Evidence map›Paper›PMID 34256869›Full record

ArticleIMA fungus2021

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

Andrey Yurkov, Artur Alves, Feng-Yan Bai, Kyria Boundy-Mills, Pietro Buzzini, Neža Čadež, Gianluigi Cardinali, Serge Casaregola, Vishnu Chaturvedi, Valérie Collin and 26 more

Abstract read
In one paragraph

Article in IMA fungus, 2021. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 14 papers.

0numbers the graph read from it
0cells of the map it votes in
14citing papers in PubMed
–field-weighted citation impact
1 · What the graph read from it

What it found

Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.

The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.

2 · The registry

The trial behind it

Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.

Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.

3 · Its place in the literature

Who cites it

14 citing papers in PubMed.

  1. Article
  2. Article
  3. Article
  4. Review
  5. Article
  6. Article
  7. Review
  8. Article
  9. Name Changes for Fungi of Medical Importance, 2020 to 2021.Journal of clinical microbiology · 2023
    Review
  10. Article
  11. Article
  12. Article
  13. Taxonomy and phylogeny ofMycoscience · 2022
    Article
  14. Article
4 · The record

Corrections and comments

PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.

5 · Who and what money

Authors and funding

36 authors.

Andrey YurkovLeibniz Institute DSMZ-German Collection of Microorganisms and Cell Cultures, Inhoffenstrasse 7B, 38124, Braunschweig, Germany. andrey.yurkov@dsmz.de.ORCID http://orcid.org/0000-0002-1072-5166
Artur AlvesDepartamento de Biologia, CESAM - Centro de Estudos do Ambiente e do Mar, Universidade de Aveiro, 3810-193, Aveiro, Portugal.ORCID https://orcid.org/0000-0003-0117-2958
Feng-Yan BaiState 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.ORCID https://orcid.org/0000-0001-9823-6430
Kyria Boundy-MillsDepartment of Food Science and Technology, Phaff Yeast Culture Collection, University of California, Davis, One Shields Avenue, Davis, CA, 95616, USA.ORCID https://orcid.org/0000-0001-9272-5903
Pietro BuzziniDepartment of Agricultural, Food and Environmental Sciences & Industrial Yeasts Collection DBVPG, University of Perugia, Borgo XX Giugno 74, 06121, Perugia, Italy.ORCID https://orcid.org/0000-0001-6793-0606
Neža ČadežDepartment of Food Science and Technology, Biotechnical Faculty, University of Ljubljana, Jamnikarjeva ul. 101, 1000, Ljubljana, Slovenia.ORCID https://orcid.org/0000-0002-4987-0539
Gianluigi CardinaliDepartment of Pharmaceutical Sciences, University of Perugia, Borgo XX Giugno 74, 06121, Perugia, Italy.ORCID https://orcid.org/0000-0002-4522-7925
Serge CasaregolaMicalis Institute, INRA, AgroParisTech, CIRM-Levures, Université Paris-Saclay, 78350, Jouy-en-Josas, France.ORCID https://orcid.org/0000-0001-7140-8538
Vishnu ChaturvediMycology Laboratory, Wadsworth Center, New York State Department of Health, 120 New Scotland Avenue, Albany, NY, 12208, USA.ORCID https://orcid.org/0000-0002-3922-9676
Valérie CollinBioMérieux, R&D Microbiologie, Route de Port Michaud, 38390, La Balme les Grottes, France.
Jack W FellEmeritus Professor, Marine Biology and Ecology, Rosenstiel School of Marine and Atmospheric Science, University of Miami, 4600 Rickenbacker Causeway, Key Biscayne, FL, 33149, USA.ORCID https://orcid.org/0000-0002-9937-3258
Victoria GirardBioMérieux, R&D Microbiologie, Route de Port Michaud, 38390, La Balme les Grottes, France.
Marizeth GroenewaldWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584CT, Utrecht, The Netherlands.ORCID https://orcid.org/0000-0003-0835-5925
Ferry HagenWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584CT, Utrecht, The Netherlands.ORCID https://orcid.org/0000-0002-5622-1916
Chris Todd HittingerLaboratory 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.ORCID https://orcid.org/0000-0001-5088-7461
