|
|
|
题名
|
作者
|
年代
|
出处
|
被引量
|
| 1 | High-level classification of the Fungi and a tool for evolutionary ecological analyses显示文摘High-throughput sequencing studies generate vast amounts of taxonomic data.Evolutionary ecological hypotheses of the recovered taxa and Species Hypotheses are difficult to test due to problems with alignments and the lack of a phylogenetic backbone.We propose an updated phylum-and class-level fungal classification accounting for monophyly and divergence time so that the main taxonomic ranks are more informative.Based on phylogenies and divergence time estimates,we adopt phylum rank to Aphelidiomycota,Basidiobolomycota,Calcarisporiellomycota,Glomeromycota,Entomophthoromycota,Entorrhizomycota,Kickxellomycota,Monoblepharomycota,Mortierellomycota and Olpidiomycota.We accept nine subkingdoms to accommodate these 18 phyla.We consider the kingdom Nucleariae(phyla Nuclearida and Fonticulida)as a sister group to the Fungi.We also introduce a perl script and a newick-formatted classification backbone for assigning Species Hypotheses into a hierarchical taxonomic framework,using this or any other classification system.We provide an example of testing evolutionary ecological hypotheses based on a global soil fungal data set. | Leho Tedersoo Santiago Sanchez-Ramırez Urmas Koljalg Mohammad Bahram Markus Doring Dmitry Schigel Tom May Martin Ryberg Kessy Abarenkov | 2018 | Fungal Diversity2018，，3： | 7 |
| 2 | Towards a unified paradigm for sequence‐based identification of fungi显示文摘 | Urmas K?ljalg R. Henrik Nilsson Kessy Abarenkov Leho Tedersoo Andy F. S. Taylor Mohammad Bahram Scott T. Bates Thomas D. Bruns Johan Bengtsson‐Palme Tony M. Callaghan Brian Douglas Tiia Drenkhan Ursula Eberhardt Margarita Due?as Tine Grebenc Gareth W. Gri | 2013 | Mol Ecol2013，，21： | 2 |
| 3 | Identifying the ‘unidentified’ fungi: a global-scale long-read third-generation sequencing approach显示文摘Molecular identification methods,in particular high-throughput sequencing tools,have greatly improved our knowledge about fungal diversity and biogeography,but many of the recovered taxa from natural environments cannot be identified to species or even higher taxonomic levels.This study addresses the phylogenetic placement of previously unrecognized fungal groups by using two complementary approaches:(i)third-generation amplicon sequencing analysis of DNA from global soil samples,screening out ITS reads of<90%similarity to other available Sanger sequences,and(ii)analysis of common fungal taxa that were previously indicated to be enigmatic in terms of taxonomic placement based on the ITS sequences alone(so-called top50 sequences).For the global soil samples,we chose to amplify the full rRNA gene operon using four partly overlapping amplicons and multiple newly developed primers or primer combinations that cover nearly all fungi and a vast majority of non-fungal eukaryotes.We extracted the rRNA 18S(SSU)and 28S(LSU)genes and performed phylogenetic analyses against carefully selected reference material.Both SSU and LSU analyses placed most soil sequences and top50 sequences to known orders and classes,but tens of monophyletic groups and single sequences remained outside described taxa.Furthermore,the LSU analyses recovered a few small groups of sequences that may potentially represent novel phyla.We conclude that rRNA genes-based phylogenetic analyses are efficient tools for determining phylogenetic relationships of fungal taxa that cannot be placed to any order or class using ITS sequences alone.However,in many instances,longer rRNA gene sequences and availability of both SSU and LSU reads are needed to improve taxonomic resolution.By leveraging third-generation sequencing from global soil samples,we successfully provided phylogenetic placement for many previously unidentified sequences and broadened our view on the fungal tree of life,with 10-20%new order-level taxa.In addition,the PacBio sequence data greatly extends fungal class-level information in reference databases. | Leho Tedersoo Sten Anslan Mohammad Bahram Urmas Kõljalg Kessy Abarenkov | 2020 | Fungal Diversity2020，，4： | 2 |
