Nomenclatural issues concerning cultured yeasts and other fungi: why it is important to avoid unneeded name changes.

Culture collection Metabolically inactive Nomenclatural type Typification Viable strains

Journal

IMA fungus
ISSN: 2210-6340
Titre abrégé: IMA Fungus
Pays: England
ID NLM: 101557546

Informations de publication

Date de publication:
13 Jul 2021
Historique:
received: 16 02 2021
accepted: 18 05 2021
entrez: 14 7 2021
pubmed: 15 7 2021
medline: 15 7 2021
Statut: epublish

Résumé

The unambiguous application of fungal names is important to communicate scientific findings. Names are critical for (clinical) diagnostics, legal compliance, and regulatory controls, such as biosafety, food security, quarantine regulations, and industrial applications. Consequently, the stability of the taxonomic system and the traceability of nomenclatural changes is crucial for a broad range of users and taxonomists. The unambiguous application of names is assured by the preservation of nomenclatural history and the physical organisms representing a name. Fungi are extremely diverse in terms of ecology, lifestyle, and methods of study. Predominantly unicellular fungi known as yeasts are usually investigated as living cultures. Methods to characterize yeasts include physiological (growth) tests and experiments to induce a sexual morph; both methods require viable cultures. Thus, the preservation and availability of viable reference cultures are important, and cultures representing reference material are cited in species descriptions. Historical surveys revealed drawbacks and inconsistencies between past practices and modern requirements as stated in the International Code of Nomenclature for Algae, Fungi, and Plants (ICNafp). Improper typification of yeasts is a common problem, resulting in a large number invalid yeast species names. With this opinion letter, we address the problem that culturable microorganisms, notably some fungi and algae, require specific provisions under the ICNafp. We use yeasts as a prominent example of fungi known from cultures. But viable type material is important not only for yeasts, but also for other cultivable Fungi that are characterized by particular morphological structures (a specific type of spores), growth properties, and secondary metabolites. We summarize potential proposals which, in our opinion, will improve the stability of fungal names, in particular by protecting those names for which the reference material can be traced back to the original isolate.

Identifiants

pubmed: 34256869
doi: 10.1186/s43008-021-00067-x
pii: 10.1186/s43008-021-00067-x
pmc: PMC8278710
doi:

Types de publication

Journal Article

Langues

eng

Pagination

18

Informations de copyright

© 2021. The Author(s).

Références

Yeast. 2016 Jul;33(7):243-60
pubmed: 27144478
IMA Fungus. 2020 Jul 10;11:14
pubmed: 32714773
Int J Syst Evol Microbiol. 2009 Apr;59(Pt 4):914-20
pubmed: 19329628
Antonie Van Leeuwenhoek. 2012 Nov;102(4):653-8
pubmed: 22733059
FEMS Yeast Res. 2008 Dec;8(8):1357-63
pubmed: 19054136
J Clin Microbiol. 2019 Jan 30;57(2):
pubmed: 30257904
Mikrobiologiia. 2002 Jul-Aug;71(4):526-32
pubmed: 12244724
Environ Microbiol. 2013 Oct;15(10):2631-41
pubmed: 23834245
Stud Mycol. 2015 Jun;81:149-89
pubmed: 26951631
Int J Syst Evol Microbiol. 2010 Jan;60(Pt 1):249-266
pubmed: 19700448
IMA Fungus. 2020 Oct 6;11:20
pubmed: 33062585
J Bacteriol. 1948 Mar;55(3):287-306
pubmed: 18902251
Anaerobe. 2016 Aug;40:95-9
pubmed: 27370902
FEMS Yeast Res. 2003 Jun;3(4):417-32
pubmed: 12748053
Stud Mycol. 2015 Jun;81:55-83
pubmed: 26955198
Fungal Syst Evol. 2019 Jun;3:57-134
pubmed: 32467898
PLoS One. 2015 Sep 16;10(9):e0136987
pubmed: 26375944
Extremophiles. 2014 Jul;18(4):707-21
pubmed: 24893860
Mycologia. 2013 Mar-Apr;105(2):486-95
pubmed: 23099516
Antimicrob Agents Chemother. 2005 Apr;49(4):1597-9
pubmed: 15793149
IMA Fungus. 2019 Dec 27;10:21
pubmed: 32647625
FEMS Yeast Res. 2020 Sep 1;20(6):
pubmed: 32710773
Microbiol Immunol. 2009 Jan;53(1):41-4
pubmed: 19161556
ScientificWorldJournal. 2012;2012:805659
pubmed: 22629202
Antonie Van Leeuwenhoek. 2014 Jul;106(1):67-84
pubmed: 24748333
Int J Syst Evol Microbiol. 2019 Jan;69(1A):S1-S111
pubmed: 26596770
Mycologia. 2018 Jan-Feb;110(1):179-191
pubmed: 29864002
IMA Fungus. 2010 Dec;1(2):109-16
pubmed: 22679569
FEMS Yeast Res. 2008 Sep;8(6):939-54
pubmed: 18671746
Yeast. 2020 Mar;37(3):251-252
pubmed: 32147858
MycoKeys. 2019 Feb 27;(47):75-95
pubmed: 30853836
Stud Mycol. 2020 Jan 28;96:17-140
pubmed: 32206137
Stud Mycol. 2015 Jun;81:85-147
pubmed: 26955199
IMA Fungus. 2021 May 3;12(1):11
pubmed: 33934723
Science. 2018 Jun 29;360(6396):1405-1406
pubmed: 29954970
Antonie Van Leeuwenhoek. 2011 Jan;99(1):13-23
pubmed: 20838888
Annu Rev Phytopathol. 2001;39:103-33
pubmed: 11701861
Cell. 2018 Nov 29;175(6):1533-1545.e20
pubmed: 30415838
FEMS Yeast Res. 2007 Dec;7(8):1399-408
pubmed: 17825066
J Clin Microbiol. 2021 Feb 18;59(3):
pubmed: 33268539