Aleksey V KachalkinFaculty of Soil Science, Lomonosov Moscow State University, Leninskie Gory 1-12, 119991, Moscow, Russia.ORCID https://orcid.org/0000-0002-4494-2468
Markus KostrzewaBruker Daltonik GmbH, Fahrenheitstraße 4, 28359, Bremen, Germany.ORCID https://orcid.org/0000-0002-7828-3624
Vassili KouvelisDepartment of Genetics and Biotechnology, Faculty of Biology, National and Kapodistrian University of Athens, Panepistemiopolis, 15701, Athens, Greece.ORCID https://orcid.org/0000-0001-6753-0872
Diego LibkindCentro 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.ORCID https://orcid.org/0000-0001-9687-6186
Xinzhan LiuState 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.ORCID https://orcid.org/0000-0002-6227-1987
Thomas MaierBruker Daltonik GmbH, Fahrenheitstraße 4, 28359, Bremen, Germany.ORCID https://orcid.org/0000-0002-7056-3576
Wieland MeyerMolecular 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.ORCID https://orcid.org/0000-0001-9933-8340
Gábor PéterNational 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.ORCID https://orcid.org/0000-0002-1118-0647
Marcin PiątekDepartment of Mycology, W. Szafer Institute of Botany of the Polish Academy of Sciences, Lubicz ul. 46, 31-512, Kraków, Poland.ORCID https://orcid.org/0000-0002-4968-2861
Vincent RobertWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584CT, Utrecht, The Netherlands.ORCID https://orcid.org/0000-0002-9370-4677
Carlos A RosaDepartamento de Microbiologia, Instituto de Ciências Biológicas, Universidade Federal de Minas Gerais, Avenida Antônio Carlos, 6627 Pampulha, Belo Horizonte, MG, 31270-901, Brazil.ORCID https://orcid.org/0000-0002-0056-9075
Jose Paulo SampaioUCIBIO, Departamento de Ciências da Vida, Faculdade de Ciências e Tecnologia, Universidade Nova de Lisboa, Largo da Torre, 2825-149, Caparica, Portugal.ORCID https://orcid.org/0000-0001-8145-5274
Matthias SipiczkiDepartment of Genetics and Applied Microbiology, University of Debrecen, Egyetem tér 1, Debrecen, 4010, Hungary.ORCID https://orcid.org/0000-0002-1059-1305
Marc StadlerDepartment Microbial Drugs, Helmholtz Centre for Infection Research, and German Centre for Infection Research (DZIF), partner site Hannover-Braunschweig, Inhoffenstrasse 7, 38124, Braunschweig, Germany.ORCID https://orcid.org/0000-0002-7284-8671
Takashi SugitaDepartment of Microbiology, Meiji Pharmaceutical University, 2 Chome-522-1 Noshio, Kiyose, Tokyo, 204-8588, Japan.ORCID https://orcid.org/0000-0002-2127-5017
Junta SugiyamaDepartment of Botany, National Museum of Nature and Science, 4-1-1 Amakubo, Tsukuba, Ibaraki, 305-0005, Japan.
Hiroshi TakagiDivision of Biological Science, Graduate School of Science and Technology, Nara Institute of Science and Technology, 8916-5 Takayama, Ikoma, Nara, 630-0192, Japan.ORCID https://orcid.org/0000-0002-1786-3174
Masako TakashimaLaboratory of Yeast Systematics, Research Institute for Agricultural and Life Sciences, Tokyo University of Agriculture, 1-1-1 Sakuragaoka, Setagaya, Tokyo, 156-8502, Japan.ORCID https://orcid.org/0000-0002-7686-8661
Benedetta TurchettiDepartment of Agricultural, Food and Environmental Sciences & Industrial Yeasts Collection DBVPG, University of Perugia, Borgo XX Giugno 74, 06121, Perugia, Italy.ORCID https://orcid.org/0000-0002-7370-3028
Qi-Ming WangState 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.ORCID https://orcid.org/0000-0002-2180-8135
Teun BoekhoutWesterdijk Fungal Biodiversity Institute, Uppsalalaan 8, 3584CT, Utrecht, The Netherlands.ORCID https://orcid.org/0000-0002-0476-3609

Funding

No grant is acknowledged in the PubMed record.

6 · The paper itself

Abstract

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.

Indexed as

Culture collectionMetabolically inactiveNomenclatural typeTypificationViable strains

Identifiers

PMID34256869
PMCPMC8278710

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Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.