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Finding needles in ...
Finding needles in haystacks: linking scientific names, reference specimens and molecular data for Fungi
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Schoch, Conrad L. (author)
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Robbertse, Barbara (author)
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Robert, Vincent (author)
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show more...
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Vu, Duong (author)
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Cardinali, Gianluigi (author)
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Irinyi, Laszlo (author)
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Meyer, Wieland (author)
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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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Hughes, Karen (author)
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Miller, Andrew N. (author)
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Kirk, Paul M. (author)
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Abarenkov, Kessy (author)
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Aime, M. Catherine (author)
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Ariyawansa, Hiran A. (author)
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Bidartondo, Martin (author)
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Boekhout, Teun (author)
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Buyck, Bart (author)
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Cai, Qing (author)
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Chen, Jie (author)
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Crespo, Ana (author)
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Crous, Pedro W. (author)
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Damm, Ulrike (author)
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Beer, Z. Wilhelm De (author)
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Dentinger, Bryn T. M. (author)
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Divakar, Pradeep K. (author)
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Dueñas, Margarita (author)
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Feau, Nicolas (author)
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Fliegerova, Katerina (author)
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García, Miguel A. (author)
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Ge, Zai-Wei (author)
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Griffith, Gareth W. (author)
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Groenewald, Johannes Z. (author)
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Groenewald, Marizeth (author)
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Grube, Martin (author)
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Gryzenhout, Marieka (author)
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Gueidan, Cécile (author)
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Guo, Liangdong (author)
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Hambleton, Sarah (author)
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Hamelin, Richard (author)
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- Hansen, Karen (author)
- Naturhistoriska riksmuseet,Enheten för botanik
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Hofstetter, Valérie (author)
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Hong, Seung-Beom (author)
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Houbraken, Jos (author)
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Hyde, Kevin D. (author)
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Inderbitzin, Patrik (author)
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Johnston, Peter R. (author)
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Karunarathna, Samantha C. (author)
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Kõljalg, Urmas (author)
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Kovács, Gábor M. (author)
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Kraichak, Ekaphan (author)
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Krizsan, Krisztina (author)
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Kurtzman, Cletus P. (author)
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Larsson, Karl-Henrik, 1948 (author)
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Leavitt, Steven (author)
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Letcher, Peter M. (author)
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Liimatainen, Kare (author)
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Liu, Jian-Kui (author)
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Lodge, D. Jean (author)
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Luangsaard, Janet Jennifer (author)
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Lumbsch, H. Thorsten (author)
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Maharachchikumbura, Sajeewa S.N. (author)
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Manamgoda, Dimuthu (author)
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Martín, María P. (author)
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Minnis, Andrew M. (author)
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Moncalvo, Jean-Marc (author)
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Mulè, Giuseppina (author)
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Nakasone, Karen K. (author)
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Niskanen, Tuula (author)
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Olariaga, Ibai (author)
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Papp, Tamás (author)
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Petkovits, Tamás (author)
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Pino-Bodas, Raquel (author)
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Powell, Martha J. (author)
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Raja, Huzefa A. (author)
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Redecker, Dirk (author)
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Sarmiento-Ramirez, J. M. (author)
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Seifert, Keith A. (author)
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Shrestha, Bhushan (author)
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Stenroos, Soili (author)
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Stielow, Benjamin (author)
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Suh, Sung-Oui (author)
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Tanaka, Kazuaki (author)
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Tedersoo, Leho (author)
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Telleria, M. Teresa (author)
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Udayanga, Dhanushka (author)
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Untereiner, Wendy A. (author)
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Uribeondo, Javier Diéguez (author)
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Subbarao, Krishna V. (author)
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Vágvölgyi, Csaba (author)
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Visagie, Cobus (author)
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Voigt, Kerstin (author)
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Walker, Donald M. (author)
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Weir, Bevan S. (author)
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Weiß, Michael (author)
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Wijayawardene, Nalin N. (author)
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Wingfield, Michael J. (author)
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Xu, J. P. (author)
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Yang, Zhu L. (author)
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Zhang, Ning (author)
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Zhuang, Wen-ying (author)
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Federhen, Scott (author)
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(creator_code:org_t)
- 2014-06-30
- 2014
- English.
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In: Database: The Journal of Biological Databases and Curation. - : Oxford University Press (OUP). - 1758-0463. ; 2014:bau061, s. 1-21
- Related links:
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https://gup.ub.gu.se... (primary) (free)
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https://doi.org/10.1...
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https://doi.org/10.1...
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https://gup.ub.gu.se...
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https://doi.org/10.1...
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https://urn.kb.se/re...
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Abstract
Subject headings
Close
- DNA phylogenetic comparisons have shown that morphology-based species recognition often underestimates fungal diversity. Therefore, the need for accurate DNA sequence data, tied to both correct taxonomic names and clearly annotated specimen data, has never been greater. Furthermore, the growing number of molecular ecology and microbiome projects using high-throughput sequencing require fast and effective methods for en masse species assignments. In this article, we focus on selecting and re-annotating a set of marker reference sequences that represent each currently accepted order of Fungi. The particular focus is on sequences from the internal transcribed spacer region in the nuclear ribosomal cistron, derived from type specimens and/or ex-type cultures. Re-annotated and verified sequences were deposited in a curated public database at the National Center for Biotechnology Information (NCBI), namely the RefSeq Targeted Loci (RTL) database, and will be visible during routine sequence similarity searches with NR_prefixed accession numbers. A set of standards and protocols is proposed to improve the data quality of new sequences, and we suggest how type and other reference sequences can be used to improve identification of Fungi.
