Publications by authors named "Karen K Nakasone"

11 Publications

  • Page 1 of 1

Global Phylogeny and Taxonomy of the Wood-Decaying Fungal Genus (Polyporales, Basidiomycota).

Front Microbiol 2021 10;12:622460. Epub 2021 Feb 10.

Beijing Museum of Natural History, Beijing, China.

An in-depth study of the phylogeny and taxonomy of the corticioid genus (Phanerochaetaceae) was conducted. Phylogenetic analyses of the ITS1-5.8S-ITS2 and nrLSU sequences demonstrated that is a strongly supported clade which is distinct from its sister clades of , , and . Two genera, and , are reduced to synonyms under as generic type species and , respectively, are embedded in the clade. Twenty-four lineages are resolved in the ITS phylogenetic tree of , including six new taxa, viz. , , , , and , from Sri Lanka and China. Five new combinations, viz. , , , and , are proposed. is a morphological species complex with three distinct lineages. is determined to be a later synonym of . The new taxa are described, illustrated, and compared and contrasted to morphologically similar species. An emended description of is provided along with an identification key to 27 accepted species.
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http://dx.doi.org/10.3389/fmicb.2021.622460DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC7902713PMC
February 2021

Fomitopsis mounceae and F. schrenkii-two new species from North America in the F. pinicola complex.

Mycologia 2019 Mar-Apr;111(2):339-357. Epub 2019 Mar 25.

a Center for Forest Mycology Research, Northern Research Station, US Forest Service, One Gifford Pinchot Drive, Madison , Wisconsin 53726-2398.

Two new species, Fomitopsis mounceae and F. schrenkii (Polyporales, Basidiomycota) in the F. pinicola species complex in North America, are described and illustrated. Previous molecular phylogenetic analyses identified three well-delimited lineages that represent F. mounceae and F. ochracea from Canada, the Appalachian Mountains, and the northern United States and F. schrenkii from western and southwestern regions of the United States. Fomitopsis pinicola sensu stricto is restricted to Eurasia and does not occur in North America. Morphological descriptions of basidiocarps and cultures for F. mounceae, F. schrenkii, and F. ochracea are presented. The three species are readily differentiated by nuc rDNA internal transcribed spacer (ITS1-5.8S-ITS2 = ITS) sequence, geographic distribution, and basidiospore size. Polyporus ponderosus H. Schrenk is an earlier illegitimate synonym of F. schrenkii. Both F. mounceae and F. schrenkii have a heterothallic multiallelic incompatibility system.
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http://dx.doi.org/10.1080/00275514.2018.1564449DOI Listing
June 2019

Phylogenetic and morphological studies in (Hymenochaetales, Basidiomycota) with the addition of four new species.

MycoKeys 2019 28;47:97-137. Epub 2019 Feb 28.

Department of Ecology, University of Kassel, Heinrich-Plett-Str. 40, DE-34132, Kassel, Germany University of Kassel Kassel Germany.

(Hymenochaetales, Basidiomycota) is the largest segregate genus of s.l. Based on molecular and morphological data, 77 species are accepted in to date. Phylogenetic analyses of ITS and 28S sequences, including 38 new ITS and 20 28S sequences of species, revealed four species new to science. The new taxa , , and from Taiwan, Nepal, Réunion, Belize, and USA are described and illustrated. In addition, species concepts for from New Zealand and from U.S.A. are revised and the new name is proposed. Phylogenetic analyses of the ITS region placed , and in a strongly supported clade and demonstrated that they are conspecific. and are synonymised under based on morphological and sequence data. The following new combinations are proposed: , , , , and . Line drawings of , , and , as well as photographs of basidiomata, are provided. A key to and similar species is presented.
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http://dx.doi.org/10.3897/mycokeys.47.31130DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC6405736PMC
February 2019

Taxonomy and phylogeny of s.s., , and (Basidiomycota, Polyporales).

MycoKeys 2018 15(32):25-48. Epub 2018 Mar 15.

Beijing Advanced Innovation Centre for Tree Breeding by Molecular Design, Beijing Forestry University, Beijing 100083, China.

Eleven taxa of s.s., , and in Polyporales are included in the phylogenetic analyses of nuc rDNA ITS1-5.8S-ITS2 (ITS), D1-D2 domains of nuc 28S rDNA (28S) and RNA polymerase II second-largest subunit () sequences. New species and are described and illustrated. , from south-eastern China, is closely related to , and , from northern China, is related to and . specimens from temperate to tropical areas with varied hymenophore configurations all cluster together in a fully supported clade. and are shown to be synonyms of , which is phylogenetically related to . Four new combinations, , , and , are proposed. Revised generic descriptions of and are provided with keys to the six accepted species in each genus. A list of all names in and are presented with their current taxonomic status. Type specimens of and were examined and determined to be later synonyms of and , respectively.
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http://dx.doi.org/10.3897/mycokeys.32.23641DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC5904543PMC
March 2018

Phylogeny and taxonomy of Echinodontium and related genera.

