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Improving ITS seque...
Improving ITS sequence data for identification of plant pathogenic fungi
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- Nilsson, R. Henrik, 1976 (author)
- Gothenburg University,Göteborgs universitet,Institutionen för biologi och miljövetenskap,Department of Biological and Environmental Sciences
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Hyde, Kevin D. (author)
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Pawłowska, Julia (author)
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show more...
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- Ryberg, Martin (author)
- Uppsala universitet,Systematisk biologi
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Tedersoo, Leho (author)
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Aas, Anders Bjørnsgard (author)
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- Antonelli, Alexandre, 1978 (author)
- Gothenburg University,Göteborgs universitet,Institutionen för biologi och miljövetenskap,Department of Biological and Environmental Sciences
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Alves, Artur (author)
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- Anderson, Cajsa Lisa (author)
- Gothenburg University,Göteborgs universitet,Institutionen för biologi och miljövetenskap,Department of Biological and Environmental Sciences
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- Antonelli, Alexandre, 1978 (author)
- Göteborgs universitet,University of Gothenburg
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Arnold, A. Elizabeth (author)
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Bahnmann, Barbara (author)
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Bahram, Mohammad (author)
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- Bengtsson-Palme, Johan, 1985 (author)
- Gothenburg University,Göteborgs universitet,Institutionen för biomedicin, avdelningen för infektionssjukdomar,Institute of Biomedicine, Department of Infectious Medicine
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- Berlin, Anna (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för skoglig mykologi och patologi,Department of Forest Mycology and Pathology
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Branco, Sara (author)
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Chomnunti, Putarak (author)
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Dissanayake, Asha (author)
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Drenkhan, Rein (author)
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- Friberg, Hanna (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för skoglig mykologi och patologi,Department of Forest Mycology and Pathology
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Frøslev, Tobias Guldberg (author)
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Halwachs, Bettina (author)
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Hartmann, Martin (author)
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Henricot, Beatrice (author)
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Jayawardena, Ruvishika (author)
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Jumpponen, Ari (author)
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Kauserud, Håvard (author)
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Koskela, Sonja (author)
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Kulik, Tomasz (author)
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Liimatainen, Kare (author)
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- Lindahl, Björn (author)
- Swedish University of Agricultural Sciences,Sveriges lantbruksuniversitet,Institutionen för skoglig mykologi och patologi,Department of Forest Mycology and Pathology
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Lindner, Daniel (author)
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Liu, Jian-Kui (author)
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Maharachchikumbura, Sajeewa (author)
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Manamgoda, Dimuthu (author)
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- Martinsson, Svante, 1985 (author)
- Gothenburg University,Göteborgs universitet,Institutionen för biologi och miljövetenskap,Department of Biological and Environmental Sciences
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Neves, Maria Alice (author)
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Niskanen, Tuula (author)
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Nylinder, Stephan, 1975 (author)
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Pereira, Olinto Liparini (author)
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Pinho, Danilo Batista (author)
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Porter, Teresita M. (author)
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Queloz, Valentin (author)
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Riit, Taavi (author)
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Sánchez-García, Marisol (author)
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- Sousa, Filipe de, 1982 (author)
- Gothenburg University,Göteborgs universitet,Institutionen för biologi och miljövetenskap,Department of Biological and Environmental Sciences
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Stefańczyk, Emil (author)
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Tadych, Mariusz (author)
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Takamatsu, Susumu (author)
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Tian, Qing (author)
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Udayanga, Dhanushka (author)
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Unterseher, Martin (author)
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Wang, Zheng, 1980 (author)
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Wikee, Saowanee (author)
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Yan, Jiye (author)
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- Larsson, Ellen, 1961 (author)
- Gothenburg University,Göteborgs universitet,Institutionen för biologi och miljövetenskap,Department of Biological and Environmental Sciences
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Larsson, Karl-Henrik, 1948 (author)
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Kõljalg, Urmas (author)
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Abarenkov, Kessy (author)
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- Nylinder, Nylinder, 1975- (author)
- Naturhistoriska riksmuseet,Enheten för botanik
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(creator_code:org_t)
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- 2014-05-15
- 2014
- English.
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In: Fungal Diversity. - : Springer Science and Business Media LLC. - 1560-2745 .- 1878-9129. ; 67:1, s. 11-19
- Related links:
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http://www.locus.ufv...
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https://research.cha...
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https://doi.org/10.1...
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https://urn.kb.se/re...
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https://res.slu.se/i...
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https://urn.kb.se/re...
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https://gup.ub.gu.se...
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Abstract
Subject headings
Close
- Plant pathogenic fungi are a large and diverse assemblage of eukaryotes with substantial impacts on natural ecosystems and human endeavours. These taxa often have complex and poorly understood life cycles, lack observable, discriminatory morphological characters, and may not be amenable to in vitro culturing. As a result, species identification is frequently difficult. Molecular (DNA sequence) data have emerged as crucial information for the taxonomic identification of plant pathogenic fungi, with the nuclear ribosomal internal transcribed spacer (ITS) region being the most popular marker. However, international nucleotide sequence databases are accumulating numerous sequences of compromised or low-resolution taxonomic annotations and substandard technical quality, making their use in the molecular identification of plant pathogenic fungi problematic. Here we report on a concerted effort to identify high-quality reference sequences for various plant pathogenic fungi and to re-annotate incorrectly or insufficiently annotated public ITS sequences from these fungal lineages. A third objective was to enrich the sequences with geographical and ecological metadata. The results – a total of 31,954 changes – are incorporated in and made available through the UNITE database for molecular identification of fungi (http://unite.ut.ee), including standalone FASTA files of sequence data for local BLAST searches, use in the next-generation sequencing analysis platforms QIIME and mothur, and related applications. The present initiative is just a beginning to cover the wide spectrum of plant pathogenic fungi, and we invite all researchers with pertinent expertise to join the annotation effort.