Subject headings
- LANTBRUKSVETENSKAPER -- Lantbruksvetenskap, skogsbruk och fiske -- Markvetenskap (hsv//swe)
- AGRICULTURAL SCIENCES -- Agriculture, Forestry and Fisheries -- Soil Science (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 -- Biologisk systematik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Biological Systematics (hsv//eng)
- NATURVETENSKAP -- Biologi -- Ekologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Ecology (hsv//eng)
- NATURVETENSKAP -- Biologi -- Bioinformatik och systembiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Bioinformatics and Systems Biology (hsv//eng)
- NATURVETENSKAP -- Biologi -- Botanik (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Botany (hsv//eng)
- NATURVETENSKAP -- Biologi -- Mikrobiologi (hsv//swe)
- NATURAL SCIENCES -- Biological Sciences -- Microbiology (hsv//eng)
- NATURVETENSKAP -- Data- och informationsvetenskap -- Datavetenskap (hsv//swe)
- NATURAL SCIENCES -- Computer and Information Sciences -- Computer Sciences (hsv//eng)
- NATURVETENSKAP -- Data- och informationsvetenskap -- Systemvetenskap, informationssystem och informatik (hsv//swe)
- NATURAL SCIENCES -- Computer and Information Sciences -- Information Systems (hsv//eng)
Keyword
- Diversity of life
Publication and Content Type
- ref (subject category)
- art (subject category)
Find in a library
To the university's database
- By the author/editor
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Schoch, Conrad L ...
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Robbertse, Barba ...
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Robert, Vincent
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Vu, Duong
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Cardinali, Gianl ...
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Irinyi, Laszlo
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show more...
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Meyer, Wieland
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Nilsson, R. Henr ...
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Hughes, Karen
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Miller, Andrew N ...
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Kirk, Paul M.
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Abarenkov, Kessy
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Aime, M. Catheri ...
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Ariyawansa, Hira ...
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Bidartondo, Mart ...
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Boekhout, Teun
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Buyck, Bart
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Cai, Qing
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Chen, Jie
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Crespo, Ana
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Crous, Pedro W.
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Damm, Ulrike
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Beer, Z. Wilhelm ...
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Dentinger, Bryn ...
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Divakar, Pradeep ...
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Dueñas, Margarit ...
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Feau, Nicolas
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Fliegerova, Kate ...
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García, Miguel A ...
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Ge, Zai-Wei
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Griffith, Gareth ...
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Groenewald, Joha ...
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Groenewald, Mari ...
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Grube, Martin
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Gryzenhout, Mari ...
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Gueidan, Cécile
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Guo, Liangdong
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Hambleton, Sarah
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Hamelin, Richard
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Hansen, Karen
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Hofstetter, Valé ...
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Hong, Seung-Beom
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Houbraken, Jos
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Hyde, Kevin D.
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Inderbitzin, Pat ...
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Johnston, Peter ...
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Karunarathna, Sa ...
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Kõljalg, Urmas
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Kovács, Gábor M.
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Kraichak, Ekapha ...
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Krizsan, Kriszti ...
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Kurtzman, Cletus ...
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Larsson, Karl-He ...
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Leavitt, Steven
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Letcher, Peter M ...
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Liimatainen, Kar ...
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Liu, Jian-Kui
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Lodge, D. Jean
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Luangsaard, Jane ...
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Lumbsch, H. Thor ...
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Maharachchikumbu ...
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Manamgoda, Dimut ...
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Martín, María P.
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Minnis, Andrew M ...
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Moncalvo, Jean-M ...
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Mulè, Giuseppina
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Nakasone, Karen ...
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Niskanen, Tuula
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Olariaga, Ibai
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Papp, Tamás
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Petkovits, Tamás
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Pino-Bodas, Raqu ...
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Powell, Martha J ...
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Raja, Huzefa A.
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Redecker, Dirk
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Sarmiento-Ramire ...
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Seifert, Keith A ...
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Shrestha, Bhusha ...
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Stenroos, Soili
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Stielow, Benjami ...
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Suh, Sung-Oui
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Tanaka, Kazuaki
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Tedersoo, Leho
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Telleria, M. Ter ...
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Udayanga, Dhanus ...
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Untereiner, Wend ...
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Uribeondo, Javie ...
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Subbarao, Krishn ...
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Vágvölgyi, Csaba
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Visagie, Cobus
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Voigt, Kerstin
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Walker, Donald M ...
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Weir, Bevan S.
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Weiß, Michael
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Wijayawardene, N ...
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Wingfield, Micha ...
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Xu, J. P.
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Yang, Zhu L.
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Zhang, Ning
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Zhuang, Wen-ying
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Federhen, Scott
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show less...
- About the subject
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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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- 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 Biological Syste ...
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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 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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and Botany
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show more...
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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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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Computer and Inf ...
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and Computer Science ...
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- NATURAL SCIENCES
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NATURAL SCIENCES
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and Computer and Inf ...
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and Information Syst ...
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show less...
- Articles in the publication
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Database: The Jo ...
- By the university
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University of Gothenburg
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Swedish Museum of Natural History