Mycologia 2017 Jul-Aug;109(4):568-577. Epub 2017 Oct 11.

a Institute of Microbiology, Beijing Forestry University , Beijing 100083 , China.

The phylogenetic relationship of eight species of Echinodontium, Laurilia, and Perplexostereum of Russulales were analyzed based on sequences of the nuc rDNA ITS1-5.8S-ITS2 (ITS [internal transcribed spacer]) and D1-D2 domains of nuc 28S rDNA (28S). Our results show that Echinodontium tinctorium, E. ryvardenii, and E. tsugicola represent Echinodontium sensu stricto. Based on morphological and phylogenetic evidence, the new genus Echinodontiellum is established to accommodate Echinodontium japonicum. Amylostereum, Echinodontium, Echinodontiellum, and Larssoniporia form the Echinodontiaceae clade. The Bondarzewiaceae clade includes Bondarzewia, Heterobasidion, Laurilia, and Lauriliella. The new genus Lauriliella is established for the species initially described as Stereum taxodii and Lauriliella taiwanensis new to science. The monotypic genus Perplexostereum forms a distinct clade. A key to the genera in the Echinodontiaceae and Bondarzewiaceae as well to Perplexostereum is provided.
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http://dx.doi.org/10.1080/00275514.2017.1369830DOI Listing
November 2018

Finding needles in haystacks: linking scientific names, reference specimens and molecular data for Fungi.

Database (Oxford) 2014 30;2014. Epub 2014 Jun 30.

National Center for Biotechnology Information, National Library of Medicine, National Institutes of Health, Bethesda, Maryland, USA, CBS-KNAW Fungal Biodiversity Centre, P.O. Box 85167, 3508 AD Utrecht, The Netherlands, Department of Pharmaceutical Sciences - Microbiology, Università degli Studi di Perugia, Perugia, Italy, Molecular Mycology Research Laboratory, Centre for Infectious Diseases and Microbiology, Marie Bashir Institute for Infectious Diseases and Biosecurity, Sydney Medical School-Westmead Hospital, The University of Sydney, Westmead Millennium Institute, Westmead, Australia, Department of Biological and Environmental Sciences, University of Gothenburg, Box 461, 405 30 Göteborg, Sweden, Ecology and Evolutionary Biology, University of Tennessee, Knoxville, TN 37920, USA, Illinois Natural History Survey, University of Illinois, 1816 South Oak Street, Champaign, IL 61820, USA, Mycology Section, Jodrell Laboratory, Royal Botanic Gardens, Kew, Richmond, Surrey, TW9 3DS, UK, Natural History Museum, University of Tartu, 46 Vanemuise, 51014 Tartu, Estonia, Purdue University, Department of Botany and Plant Pathology, 915 W. State Street, West Lafayette, IN 47907, USA, Institute of Excellence in Fungal Research, and School of Science, Mae Fah Luang University, Chiang Rai 57100, Thailand, Imperial College London, Royal Botanic Gardens, Kew TW9 3DS, England, UK, Muséum National d'Histoire Naturelle, Dépt. Systématique et Evolution CP39, UMR7205, 12 Rue Buffon, F-75005 Paris, France, Kunming Institute of Botany, Chinese Academy of Sciences, Kunming 650201, Yunnan, P. R. China, Departamento de Biología Vegetal II, Facultad de Farmacia, Universidad Complutense de Madrid, Madrid 28040, Spain, Senckenberg Museum of Natural History Görlitz, PF 300 154, 02806 Görlitz, Germany, Department of Microbiology and Plant Pathology, Forestry Agricultural Biotechnology Institute (FABI), University of Pretoria, Pretoria 0001, South Africa, Real Jardín Botánico, RJB-CSIC,

DNA phylogenetic comparisons have shown that morphology-based species recognition often underestimates fungal diversity. Therefore, the need for accurate DNA sequence data, tied to both correct taxonomic names and clearly annotated specimen data, has never been greater. Furthermore, the growing number of molecular ecology and microbiome projects using high-throughput sequencing require fast and effective methods for en masse species assignments. In this article, we focus on selecting and re-annotating a set of marker reference sequences that represent each currently accepted order of Fungi. The particular focus is on sequences from the internal transcribed spacer region in the nuclear ribosomal cistron, derived from type specimens and/or ex-type cultures. Re-annotated and verified sequences were deposited in a curated public database at the National Center for Biotechnology Information (NCBI), namely the RefSeq Targeted Loci (RTL) database, and will be visible during routine sequence similarity searches with NR_prefixed accession numbers. A set of standards and protocols is proposed to improve the data quality of new sequences, and we suggest how type and other reference sequences can be used to improve identification of Fungi. Database URL: http://www.ncbi.nlm.nih.gov/bioproject/PRJNA177353.
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http://dx.doi.org/10.1093/database/bau061DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4075928PMC
February 2015

Paravertebral mushroom: identification of a novel species of Phellinus as a human pathogen in chronic granulomatous disease.

J Clin Microbiol 2014 Jul 14;52(7):2726-9. Epub 2014 May 14.