| 4 | Revisiting ectomycorrhizal fungi of the genus alnus:differential host specificity,diversity and deter-minants of the fungal community显示文摘 | Tedersoo L Suvi T Jairus T | 2009 | New Phytologist2009，182，3： | 1 |
| 5 | Diversity and community structures of ectomycorrhizal fungi in a wooded meadow显示文摘 | Tedersoo L Suvi T Larsson E | 2006 | Mycological Research2006，110，： | 1 |
| 6 | Strong host preference of ectomycorrhizal fungi in a Tasmanian wet sclerophyll forest as revealed by DNA barcoding and taxon specific primers 显示文摘 | TEDERSOO L JAIRUS T HORTON B M | 2008 | New Phytologist2008，180，47： | 1 |
| 7 | Global diversity and geography of soil fungi 显示文摘 | Tedersoo L Bahram M Polme S | 2014 | Science2014，，12： | 1 |
| 8 | Temporal dynamics of ectomycorrhizal fimgi and persistence of Tuber melanosporum in inoculated Quercus robur seedlings in North Europe显示文摘 | Otsing E Tedersoo L | 2015 | Mycorrhiza2015，25，1： | 1 |
| 9 | FungalTraits:a user-friendly traits database of fungi and fungus-like stramenopiles显示文摘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 stud-ies.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. | Sergei Põlme Kessy Abarenkov RHenrik Nilsson Björn D.Lindahl Karina Engelbrecht Clemmensen Havard Kauserud Nhu Nguyen Rasmus Kjøller Scott T.Bates Petr Baldrian Tobias Guldberg Frøslev Kristjan Adojaan Alfredo Vizzini Ave Suija Donald Pfister Hans-Otto Baral Helle Järv Hugo Madrid Jenni Nordén Jian-Kui Liu Julia Pawlowska Kadri Põldmaa Kadri Pärtel Kadri Runnel Karen Hansen Karl-Henrik Larsson Kevin David Hyde Marcelo Sandoval-Denis Matthew E.Smith Merje Toome-Heller Nalin N.Wijayawardene Nelson Menolli Jr Nicole K.Reynolds Rein Drenkhan Sajeewa S.N.Maharachchikumbura Tatiana B.Gibertoni Thomas Læssøe William Davis Yuri Tokarev Adriana Corrales Adriene Mayra Soares Ahto Agan Alexandre Reis Machado Andrés Argüelles-Moyao Andrew Detheridge Angelina de Meiras-Ottoni Annemieke Verbeken Arun Kumar Dutta Bao-Kai Cui C.K.Pradeep César Marín Daniel Stanton Daniyal Gohar Dhanushka N.Wanasinghe Eveli Otsing Farzad Aslani Gareth W.Griffith Thorsten H.Lumbsch Hans-Peter Grossart Hossein Masigol Ina Timling Inga Hiiesalu Jane Oja John Y.Kupagme József Geml Julieta Alvarez-Manjarrez Kai Ilves Kaire Loit Kalev Adamson Kazuhide Nara Kati Küngas Keilor Rojas-Jimenez Krišs Bitenieks Laszlo Irinyi LászlóGNagy Liina Soonvald Li-Wei Zhou Lysett Wagner M.Catherine Aime MaarjaÖpik María Isabel Mujica Martin Metsoja Martin Ryberg Martti Vasar Masao Murata Matthew PNelsen Michelle Cleary Milan C.Samarakoon Mingkwan Doilom Mohammad Bahram Niloufar Hagh-Doust Olesya Dulya Peter Johnston Petr Kohout Qian Chen Qing Tian Rajasree Nandi Rasekh Amiri Rekhani Hansika Perera Renata dos Santos Chikowski Renato L.Mendes-Alvarenga Roberto Garibay-Orijel Robin Gielen Rungtiwa Phookamsak Ruvishika S.Jayawardena Saleh Rahimlou Samantha C.Karunarathna Saowaluck Tibpromma Shawn P.Brown Siim-Kaarel Sepp Sunil Mundra Zhu-Hua Luo Tanay Bose Tanel Vahter Tarquin Netherway Teng Yang Tom May Torda Varga Wei Li Victor Rafael Matos Coimbra Virton Rodrigo Targino de Oliveira Vitor Xavier de Lima Vladimir S.Mikryukov Yongzhong Lu Yosuke Matsuda Yumiko Miyamoto Urmas Kõljalg Leho Tedersoo | 2020 | Fungal Diversity2020，，6： | 1 |
| 10 | Revisiting ectomyeorrhizal fungi of the genus Alnus: Differential host specificity,diversity and deter-minants of the fungal community显示文摘 | Tedersoo L Suvi T Jairus T | 2009 | New Phytologist2009，182，3： | 1 |
| 11 | Strong host preference oq ectomycorrhizal fungi in a Tasmanian wet sclerophyll forest as re-I vealed by DNA barcoding and taxon-specific primers 显示文摘 | Tedersoo L Jairus T Horton B M | 2008 | NewI Phyto12008，180，2： | 1 |