Subject headings
- NATURVETENSKAP -- Biologi -- Botanik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Botany (hsv//eng)
- NATURVETENSKAP -- Biologi -- Biologisk systematik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biological Systematics (hsv//eng)
- LANTBRUKSVETENSKAPER -- Lantbruksvetenskap, skogsbruk och fiske -- Markvetenskap (hsv//swe)
- AGRICULTURAL SCIENCES -- Agriculture, Forestry and Fisheries -- Soil Science (hsv//eng)
- LANTBRUKSVETENSKAPER -- Lantbruksvetenskap, skogsbruk och fiske -- Jordbruksvetenskap (hsv//swe)
- AGRICULTURAL SCIENCES -- Agriculture, Forestry and Fisheries -- Agricultural Science (hsv//eng)
- NATURVETENSKAP -- Biologi -- Ekologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Ecology (hsv//eng)
- NATURVETENSKAP -- Biologi -- Mikrobiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Microbiology (hsv//eng)
- LANTBRUKSVETENSKAPER -- Lantbruksvetenskap, skogsbruk och fiske -- Trädgårdsvetenskap/hortikultur (hsv//swe)
- AGRICULTURAL SCIENCES -- Agriculture, Forestry and Fisheries -- Horticulture (hsv//eng)
- MEDICIN OCH HÄLSOVETENSKAP -- Medicinska och farmaceutiska grundvetenskaper -- Mikrobiologi inom det medicinska området (hsv//swe)
- MEDICAL AND HEALTH SCIENCES -- Basic Medicine -- Microbiology in the medical area (hsv//eng)
- NATURVETENSKAP -- Biologi -- Bioinformatik och systembiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Bioinformatics and Systems Biology (hsv//eng)
- NATURVETENSKAP -- Biologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences (hsv//eng)
Keyword
- Phytopathogenic fungi
- Annotation
- Taxonomy
- ITS
- Molecular identification
- Diversity of life
- Phytopathogenic fungi ; Molecular identification ; ITS ; Taxonomy ; Annotation
Publication and Content Type
- art (subject category)
- ref (subject category)
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To the university's database
- By the author/editor
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Nilsson, R. Henr ...
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Hyde, Kevin D.
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Pawłowska, Julia
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Ryberg, Martin
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Tedersoo, Leho
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Aas, Anders Bjør ...
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show more...
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Antonelli, Alexa ...
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Alves, Artur
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Anderson, Cajsa ...
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Arnold, A. Eliza ...
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Bahnmann, Barbar ...
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Bahram, Mohammad
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Bengtsson-Palme, ...
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Berlin, Anna
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Branco, Sara
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Chomnunti, Putar ...
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Dissanayake, Ash ...
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Drenkhan, Rein
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Friberg, Hanna
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Frøslev, Tobias ...
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Halwachs, Bettin ...
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Hartmann, Martin
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Henricot, Beatri ...
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Jayawardena, Ruv ...
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Jumpponen, Ari
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Kauserud, Håvard
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Koskela, Sonja
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Kulik, Tomasz
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Liimatainen, Kar ...
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Lindahl, Björn
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Lindner, Daniel
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Liu, Jian-Kui
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Maharachchikumbu ...
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Manamgoda, Dimut ...
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Martinsson, Svan ...
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Neves, Maria Ali ...
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Niskanen, Tuula
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Nylinder, Stepha ...
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Pereira, Olinto ...
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Pinho, Danilo Ba ...
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Porter, Teresita ...
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Queloz, Valentin
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Riit, Taavi
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Sánchez-García, ...
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Sousa, Filipe de ...
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Stefańczyk, Emil
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Tadych, Mariusz
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Takamatsu, Susum ...
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Tian, Qing
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Udayanga, Dhanus ...
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Unterseher, Mart ...
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Wang, Zheng, 198 ...
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Wikee, Saowanee
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Yan, Jiye
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Larsson, Ellen, ...
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Larsson, Karl-He ...
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Kõljalg, Urmas
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Abarenkov, Kessy
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Nylinder, Nylind ...
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- About the subject
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Botany
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Biological Syste ...
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- AGRICULTURAL SCIENCES
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AGRICULTURAL SCI ...
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and Agriculture Fore ...
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and Soil Science
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- AGRICULTURAL SCIENCES
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AGRICULTURAL SCI ...
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and Agriculture Fore ...
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and Agricultural Sci ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Ecology
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Microbiology
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show more...
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- AGRICULTURAL SCIENCES
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AGRICULTURAL SCI ...
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and Agriculture Fore ...
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and Horticulture
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- MEDICAL AND HEALTH SCIENCES
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MEDICAL AND HEAL ...
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and Basic Medicine
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and Microbiology in ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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and Bioinformatics a ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Biological Scien ...
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show less...
- Articles in the publication
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Fungal Diversity
- By the university
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Chalmers University of Technology
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Uppsala University
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Swedish University of Agricultural Sciences
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Swedish Museum of Natural History
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University of Gothenburg