Department of Laboratory Medicine Clinical Center, National Institutes of Health, Bethesda, Maryland, USA

We describe a case of paravertebral abscess caused by a Phellinus sp. in a boy with chronic granulomatous disease. Sequence-based identification of this mold, a new agent of disease, suggests a close relation to Phellinus umbrinellus.
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http://dx.doi.org/10.1128/JCM.00667-14DOI Listing
http://www.ncbi.nlm.nih.gov/pmc/articles/PMC4097707PMC
July 2014

Hymenochaetales: a molecular phylogeny for the hymenochaetoid clade.

Mycologia 2006 Nov-Dec;98(6):926-36

Department of Plant and Molecular Sciences, Göteborg University, Sweden.

The hymenochaetoid clade is dominated by wood-decaying species previously classified in the artificial families Corticiaceae, Polyporaceae and Stereaceae. The majority of these species cause a white rot. The polypore Bridgeoporus and several corticicoid species with inconspicuous basidiomata live in association with brown-rotted wood, but their nutritional strategy is not known. Mycorrhizal habit is reported for Coltricia perennis but needs confirmttion. A surprising element in the hymenochaetoid clade is a group of small white to brightly pigmented agarics earlier classified in Omphalina. They form a subclade together with some similarly colored stipitate stereoid and corticioid species. Several are associated with living mosses or one-celled green algae. Hyphoderma pratermissum and some related corticioid species have specialized organs for trapping and killing nematodes as a source of nitrogen. There are no unequivocal morphological synapomorphies known for the hymenochaetoid clade. However almost all species examined ultrastructurally have dolipore septa with continuous parenthesomes while perforate parenthesomes is the normal condition for other homobasidiomycete clades. The agaricoid Hymenochaetales have not been examined. Within Hymenochaetales the Hymenochaetaceae forms a distinct clade but unfortunately all morphological characters supporting Hymenochaetaceae also are found in species outside the clade. Other subclades recovered by the molecular phylogenetic analyses are less uniform, and the overall resolution within the nuclear LSU tree presented here is still unsatisfactory.
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http://dx.doi.org/10.3852/mycologia.98.6.926DOI Listing
October 2007

Rhizochaete, a new genus of phanerochaetoid fungi.

Mycologia 2004 Mar-Apr;96(2):260-71

Centro de Investigación y Extensión Forestal Andino Patagónico (CIEFAP), C.C. 14, 9200 Esquel, Chubut, Argentina.

A new basidiomycete genus, Rhizochaete (Phanerochaetaceae, Polyporales), is described. Rhizochaete is characterized by a smooth to tuberculate, pellicular hymenophore and hyphal cords that turn red or violet in potassium hydroxide, monomitic hyphal system of simple or nodose septate hyphae, cystidia, and small, cylindrical to subglobose basidiospores. It morphologically is most similar to Phanerochaete. Analyses of nuclear ribosomal and internal-transcribed spacer region sequence data support a close relationship between Rhizochaete and Phanerochaete. The new taxon R. brunnea, from southern Argentina, is described and illustrated. In addition, the new combinations R. americana, R. borneensis, R. filamentosa, R. fouquieriae and R. radicata are proposed. A key to the species of Rhizochaete is provided.
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October 2012

Phylogenetic relationships of the genus Phanerochaete inferred from the internal transcribed spacer region.

Mycol Res 2003 Sep;107(Pt 9):1032-40

Department of Microbiology, University of Stellenbosch, Stellenbosch, Republic of South Africa.

Phanerochaete is a genus of resupinate homobasidiomycetes that are saprophytic on woody debris and logs. Morphological studies in the past indicated that Phanerochaete is a heterogeneous assemblage of species. In this study the internal transcribed spacer (ITS) region of the nuclear ribosomal DNA was used to test the monophyly of the genus Phanerocthaete and to infer phylogenetic relationships of the 24 taxa studied. Maximum parsimony, maximum likelihood, and Bayesian analyses do not support the monophyly of the genus. However, a core group of species represented by Phanerochaete velutina, P. chrysosporium, P. sordida, P. sanguinea and others are closely related and group together in a clade. Other common Phanerochaete species including Phanerochaete rimosa, P. chrysorhiza, P. omnivora, P. avellanea, P. tiberculata, P. flava, and P. allantospora, however, do not cluster with the core Phanerochaete group.
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http://dx.doi.org/10.1017/s095375620300827xDOI Listing
September 2003

New taxa of Hawaiian corticioid fungi are described with keys to Crustoderma, Radulomyces, and Scopuloides.

Mycologia 2003 May-Jun;95(3):467-73

Department of Plant Pathology, University of Arizona, Tucson, Arizona 85721.

Four new species of corticioid fungi from Hawaii are described and illustrated. The new genus Hemmesomyces is described to accommodate the new species H. puauluensis. Radulomyces tantalusensis, Crustoderma fuscatum and Scopuloides magnacystidiata also are described as new. In addition, the new combination Crustoderma vulcanense is proposed. Keys to the species of Crustoderma, Radulomyces and Scopuloides are provided.
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October 2012