| 12 | Improving ITS sequence data for identification of plant pathogenic fungi显示文摘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://gffzz7cc2bea597fa4d6chkknxbwubkov96pwx.ffgz.tsg.suse.edu.cn),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. | R.Henrik Nilsson Kevin D.Hyde Julia Pawlowska Martin Ryberg Leho Tedersoo Anders Bjornsgard Aas Siti A.Alias Artur Alves Cajsa Lisa Anderson Alexandre Antonelli A.Elizabeth Arnold Barbara Bahnmann Mohammad Bahram Johan Bengtsson-Palme Anna Berlin Sara Branco Putarak Chomnunti Asha Dissanayake Rein Drenkhan Hanna Friberg Tobias Guldberg Froslev Bettina Halwachs Martin Hartmann Beatrice Henricot Ruvishika Jayawardena Ari Jumpponen Havard Kauserud Sonja Koskela Tomasz Kulik Kare Liimatainen Bjorn D.Lindahl Daniel Lindner Jian-Kui Liu Sajeewa Maharachchikumbura Dimuthu Manamgoda Svante Martinsson Maria Alice Neves Tuula Niskanen Stephan Nylinder Olinto Liparini Pereira Danilo Batista Pinho Teresita M.Porter Valentin Queloz Taavi Riit Marisol Sánchez-García Filipe de Sousa Emil Stefańczyk Mariusz Tadych Susumu Takamatsu Qing Tian Dhanushka Udayanga Martin Unterseher Zheng Wang Saowanee Wikee Jiye Yan Ellen Larsson Karl-Henrik Larsson Urmas Koljalg Kessy Abarenkov | 2014 | Fungal Diversity2014，，4： | 1 |
| 13 | 454 Pyrosequencing and Sanger sequencing of tropical mycorrhizal fungi provide similar results but reveal substantial methodological biases显示文摘 | Tedersoo N Nilsson R H Abarenkov K | 2010 | New Phytologist2010，188，1： | 1 |
| 14 | Fungal associates of Pyrola rotundifolia, a mixotrophic Ericaceae, from two Estonian boreal forests显示文摘 | Vincenot L Tedersoo L Richard F | 2008 | Mycorrhiza2008，19，： | 1 |
| 15 | Temporal patterns of orchid mycorrhizal fungi in meadows and forests as revealed by 454 pyrosequencing显示文摘 | Oja J Kohout P Tedersoo L Kull T K@alg U | 2015 | New Phytologist2015，205，4： | 1 |
| 16 | Revisiting ectomyeorrhizal fungi of the genus Alnus: differential host specificity, diversity and determinants of the fungal community 显示文摘 | Tedersoo L Suvi T Jairus T | 2009 | New Phytol2009，182，： | 1 |
| 17 | Delimiting species in Basidiomycota:a review显示文摘Species delimitation is one of the most fundamental processes in biology.Biodiversity undertakings,for instance,require explicit species concepts and criteria for species delimitation in order to be relevant and translatable.However,a perfect species concept does not exist for Fungi.Here,we review the species concepts commonly used in Basidiomycota,the second largest phylum of Fungi that contains some of the best known species of mushrooms,rusts,smuts,and jelly fungi.In general,best practice is to delimitate species,publish new taxa,and conduct taxonomic revisions based on as many independent lines of evidence as possible,that is,by applying a so-called unifying(or integrative)conceptual framework.However,the types of data used vary considerably from group to group.For this reason we discuss the different classes of Basidiomycota,and for each provide:(i)a general introduction with difficulties faced in species recognition,(ii)species concepts and methods for species delimitation,and(iii)community recommendations and conclusions. | Bin Cao Danny Haelewaters Nathan Schoutteten Dominik Begerow Teun Boekhout Admir J.Giachini Sergio P.Gorjón Nina Gunde-Cimerman Kevin D.Hyde Martin Kemler Guo-Jie Li Dong-Mei Liu Xin-Zhan Liu Jorinde Nuytinck Viktor Papp Anton Savchenko Kyryll Savchenko Leho Tedersoo Bart Theelen Marco Thines Michal Tomšovský Merje Toome-Heller Judith P.Urón Annemieke Verbeken Alfredo Vizzini Andrey M.Yurkov Juan Carlos Zamora Rui-Lin Zhao | 2021 | Fungal Diversity2021，，4： | 1 |
| 18 | Strong host preference of ectomycorrhizal fungi in a tasmanian wet sclerophyll forest as revealed by DNA barcording and taxon-specific primer显示文摘 | Tedersoo L JairusT Horrton BM | 2008 | New Phytologist2008，180，： | 1 |
| 19 | Revisiting ectomycorrhizal fungi of the genus Alnus: differential host specificity, di- versity and determinants of the fungal community显示文摘 | Tedersoo L Suvi T Jairus T | 2009 | The New Phytologist2009，182，3： | 1 |
| 20 | Strong bost preference of ectomycorrhizal fungi in a tasmanian wet sclerophyll forest as re-vealed by DNAbarcording and taxon-specific primer显示文摘 | Tedersoo L JairusT Horrton B M | 2008 | NewPhy-tologist2008，180，： | 1 |
您所在的机构暂未开通此部分的功能，请联系管理员