Auteurs

Andrey Yurkov (A)

Leibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstrasse 7B, 38124, Braunschweig, Germany. andrey.yurkov@dsmz.de.

Artur Alves (A)

Departamento de Biologia, CESAM - Centro de Estudos do Ambiente e do Mar, Universidade de Aveiro, 3810-193, Aveiro, Portugal.

Feng-Yan Bai (FY)

State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, No. 3-1 Beichen West Road., Chaoyang District, Beijing, 100101, People's Republic of China.

Kyria Boundy-Mills (K)

Department of Food Science and Technology, Phaff Yeast Culture Collection, University of California, Davis, One Shields Avenue, Davis, CA, 95616, USA.

Pietro Buzzini (P)

Department of Agricultural, Food and Environmental Sciences & Industrial Yeasts Collection DBVPG, University of Perugia, Borgo XX Giugno 74, 06121, Perugia, Italy.

Neža Čadež (N)

Department of Food Science and Technology, Biotechnical Faculty, University of Ljubljana, Jamnikarjeva ul. 101, 1000, Ljubljana, Slovenia.

Gianluigi Cardinali (G)

Department of Pharmaceutical Sciences, University of Perugia, Borgo XX Giugno 74, 06121, Perugia, Italy.

Serge Casaregola (S)

Micalis Institute, INRA, AgroParisTech, CIRM-Levures, Université Paris-Saclay, 78350, Jouy-en-Josas, France.

Vishnu Chaturvedi (V)

Mycology Laboratory, Wadsworth Center, New York State Department of Health, 120 New Scotland Avenue, Albany, NY, 12208, USA.

Valérie Collin (V)

BioMérieux, R&D Microbiologie, Route de Port Michaud, 38390, La Balme les Grottes, France.

Jack W Fell (JW)

Emeritus Professor, Marine Biology and Ecology, Rosenstiel School of Marine and Atmospheric Science, University of Miami, 4600 Rickenbacker Causeway, Key Biscayne, FL, 33149, USA.

Victoria Girard (V)

BioMérieux, R&D Microbiologie, Route de Port Michaud, 38390, La Balme les Grottes, France.

Marizeth Groenewald (M)

Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584CT, Utrecht, The Netherlands.

Ferry Hagen (F)

Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584CT, Utrecht, The Netherlands.

Chris Todd Hittinger (CT)

Laboratory of Genetics, Wisconsin Energy Institute, DOE Great Lakes Bioenergy Research Center, Center for Genomic Science Innovation, J. F. Crow Institute for the Study of Evolution, University of Wisconsin-Madison, 1552 University Avenue, Madison, WI, 53726-4084, USA.

Aleksey V Kachalkin (AV)

Faculty of Soil Science, Lomonosov Moscow State University, Leninskie Gory 1-12, 119991, Moscow, Russia.
All-Russian Collection of Microorganisms (VKM), Skryabin Institute of Biochemistry and Physiology of Microorganisms (IBPM RAS), Russian Academy of Sciences, Prospect Nauki 5, 142290, Puschino, Russia.

Markus Kostrzewa (M)

Bruker Daltonik GmbH, Fahrenheitstraße 4, 28359, Bremen, Germany.

