Literature DB >> 33903746

Fungal taxonomy and sequence-based nomenclature.

Robert Lücking1,2, M Catherine Aime2,3, Barbara Robbertse4, Andrew N Miller2,5, Takayuki Aoki2,6, Hiran A Ariyawansa2,7, Gianluigi Cardinali8, Pedro W Crous2,9,10, Irina S Druzhinina2,11,12, David M Geiser2,13, David L Hawksworth2,14,15,16,17, Kevin D Hyde2,18,19,20,21, Laszlo Irinyi22,23,24,25, Rajesh Jeewon26, Peter R Johnston2,27, Paul M Kirk28, Elaine Malosso2,29, Tom W May2,30, Wieland Meyer22,23,24,25, Henrik R Nilsson31, Maarja Öpik2,32, Vincent Robert8,9, Marc Stadler2,33,34, Marco Thines2,35,36, Duong Vu9, Andrey M Yurkov2,37, Ning Zhang2,38, Conrad L Schoch39,40.   

Abstract

The identification and proper naming of microfungi, in particular plant, animal and human pathogens, remains challenging. Molecular identification is becoming the default approach for many fungal groups, and environmental metabarcoding is contributing an increasing amount of sequence data documenting fungal diversity on a global scale. This includes lineages represented only by sequence data. At present, these taxa cannot be formally described under the current nomenclature rules. By considering approaches used in bacterial taxonomy, we propose solutions for the nomenclature of taxa known only from sequences to facilitate consistent reporting and communication in the literature and public sequence repositories.

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Year:  2021        PMID: 33903746     DOI: 10.1038/s41564-021-00888-x

Source DB:  PubMed          Journal:  Nat Microbiol        ISSN: 2058-5276            Impact factor:   17.745


  33 in total

1.  Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi.

Authors:  Conrad L Schoch; Keith A Seifert; Sabine Huhndorf; Vincent Robert; John L Spouge; C André Levesque; Wen Chen
Journal:  Proc Natl Acad Sci U S A       Date:  2012-03-27       Impact factor: 11.205

Review 2.  Early Diverging Fungi: Diversity and Impact at the Dawn of Terrestrial Life.

Authors:  Mary L Berbee; Timothy Y James; Christine Strullu-Derrien
Journal:  Annu Rev Microbiol       Date:  2017-05-19       Impact factor: 15.500

3.  Tempo and Mode of Genome Evolution in the Budding Yeast Subphylum.

Authors:  Xing-Xing Shen; Dana A Opulente; Jacek Kominek; Xiaofan Zhou; Jacob L Steenwyk; Kelly V Buh; Max A B Haase; Jennifer H Wisecaver; Mingshuang Wang; Drew T Doering; James T Boudouris; Rachel M Schneider; Quinn K Langdon; Moriya Ohkuma; Rikiya Endoh; Masako Takashima; Ri-Ichiroh Manabe; Neža Čadež; Diego Libkind; Carlos A Rosa; Jeremy DeVirgilio; Amanda Beth Hulfachor; Marizeth Groenewald; Cletus P Kurtzman; Chris Todd Hittinger; Antonis Rokas
Journal:  Cell       Date:  2018-11-08       Impact factor: 41.582

4.  Variation in the Internal Transcribed Spacer Region of Phakopsora pachyrhizi and Implications for Molecular Diagnostic Assays.

Authors:  Tomás Allen Rush; Jacob Golan; Alistair McTaggart; Cade Kane; R W Schneider; M Catherine Aime
Journal:  Plant Dis       Date:  2019-07-12       Impact factor: 4.438

5.  Genotypes and population genetics of cryptococcus neoformans and cryptococcus gattii species complexes in Europe and the mediterranean area.

