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Dramani R, Gouwakinnou GN, Houdanon RD, De Kesel A, Minter D, Yorou NS. Ecological niche modelling of Cantharellus species in Benin, and revision of their conservation status. FUNGAL ECOL 2022. [DOI: 10.1016/j.funeco.2022.101174] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/04/2022]
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Buyck B, Ndolo Ebika ST, De Kesel A, Hofstetter V. Tropical African Cantharellus Adans.: Fr. (Hydnaceae, Cantharellales) with Lilac-Purplish Tinges Revisited. CRYPTOGAMIE MYCOL 2020. [DOI: 10.5252/cryptogamie-mycologie2020v41a10] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Bart Buyck
- Institut de Systématique, Evolution, Biodiversité (ISYEB – UMR 7205), Muséum national d'Histoire naturelle, Sorbonne Université, CNRS, EPHE, case postale 39, 57 rue Cuvier, F-75231 Paris cedex 05 (France)
| | - Sydney T. Ndolo Ebika
- Faculté des Sciences et Techniques, Université Marien NGOUABI, 01 Avenue des Premiers Jeux Africains, B.P. 69, Brazzaville (République du Congo) and Initiative des Champignons et des Plantes du Congo (ICPC), 82 rue Oboko, B.P. 2300, Brazzaville (Répu
| | - André De Kesel
- Meise Botanic Garden, Nieuwelaan 38, BE-1860 Meise (Belgium)
| | - Valérie Hofstetter
- Department of plant protection, Agroscope Changins-Wadenswil Research Station ACW, Rte de Duiller, 1260, Nyon (Switzerland)
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Davoodian N, Jackson CJ, Holmes GD, Lebel T. Continental-scale metagenomics, BLAST searches, and herbarium specimens: The Australian Microbiome Initiative and the National Herbarium of Victoria. APPLICATIONS IN PLANT SCIENCES 2020; 8:e11392. [PMID: 33014636 PMCID: PMC7526432 DOI: 10.1002/aps3.11392] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 03/30/2020] [Accepted: 07/09/2020] [Indexed: 06/11/2023]
Abstract
PREMISE Motivated to make sensible interpretations of the massive volume of data from the Australian Microbiome Initiative (AusMic), we characterize the soil mycota of Australia. We establish operational taxonomic units (OTUs) from the data and compare these to GenBank and a data set from the National Herbarium of Victoria (MEL), Melbourne, Australia. We also provide visualizations of Agaricomycete diversity, drawn from our analyses of the AusMic sequences and taxonomy. METHODS The AusMic internal transcribed spacer (ITS) data were filtered to create OTUs, which were searched against the National Center for Biotechnology Information Nucleotide database and the MEL database. We further characterized a portion of our OTUs by graphing the counts of the families and orders of Agaricomycetes. We also graphed AusMic species determinations for Australian Agaricomycetes against latitude. RESULTS Our filtering process generated 192,325 OTUs; for Agaricomycetes, there were 27,730 OTUs. Based on the existing AusMic taxonomy at species level, we inferred the diversity of Australian Agaricomycetes against latitude to be lowest between -20 and -25 decimal degrees. DISCUSSION BLAST comparisons provided reciprocal insights between the three data sets, including the detection of unusual root-associated species in the AusMic data, insights into mushroom morphology from the MEL data, and points of comparison for the taxonomic determinations between AusMic, GenBank, and MEL. This study provides a tabulation of Australian fungi, different visual snapshots of a subset of those taxa, and a springboard for future studies.
