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dc.contributor.authorLücking, Robert
dc.contributor.authorAime, M Catherine
dc.contributor.authorRobbertse, Barbara
dc.contributor.authorMiller, Andrew N
dc.contributor.authorAriyawansa, Hiran A
dc.contributor.authorAoki, Takayuki
dc.contributor.authorCardinali, Gianluigi
dc.contributor.authorCrous, Pedro W
dc.contributor.authorDruzhinina, Irina S
dc.contributor.authorGeiser, David M
dc.contributor.authorHawksworth, David L
dc.contributor.authorHyde, Kevin D
dc.contributor.authorIrinyi, Laszlo
dc.contributor.authorJeewon, Rajesh
dc.contributor.authorJohnston, Peter R
dc.contributor.authorKirk, Paul M
dc.contributor.authorMalosso, Elaine
dc.contributor.authorMay, Tom W
dc.contributor.authorMeyer, Wieland
dc.contributor.authorÖpik, Maarja
dc.contributor.authorRobert, Vincent
dc.contributor.authorStadler, Marc
dc.contributor.authorThines, Marco
dc.contributor.authorVu, Duong
dc.contributor.authorYurkov, Andrey M
dc.contributor.authorZhang, Ning
dc.contributor.authorSchoch, Conrad L
dc.date.accessioned2020-11-27T10:00:47Z
dc.date.available2020-11-27T10:00:47Z
dc.date.issued2020-07-10
dc.identifier.citationIMA Fungus. 2020 Jul 10;11:14. doi: 10.1186/s43008-020-00033-z.en_US
dc.identifier.issn2210-6340
dc.identifier.pmid32714773
dc.identifier.doi10.1186/s43008-020-00033-z
dc.identifier.urihttp://hdl.handle.net/10033/622618
dc.description.abstractTrue fungi (Fungi) and fungus-like organisms (e.g. Mycetozoa, Oomycota) constitute the second largest group of organisms based on global richness estimates, with around 3 million predicted species. Compared to plants and animals, fungi have simple body plans with often morphologically and ecologically obscure structures. This poses challenges for accurate and precise identifications. Here we provide a conceptual framework for the identification of fungi, encouraging the approach of integrative (polyphasic) taxonomy for species delimitation, i.e. the combination of genealogy (phylogeny), phenotype (including autecology), and reproductive biology (when feasible). This allows objective evaluation of diagnostic characters, either phenotypic or molecular or both. Verification of identifications is crucial but often neglected. Because of clade-specific evolutionary histories, there is currently no single tool for the identification of fungi, although DNA barcoding using the internal transcribed spacer (ITS) remains a first diagnosis, particularly in metabarcoding studies. Secondary DNA barcodes are increasingly implemented for groups where ITS does not provide sufficient precision. Issues of pairwise sequence similarity-based identifications and OTU clustering are discussed, and multiple sequence alignment-based phylogenetic approaches with subsequent verification are recommended as more accurate alternatives. In metabarcoding approaches, the trade-off between speed and accuracy and precision of molecular identifications must be carefully considered. Intragenomic variation of the ITS and other barcoding markers should be properly documented, as phylotype diversity is not necessarily a proxy of species richness. Important strategies to improve molecular identification of fungi are: (1) broadly document intraspecific and intragenomic variation of barcoding markers; (2) substantially expand sequence repositories, focusing on undersampled clades and missing taxa; (3) improve curation of sequence labels in primary repositories and substantially increase the number of sequences based on verified material; (4) link sequence data to digital information of voucher specimens including imagery. In parallel, technological improvements to genome sequencing offer promising alternatives to DNA barcoding in the future. Despite the prevalence of DNA-based fungal taxonomy, phenotype-based approaches remain an important strategy to catalog the global diversity of fungi and establish initial species hypotheses.en_US
dc.language.isoenen_US
dc.publisherBMCen_US
dc.rightsAttribution 4.0 International*
dc.rights.urihttp://creativecommons.org/licenses/by/4.0/*
dc.subjectCOX1en_US
dc.subjectCOX2en_US
dc.subjectOxford Nanopore technologiesen_US
dc.subjectPacBioen_US
dc.subjectRPB2en_US
dc.subjectRead placementen_US
dc.subjectSpecies conceptsen_US
dc.subjectTEF1en_US
dc.titleUnambiguous identification of fungi: where do we stand and how accurate and precise is fungal DNA barcoding?en_US
dc.typeArticleen_US
dc.contributor.departmentHZI,Helmholtz-Zentrum für Infektionsforschung GmbH, Inhoffenstr. 7,38124 Braunschweig, Germany.en_US
dc.identifier.journalIMA fungusen_US
dc.source.volume11
dc.source.beginpage14
dc.source.endpage
refterms.dateFOA2020-11-27T10:00:48Z
dc.source.journaltitleIMA fungus
dc.source.countryEngland


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