Authors:  Massimo Cogliati; Marie Desnos-Ollivier; Ilka McCormick-Smith; Volker Rickerts; Kennio Ferreira-Paim; Wieland Meyer; Teun Boekhout; Ferry Hagen; Bart Theelen; Joäo Inácio; Beatriz Alonso; Maria F Colom; Luciana Trilles; Maria Teresa Montagna; Antonella De Donno; Serdar Susever; Cagri Ergin; Aristea Velegraki; Mohamed S Ellabib; Simona Nardoni; Cristina Macci; Laura Trovato; Ludovico Dipineto; Sevim Akcaglar; Emilija Mlinaric-Missoni; Sebastien Bertout; Ana C F Vencá; Ana C Sampaio; Giuseppe Criseo; Stéphane Ranque; Nilgün Çerikçioğlu; Anna Marchese; Luigi Vezzulli; Macit Ilkit; Vincenzo Pasquale; Itzhack Polacheck; Shawn R Lockhart
Journal:  Fungal Genet Biol       Date:  2019-04-03       Impact factor: 3.495

Review 6.  On the reclassification of species assigned to Candida and other anamorphic ascomycetous yeast genera based on phylogenetic circumscription.

Authors:  Heide-Marie Daniel; Marc-André Lachance; Cletus P Kurtzman
Journal:  Antonie Van Leeuwenhoek       Date:  2014-04-19       Impact factor: 2.271

Review 7.  Candida auris: The recent emergence of a multidrug-resistant fungal pathogen.

Authors:  Kaitlin Forsberg; Kate Woodworth; Maroya Walters; Elizabeth L Berkow; Brendan Jackson; Tom Chiller; Snigdha Vallabhaneni
Journal:  Med Mycol       Date:  2019-01-01       Impact factor: 4.076

8.  The amsterdam declaration on fungal nomenclature.

Authors:  David L Hawksworth; Pedro W Crous; Scott A Redhead; Don R Reynolds; Robert A Samson; Keith A Seifert; John W Taylor; Michael J Wingfield; Ozlem Abaci; Catherine Aime; Ahmet Asan; Feng-Yan Bai; Z Wilhelm de Beer; Dominik Begerow; Derya Berikten; Teun Boekhout; Peter K Buchanan; Treena Burgess; Walter Buzina; Lei Cai; Paul F Cannon; J Leland Crane; Ulrike Damm; Heide-Marie Daniel; Anne D van Diepeningen; Irina Druzhinina; Paul S Dyer; Ursula Eberhardt; Jack W Fell; Jens C Frisvad; David M Geiser; József Geml; Chirlei Glienke; Tom Gräfenhan; Johannes Z Groenewald; Marizeth Groenewald; Johannes de Gruyter; Eveline Guého-Kellermann; Liang-Dong Guo; David S Hibbett; Seung-Beom Hong; G Sybren de Hoog; Jos Houbraken; Sabine M Huhndorf; Kevin D Hyde; Ahmed Ismail; Peter R Johnston; Duygu G Kadaifciler; Paul M Kirk; Urmas Kõljalg; Cletus P Kurtzman; Paul-Emile Lagneau; C André Lévesque; Xingzhong Liu; Lorenzo Lombard; Wieland Meyer; Andrew Miller; David W Minter; Mohammad Javad Najafzadeh; Lorelei Norvell; Svetlana M Ozerskaya; Rasime Oziç; Shaun R Pennycook; Stephen W Peterson; Olga V Pettersson; William Quaedvlieg; Vincent A Robert; Constantino Ruibal; Johan Schnürer; Hans-Josef Schroers; Roger Shivas; Bernard Slippers; Henk Spierenburg; Masako Takashima; Evrim Taşkın; Marco Thines; Ulf Thrane; Alev Haliki Uztan; Marcel van Raak; János Varga; Aida Vasco; Gerard Verkley; Sandra I R Videira; Ronald P de Vries; Bevan S Weir; Neriman Yilmaz; Andrey Yurkov; Ning Zhang
Journal:  IMA Fungus       Date:  2011-06-07       Impact factor: 3.515

9.  Generic names in Magnaporthales.

Authors:  Ning Zhang; Jing Luo; Amy Y Rossman; Takayuki Aoki; Izumi Chuma; Pedro W Crous; Ralph Dean; Ronald P de Vries; Nicole Donofrio; Kevin D Hyde; Marc-Henri Lebrun; Nicholas J Talbot; Didier Tharreau; Yukio Tosa; Barbara Valent; Zonghua Wang; Jin-Rong Xu
Journal:  IMA Fungus       Date:  2016-06-08       Impact factor: 3.515

