAS Key Lab Plant Divers & Biogeog East Asia, Kunming 650201, Yunnan, Peoples R China
49.Lumbsch, Thorsten H.; Nelsen, Matthew P.] Field Museum, Sci & Educ, 1400 S Lake Shore Dr, Chicago, IL 60605 USA
50.Lumbsch, Thorsten H.; Nelsen, Matthew P.] Field Museum, Grainger Bioinformat Ctr, 1400 S Lake Shore Dr, Chicago, IL 60605 USA
51.Leibniz Inst Freshwater Ecol & Inland Fisheries, Dept Expt Limnol, Alte Fischerhuette 2, D-16775 Stechlin, Germany
52.Univ Potsdam, Inst Biochem & Biol, Maulbeerallee 2, D-14469 Potsdam, Germany
53.Univ Guilan, Dept Plant Protect, Rasht, Iran
54.Univ Alaska, Inst Arctic Biol, 311 Irving Bldg,2140 Koyukuk Dr,POX 757000, Fairbanks, AK 99775 USA
55.Eszterhazy Karoly Univ, MTA EKE Lendulet Environm Microbiome Res Grp, Eger, Hungary
56.Estonian Univ Life Sci, Inst Agr & Environm Sci, Tartu, Estonia
57.Univ Tokyo, Dept Nat Environm Studies, 5-1-5 Kashiwanoha, Kashiwa, Chiba 2770882, Japan
58.Univ Costa Rica, Escuela Biol, San Jose 11501, Costa Rica
59.Latvian State Forest Res Inst Silava, Genet Resource Ctr, 111 Rigas Str, LV-2169 Salaspils, Latvia
60.Univ Sydney, Sydney Med Sch, Sydney, NSW, Australia
61.Univ Sydney, Westmead Clin Sch, Sydney, NSW, Australia
62.Univ Sydney, Westmead Inst Med Res, Sydney, NSW, Australia
63.Westmead Hosp, Sydney, NSW, Australia
64.Biol Res Ctr Szeged, H-6726 Szeged, Hungary
65.Chinese Acad Sci, Inst Microbiol, State Key Lab Mycol, Beijing 100101, Peoples R China
66.Hans Knoll Inst HKI, Leibniz Inst Nat Prod Res & Infect Biol, Natl Reference Ctr Invas Fungal Infect NRZMyk, Jena, Germany
67.Purdue Univ, Dept Bot & Plant Pathol, W Lafayette, IN 47907 USA
68.Pontificia Univ Catolica Chile, Dept Ecol, Alameda 340, CA, Chile
69.Uppsala Univ, Dept Organismal Biol, Uppsala, Sweden
70.Swedish Univ Agr Sci SLU, Southern Swedish Forest Res Ctr, Alnarp, Sweden
71.Swedish Univ Agr Sci, Dept Ecol, Uppsala, Sweden
72.Russian Acad Sci, Inst Plant & Anim Ecol, Ural Branch, 8th MarchSt 202-3, Ekaterinburg 620144, Russia
73.Manaaki Whenua Landcare Res, Private Bag 92170, Auckland 1142, New Zealand
74.Univ Chittagong, Inst Forestry & Environm Sci, Chittagong, Bangladesh
75.Brown, Shawn P.] Univ Memphis, Dept Biol Sci, Memphis, TN 38152 USA
76.United Arab Emirates Univ, Dept Biol, Coll Sci, Abu Dhabi, U Arab Emirates
77.Minist Nat Resources, Inst Oceanog 3, Key Lab Marine Biogenet Resources, 184 Daxue Rd, Xiamen 361005, Peoples R China
78.Univ Pretoria, Forestry Agr Biotechnol Inst FABI, Dept Biochem Genet & Microbiol, Pretoria, South Africa
79.Chinese Acad Sci, Inst Soil Sci, State Key Lab Soil & Sustainable Agr, East Beijing Rd 71, Nanjing 210008, Peoples R China
80.Royal Bot Gardens Victoria, Melbourne, Vic 3004, Australia
81.Ocean Univ China, Coll Marine Life Sci, Qingdao 266003, Peoples R China
82.Guizhou Inst Technol, Sch Food & Pharmaceut Engn, Guiyang 550003, Peoples R China
83.Mie Univ, Grad Sch Bioresources, Tsu, Mie, Japan
84.Hokkaido Univ, Arctic Res Ctr, Sapporo, Hokkaido, Japan
Recommended Citation
GB/T 7714
Polme,Sergei,Abarenkov,Kessy,Henrik Nilsson,R.,et al. FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles[J]. FUNGAL DIVERSITY,2020,105(1):1-16.
APA Polme,Sergei.,Abarenkov,Kessy.,Henrik Nilsson,R..,Lindahl,Bjorn D..,Clemmensen,Karina Engelbrecht.,...&Tedersoo,Leho.(2020).FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles.FUNGAL DIVERSITY,105(1),1-16.
MLA Polme,Sergei,et al."FungalTraits: a user-friendly traits database of fungi and fungus-like stramenopiles".FUNGAL DIVERSITY 105.1(2020):1-16.
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