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Affiliation(s)
| | | | | | - Teresa Lebel
- Royal Botanic Gardens VictoriaSouth YarraVictoria3141Australia
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Rossi W, Das K, Hembrom ME, Santamaria S, Parihar A, Ghosh A, Henkel TW, Hofstetter V, Randrianjohany É, Vizzini A, Wang XH, Buyck B. Fungal Biodiversity Profiles 91-100. CRYPTOGAMIE MYCOL 2020. [DOI: 10.5252/cryptogamie-mycologie2020v41a4] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/05/2022]
Affiliation(s)
- Walter Rossi
- Sect. Environmental Sciences, Dept. MeSVA, University of L'Aquila, I-67100 L'Aquila (Italy)
| | - Kanad Das
- Acharya Jagadish Chandra Bose Indian Botanic Garden, Botanical Survey of India, P. O. Botanic Garden, Howrah 711103 (India)
| | - Manoj Emanuel Hembrom
- Acharya Jagadish Chandra Bose Indian Botanic Garden, Botanical Survey of India, P. O. Botanic Garden,Howrah 711103 (India)
| | - Sergi Santamaria
- Unitat de Botànica, Departament de Biologia Animal, de Biologia Vegetal i d'Ecologia, Facultat de Biociències, Universitat Autònoma de Barcelona, 08193-Bellaterra, Barcelona (Spain)
| | - Arvind Parihar
- Acharya Jagadish Chandra Bose Indian Botanic Garden, Botanical Survey of India P. O. Botanic Garden, Howrah 711103 (India)
| | - Aniket Ghosh
- Department of Botany & Microbiology, H. N. B. Garhwal University (A Central University) Srinagar, Garhwal 246174, Uttarakhand (India)
| | - Terry W. Henkel
- Department of Biological Sciences, Humboldt State University, Arcata, California, 95521 (United States)
| | - Valerie Hofstetter
- Department of Plant Protection, Agroscope Changins-Wädenswil Research Station ACW, Route De Duiller, CH-1260 Nyon 1 (Switzerland)
| | - Émile Randrianjohany
- Centre national de Recherche sur l'Environnement (CNRE), BP 1739, Laboratoire de Microbiologie de l'Environnement (LME), Antananarivo (Madagascar)
| | - Alfredo Vizzini
- Department of Life Sciences and Systems Biology, University of Torino, Viale P.A. Mattioli 25, I-10125 Torino (Italy)
| | - Xiang-Hua Wang
- CAS Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences, Lanhei Road 132, Kunming 650201 (China)
| | - Bart Buyck
- ISYEB (CNRS, Sorbonne Université, EPHE) Institut de Systématique, Évolution, Biodiversité, Muséum national d'Histoire naturelle, case postale 39, 57 rue Cuvier, F-75231 Paris cedex 05 (France)
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He MQ, Zhao RL, Hyde KD, Begerow D, Kemler M, Yurkov A, McKenzie EHC, Raspé O, Kakishima M, Sánchez-Ramírez S, Vellinga EC, Halling R, Papp V, Zmitrovich IV, Buyck B, Ertz D, Wijayawardene NN, Cui BK, Schoutteten N, Liu XZ, Li TH, Yao YJ, Zhu XY, Liu AQ, Li GJ, Zhang MZ, Ling ZL, Cao B, Antonín V, Boekhout T, da Silva BDB, De Crop E, Decock C, Dima B, Dutta AK, Fell JW, Geml J, Ghobad-Nejhad M, Giachini AJ, Gibertoni TB, Gorjón SP, Haelewaters D, He SH, Hodkinson BP, Horak E, Hoshino T, Justo A, Lim YW, Menolli N, Mešić A, Moncalvo JM, Mueller GM, Nagy LG, Nilsson RH, Noordeloos M, Nuytinck J, Orihara T, Ratchadawan C, Rajchenberg M, Silva-Filho AGS, Sulzbacher MA, Tkalčec Z, Valenzuela R, Verbeken A, Vizzini A, Wartchow F, Wei TZ, Weiß M, Zhao CL, Kirk PM. Notes, outline and divergence times of Basidiomycota. FUNGAL DIVERS 2019. [DOI: 10.1007/s13225-019-00435-4] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
AbstractThe Basidiomycota constitutes a major phylum of the kingdom Fungi and is second in species numbers to the Ascomycota. The present work provides an overview of all validly published, currently used basidiomycete genera to date in a single document. An outline of all genera of Basidiomycota is provided, which includes 1928 currently used genera names, with 1263 synonyms, which are distributed in 241 families, 68 orders, 18 classes and four subphyla. We provide brief notes for each accepted genus including information on classification, number of accepted species, type species, life mode, habitat, distribution, and sequence information. Furthermore, three phylogenetic analyses with combined LSU, SSU, 5.8s, rpb1, rpb2, and ef1 datasets for the subphyla Agaricomycotina, Pucciniomycotina and Ustilaginomycotina are conducted, respectively. Divergence time estimates are provided to the family level with 632 species from 62 orders, 168 families and 605 genera. Our study indicates that the divergence times of the subphyla in Basidiomycota are 406–430 Mya, classes are 211–383 Mya, and orders are 99–323 Mya, which are largely consistent with previous studies. In this study, all phylogenetically supported families were dated, with the families of Agaricomycotina diverging from 27–178 Mya, Pucciniomycotina from 85–222 Mya, and Ustilaginomycotina from 79–177 Mya. Divergence times as additional criterion in ranking provide additional evidence to resolve taxonomic problems in the Basidiomycota taxonomic system, and also provide a better understanding of their phylogeny and evolution.
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