Vassili Kouvelis (V)

Department of Genetics and Biotechnology, Faculty of Biology, National and Kapodistrian University of Athens, Panepistemiopolis, 15701, Athens, Greece.

Diego Libkind (D)

Centro de Referencia en Levaduras y Tecnología Cervecera (CRELTEC), Instituto Andino Patagónico de Tecnologías Biológicas y Geoambientales (IPATEC) CONICET - Universidad Nacional del Comahue, Quintral 1250, San Carlos de Bariloche, Rio Negro, Argentina.

Xinzhan Liu (X)

State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, No. 3-1 Beichen West Road., Chaoyang District, Beijing, 100101, People's Republic of China.

Thomas Maier (T)

Bruker Daltonik GmbH, Fahrenheitstraße 4, 28359, Bremen, Germany.

Wieland Meyer (W)

Molecular Mycology Research Laboratory, Center for Infectious Diseases and Microbiology, Westmead Clinical School, Sydney Medical School, Faculty of Medicine and Health, The University of Sydney, Camperdown, NSW, 2006, Australia.
Marie Bashir Institute for Infectious Diseases and Biosecurity, The University of Sydney, Camperdown, NSW, 2006, Australia.
Westmead Institute for Medical Research, 176 Hawkesbury Rd, Westmead, NSW, 2145, Australia.
Westmead Hospital (Research and Education Network), Darcy Rd, Westmead, NSW, 2145, Australia.

Gábor Péter (G)

National Collection of Agricultural and Industrial Microorganisms, Institute of Food Science and Technology, Hungarian University of Agriculture and Life Sciences, Somlói út 14-16, Budapest, H-1118, Hungary.

Marcin Piątek (M)

Department of Mycology, W. Szafer Institute of Botany of the Polish Academy of Sciences, Lubicz ul. 46, 31-512, Kraków, Poland.

Vincent Robert (V)

Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584CT, Utrecht, The Netherlands.

Carlos A Rosa (CA)

Departamento de Microbiologia, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Avenida Antônio Carlos, 6627 Pampulha, Belo Horizonte, MG, 31270-901, Brazil.

Jose Paulo Sampaio (JP)

UCIBIO, Departamento de Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Largo da Torre, 2825-149, Caparica, Portugal.
Departamento de Ciências da Vida, PYCC - Portuguese Yeast Culture Collection, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Largo da Torre, 2825-149, Caparica, Portugal.

Matthias Sipiczki (M)

Department of Genetics and Applied Microbiology, University of Debrecen, Egyetem tér 1, Debrecen, 4010, Hungary.

Marc Stadler (M)

Department Microbial Drugs, Helmholtz Centre for Infection Research, and German Centre for Infection Research (DZIF), partner site Hannover-Braunschweig, Inhoffenstrasse 7, 38124, Braunschweig, Germany.

Takashi Sugita (T)

Department of Microbiology, Meiji Pharmaceutical University, 2 Chome-522-1 Noshio, Kiyose, Tokyo, 204-8588, Japan.

Junta Sugiyama (J)

Department of Botany, National Museum of Nature and Science, 4-1-1 Amakubo, Tsukuba, Ibaraki, 305-0005, Japan.
TechnoSuruga Laboratory Co., Ltd., 388-1, Nagasaki, Shimuzu, Shizuoka, 424-0065, Japan.

Hiroshi Takagi (H)

Division of Biological Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara, 630-0192, Japan.

Masako Takashima (M)

Laboratory of Yeast Systematics, Research Institute for Agricultural and Life Sciences, Tokyo University of Agriculture, 1-1-1 Sakuragaoka, Setagaya, Tokyo, 156-8502, Japan.

Benedetta Turchetti (B)

Department of Agricultural, Food and Environmental Sciences & Industrial Yeasts Collection DBVPG, University of Perugia, Borgo XX Giugno 74, 06121, Perugia, Italy.

Qi-Ming Wang (QM)

State Key Laboratory of Mycology, Institute of Microbiology, Chinese Academy of Sciences, No. 3-1 Beichen West Road., Chaoyang District, Beijing, 100101, People's Republic of China.
College of Life Sciences, Hebei University, 180 Wusi Dong Road, Lian Chi District, Baoding City, Hebei Province, 071002, People's Republic of China.

Teun Boekhout (T)

Westerdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584CT, Utrecht, The Netherlands.
Institute of Biodiversity and Ecosystem Dynamics (IBED), University of Amsterdam, 904 Science Park, 1098 XH, Amsterdam, The Netherlands.

Classifications MeSH