10.  Unambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding?

Authors:  Robert Lücking; M Catherine Aime; Barbara Robbertse; Andrew N Miller; Hiran A Ariyawansa; Takayuki Aoki; Gianluigi Cardinali; Pedro W Crous; Irina S Druzhinina; David M Geiser; David L Hawksworth; Kevin D Hyde; Laszlo Irinyi; Rajesh Jeewon; Peter R Johnston; Paul M Kirk; Elaine Malosso; Tom W May; Wieland Meyer; Maarja Öpik; Vincent Robert; Marc Stadler; Marco Thines; Duong Vu; Andrey M Yurkov; Ning Zhang; Conrad L Schoch
Journal:  IMA Fungus       Date:  2020-07-10       Impact factor: 3.515

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  20 in total

1.  Publicly Available and Validated DNA Reference Sequences Are Critical to Fungal Identification and Global Plant Protection Efforts: A Use-Case in Colletotrichum.

Authors:  Aaron H Kennedy; Conrad L Schoch; Glorimar Marrero; Vyacheslav Brover; Barbara Robbertse
Journal:  Plant Dis       Date:  2022-05-10       Impact factor: 4.614

Review 2.  Fungal biodiversity and conservation mycology in light of new technology, big data, and changing attitudes.

Authors:  Lotus A Lofgren; Jason E Stajich
Journal:  Curr Biol       Date:  2021-10-11       Impact factor: 10.900

Review 3.  Evolution of the human pathogenic lifestyle in fungi.

Authors:  Antonis Rokas
Journal:  Nat Microbiol       Date:  2022-05-04       Impact factor: 30.964

4.  Exploring genetic diversity, population structure, and phylogeography in Paracoccidioides species using AFLP markers.

Authors:  T N Roberto; J A de Carvalho; M A Beale; F Hagen; M C Fisher; R C Hahn; Z P de Camargo; A M Rodrigues
Journal:  Stud Mycol       Date:  2021-11-30       Impact factor: 16.097

5.  The curse of the uncultured fungus.

Authors:  Kessy Abarenkov; Erik Kristiansson; Martin Ryberg; Sandra Nogal-Prata; Daniela Gómez-Martínez; Katrin Stüer-Patowsky; Tobias Jansson; Sergei Põlme; Masoomeh Ghobad-Nejhad; Natàlia Corcoll; Ruud Scharn; Marisol Sánchez-García; Maryia Khomich; Christian Wurzbacher; R Henrik Nilsson
Journal:  MycoKeys       Date:  2022-02-02       Impact factor: 2.984

6.  New Names for Three Penicillium Strains Based on Updated Barcoding and Phylogenetic Analyses.

Authors:  Guohua Yin; Wayne M Jurick; Guozhu Zhao; Joan W Bennett
Journal:  Microbiol Resour Announc       Date:  2021-12-02

7.  The Study of the Germination Dynamics of Plasmopara viticola Oospores Highlights the Presence of Phenotypic Synchrony With the Host.

Authors:  Giuliana Maddalena; Giuseppe Russo; Silvia L Toffolatti
Journal:  Front Microbiol       Date:  2021-07-08       Impact factor: 5.640

Review 8.  Yeast Protein as an Easily Accessible Food Source.

Authors:  Monika Elżbieta Jach; Anna Serefko; Maria Ziaja; Marek Kieliszek
Journal:  Metabolites       Date:  2022-01-11

9.  Fungal Diversity and Composition of the Continental Solar Saltern in Añana Salt Valley (Spain).

Authors:  Maia Azpiazu-Muniozguren; Alba Perez; Aitor Rementeria; Irati Martinez-Malaxetxebarria; Rodrigo Alonso; Lorena Laorden; Javier Gamboa; Joseba Bikandi; Javier Garaizar; Ilargi Martinez-Ballesteros
Journal:  J Fungi (Basel)       Date:  2021-12-14

Review 10.  The evolving species concepts used for yeasts: from phenotypes and genomes to speciation networks.

Authors:  Teun Boekhout; M Catherine Aime; Dominik Begerow; Toni Gabaldón; Joseph Heitman; Martin Kemler; Kantarawee Khayhan; Marc-André Lachance; Edward J Louis; Sheng Sun; Duong Vu; Andrey Yurkov
Journal:  Fungal Divers       Date:  2021-06-26       Impact factor: 20.372

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