Molecular phylogenetic assessment of the genus Hyphodiscus with description of Hyphodiscus hyaloscyphoides sp. nov.

Hosoya, Tsuyoshi; Han, Jeon-Geon; Sung, Gi Ho; Hirayama, Yumiko; Tanaka, Kazuaki; Hosaka, Kentaro; Tanaka, Isshin; Shin, Hyeon Dong

doi:10.1007/s11557-010-0693-2

Cited by 13 publications

(11 citation statements)

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“…The genes targeted for the 15-gene analysis were the ribosomal genes (SSU, 5.8S, LSU), and genes commonly used in recent multi-gene studies that include Leotiomycetes -β-tubulin, EF1a, MCM7, mtSSU, RPB1 and RPB2 (e.g. Baral et al 2009;Chen et al 2016;Crous et al 2014;Han et al 2014;Hosoya et al 2010Hosoya et al , 2011Hustad and Miller 2011;Iturriaga et al 2017;Lorch et al 2013;Malloch et al 2016;Pärtel et al 2017;Sanoamuang et al 2013;Schoch et al 2009;Spatafora et al 2006;Zhao et al 2012).…”

Section: Gene Selectionmentioning

confidence: 99%

A multigene phylogeny toward a new phylogenetic classification of Leotiomycetes

Quijada²,

et al. 2019

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Fungi in the class Leotiomycetes are ecologically diverse, including mycorrhizas, endophytes of roots and leaves, plant pathogens, aquatic and aero-aquatic hyphomycetes, mammalian pathogens, and saprobes. These fungi are commonly detected in cultures from diseased tissue and from environmental DNA extracts. The identification of specimens from such character-poor samples increasingly relies on DNA sequencing. However, the current classification of Leotiomycetes is still largely based on morphologically defined taxa, especially at higher taxonomic levels. Consequently, the formal Leotiomycetes classification is frequently poorly congruent with the relationships suggested by DNA sequencing studies. Previous class-wide phylogenies of Leotiomycetes have been based on ribosomal DNA markers, with most of the published multi-gene studies being focussed on particular genera or families. In this paper we collate data available from specimens representing both sexual and asexual morphs from across the genetic breadth of the class, with a focus on generic type species, to present a phylogeny based on up to 15 concatenated genes across 279 specimens. Included in the dataset are genes that were extracted from 72 of the genomes available for the class, including 10 new genomes released with this study. To test the statistical support for the deepest branches in the phylogeny, an additional phylogeny based on 3156 genes from 51 selected genomes is also presented. To fill some of the taxonomic gaps in the 15-gene phylogeny, we further present an ITS gene tree, particularly targeting ex-type specimens of generic type species. A small number of novel taxa are proposed: Marthamycetales ord. nov., and Drepanopezizaceae and Mniaeciaceae fams. nov. The formal taxonomic changes are limited in part because of the ad hoc nature of taxon and specimen selection, based purely on the availability of data. The phylogeny constitutes a framework for enabling future taxonomically targeted studies using deliberate specimen selection. Such studies will ideally include designation of epitypes for the type species of those genera for which DNA is not able to be extracted from the original type specimen, and consideration of morphological characters whenever genetically defined clades are recognized as formal taxa within a classification.

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Section: Gene Selectionmentioning

confidence: 99%

A multigene phylogeny toward a new phylogenetic classification of Leotiomycetes

Quijada²,

et al. 2019

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“…Otani (1989) enumerated the Japanese mycobiota of Discomycetes, a taxon no longer used but still practical in the modern taxonomy, and enumerated 77 genera with 214 species in the order. Through our exploration and enumeration, we added 57 newly documented taxa in Japan, and 30 new taxa, including 2 genera (Otani, Hosoya, & Furuya, 1991;Hosoya et al, 1993;Kubono & Hosoya, 1994;Hosoya & Otani 1995, 1997a, 1997b, 1997cHosoya & Harada 1999;Hosoya, 2000Hosoya, , 2002Hosoya, , 2004Hosoya, , 2005Hosoya, , 2009Hosoya & Huhtinen 2002;Narumi-Saito, Hosoya, Sano, & Harada, 2006;Hosoya et al, 2010aHosoya et al, , 2010cHosoya et al, , 2011Hosoya, Sung, Han, & Shin, 2010d;Hosoya et al, 2012;Hosoya, Hosaka, Saito, Degawa, & Suzuki, 2013a;Hosoya et al, 2013b;Hosoya, Saito, & Sasagawa, 2013c;Zhao, Hosoya, Shirouzu, Kakishima, & Yamaoka, 2013;Han et al, 2014a;Hosoya, Zhao, & Degawa, 2014;Degawa et al, 2015;Gross, Hosoya, Zhao, & Baral, 2015;Itagaki, Nakamura, & Hosoya, 2019;Tochihara & Hosoya, 2019). These included new species, new genera of both sexual and asexual states, now being merged under single names (some examples are presented in Fig.…”

Section: Advances In Helotialean Mycobiota Exploitation In Japanmentioning

confidence: 99%

Systematics, ecology, and application of <i>Helotiales</i>: Recent progress and future perspectives for research with special emphasis on activities within Japan

Hosoya

2021

Mycoscience

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Helotiales is one of the most diverse groups of apothecial ascomycetes, including 3000-4000 taxa. Recent progress in the systematics, ecology, and their applications through research is herein reviewed based on the experiences of the author with a special emphasis on activities in Japan. In the past 30 y, more than 50 helotialean taxa have been added to the mycobiota of Japan, including new taxa. With the advent of molecular phylogeny, some families have been revisited, such as members with stroma (Sclerotiniaceae and Rutstroemiaceae) or hairs (Hyaloscyphaceae and Lachnaceae). Although the monophyly of Helotiales has not yet been demonstrated, our understanding of its phylogeny has greatly advanced. The unexpected ecological nature represented by endophytism has been revealed through barcoding and other molecular techniques. The research history of ash dieback is also reviewed, and the endophytism/saprophytism of the pathogen on its original host is discussed. Drug discoveries within Helotiales are reviewed, and successful examples are presented. As future perspectives, both the cumulation of occurrence and sequence data of Helotiales is greatly encouraged to elucidate this important group of fungi.

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“…(Raitviir 2004). Hosoya et al (2010) speculated that fungicolous association might stimulate formation of ascomata in the whole genus, as suggested by the frequent observation of other fungi near Hyphodiscus fruitbodies.…”

Section: Hyphodiscus Stereicolamentioning

confidence: 99%

“…The genus Hyphodiscus has been accepted as a member of Hyaloscyphaceae by most authors (Verkley 1993(Verkley , 1996Hosoya 2002;Raitviir 2004, Hosoya et al 2010 with unclear affinities based on rDNA sequences (Untereiner et al 2006, Bogale et al 2010. However, rDNA ITS and SSU sequences reveal that H. hymeniophilus is related to members of Hyaloscyphaceae and Dermateaceae but also to anamorphic helotialean root endophytes like Phialocephala (Vibrisseaceae) (Untereiner et al 2006, Bogale et al 2010.…”

Section: Hyphodiscus Stereicolamentioning

confidence: 99%