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  1. Article ; Online: Evolutionary dependence of host type and chasmothecial appendage morphology in obligate plant parasites belonging to Erysipheae (powdery mildew, Erysiphaceae).

    Shirouzu, Takashi / Suzuki, Takao K / Matsuoka, Shunsuke / Takamatsu, Susumu

    Mycologia

    2024  , Page(s) 1–11

    Abstract: Evolutionary relationships between the morphological and ecological traits of fungi are poorly understood. The appendages of chasmothecia, which are sexual reproductive organs of Erysiphaceae, are considered to play a crucial role in the overwintering ... ...

    Abstract Evolutionary relationships between the morphological and ecological traits of fungi are poorly understood. The appendages of chasmothecia, which are sexual reproductive organs of Erysiphaceae, are considered to play a crucial role in the overwintering strategies of these fungi on host plants. Previous studies suggested that both the host type and appendage morphology evolved at the same nodes and transitioned from complex appendages on deciduous hosts to simple appendages on herb/evergreen hosts. However, the evolutionary dependence between host type and appendage morphology remains unproven owing to the limited species data used in analyses. To elucidate the evolutionary relationship between host type and appendage morphology, we used phylogenetic comparative methods (PCMs) to investigate the state transition, ancestral state, evolutionary dependence, and contingent evolution within Erysipheae, the largest and most diverse tribe in Erysiphaceae. Our PCMs, based on a comprehensive data set of Erysipheae, revealed that the most ancestral states were deciduous host types and complex appendages. From these ancestral states, convergent evolution toward the herb/evergreen host types and simple appendages occurred multiple times at the same nodes. For the first time in Erysiphaceae, we detected an evolutionary dependence between host type and appendage morphology. This is one of the few examples in which evolutionary dependence between host phenology and morphological traits in plant-parasitic fungi was demonstrated using PCMs. Appendage simplification on herb/evergreen hosts and complications on deciduous hosts can be reasonably explained by the functional advantages of each appendage type in different overwintering strategies. These expected appendage functions can explain approximately 90% of host type and appendage morphology combinations observed in the analyzed taxa. However, our results also highlighted the occurrence of evolutionary shifts that deviate from the expected advantages of each appendage morphology. These seemingly irrational shifts might be interpretable from the flexibility of overwintering strategies and quantification of appendage functions.
    Language English
    Publishing date 2024-04-12
    Publishing country England
    Document type Journal Article
    ZDB-ID 281335-x
    ISSN 1557-2536 ; 0027-5514
    ISSN (online) 1557-2536
    ISSN 0027-5514
    DOI 10.1080/00275514.2024.2327972
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  2. Article: Evolutionary patterns of host type and chasmothecial appendage morphology in obligate plant parasites belonging to Cystotheceae (powdery mildew, Erysiphaceae)

    Shirouzu, Takashi / Suzuki, Takao K. / Matsuoka, Shunsuke / Takamatsu, Susumu

    Mycologia. 2022 Jan. 02, v. 114, no. 1

    2022  

    Abstract: The chasmothecial appendages of Erysiphaceae are considered to function in the overwintering strategy and evolve morphologically in line with transitions of different host type. However, the evolutionary patterns and relationships of these traits have ... ...

    Abstract The chasmothecial appendages of Erysiphaceae are considered to function in the overwintering strategy and evolve morphologically in line with transitions of different host type. However, the evolutionary patterns and relationships of these traits have not yet been verified using statistical models based on phylogenetic information. We aimed to clarify the evolutionary process of host type and appendage morphology in Cystotheceae using phylogenetic comparative methods (PCMs) and to evaluate the evolutionary relationship of these traits. The ancestral state estimation of host types showed that the deciduous type is the most ancestral in Cystotheceae, and the herb or evergreen types evolved secondarily four times and twice, respectively. Branched- or circinate-type appendages were estimated to be the most ancestral, and the mycelioid and rudimentary types evolved secondarily thrice and once, respectively. The results of the random forest analysis showed that the host type was predictable from the phylogeny and appendage morphology. The ancestral state estimation suggested that simultaneous transitions of the host type and appendage morphology occurred at several ancestral nodes. These results suggest some functional relationships between host type and appendage morphology, but there was no statistical support for an overall trend in evolutionary dependence between these traits. Our results demonstrate the utility of PCMs in the study of trait evolution in Cystotheceae, which can be applied to a broader phylogeny of powdery mildews to elucidate the evolutionary relationship and functional causality of phenotypic traits.
    Keywords Erysiphaceae ; overwintering ; phenotype ; phylogeny ; powdery mildew
    Language English
    Dates of publication 2022-0102
    Size p. 35-45.
    Publishing place Taylor & Francis
    Document type Article
    ZDB-ID 281335-x
    ISSN 1557-2536 ; 0027-5514
    ISSN (online) 1557-2536
    ISSN 0027-5514
    DOI 10.1080/00275514.2021.1983352
    Database NAL-Catalogue (AGRICOLA)

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  3. Article ; Online: Evolutionary patterns of host type and chasmothecial appendage morphology in obligate plant parasites belonging to Cystotheceae (powdery mildew, Erysiphaceae).

    Shirouzu, Takashi / Suzuki, Takao K / Matsuoka, Shunsuke / Takamatsu, Susumu

    Mycologia

    2021  Volume 114, Issue 1, Page(s) 35–45

    Abstract: The chasmothecial appendages of Erysiphaceae are considered to function in the overwintering strategy and evolve morphologically in line with transitions of different host type. However, the evolutionary patterns and relationships of these traits have ... ...

    Abstract The chasmothecial appendages of Erysiphaceae are considered to function in the overwintering strategy and evolve morphologically in line with transitions of different host type. However, the evolutionary patterns and relationships of these traits have not yet been verified using statistical models based on phylogenetic information. We aimed to clarify the evolutionary process of host type and appendage morphology in Cystotheceae using phylogenetic comparative methods (PCMs) and to evaluate the evolutionary relationship of these traits. The ancestral state estimation of host types showed that the deciduous type is the most ancestral in Cystotheceae, and the herb or evergreen types evolved secondarily four times and twice, respectively. Branched- or circinate-type appendages were estimated to be the most ancestral, and the mycelioid and rudimentary types evolved secondarily thrice and once, respectively. The results of the random forest analysis showed that the host type was predictable from the phylogeny and appendage morphology. The ancestral state estimation suggested that simultaneous transitions of the host type and appendage morphology occurred at several ancestral nodes. These results suggest some functional relationships between host type and appendage morphology, but there was no statistical support for an overall trend in evolutionary dependence between these traits. Our results demonstrate the utility of PCMs in the study of trait evolution in Cystotheceae, which can be applied to a broader phylogeny of powdery mildews to elucidate the evolutionary relationship and functional causality of phenotypic traits.
    MeSH term(s) Animals ; Ascomycota/genetics ; Erysiphe ; Parasites ; Phylogeny ; Plant Diseases ; Plants
    Language English
    Publishing date 2021-12-06
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 281335-x
    ISSN 1557-2536 ; 0027-5514
    ISSN (online) 1557-2536
    ISSN 0027-5514
    DOI 10.1080/00275514.2021.1983352
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  4. Article ; Online: Identification of novel RNA mycoviruses from wild mushroom isolates in Japan.

    Zhao, Yan-Jie / Shirouzu, Takashi / Chiba, Yuto / Hosaka, Kentaro / Moriyama, Hiromitsu / Urayama, Syun-Ichi / Hagiwara, Daisuke

    Virus research

    2023  Volume 325, Page(s) 199045

    Abstract: The characterization of viruses from environmental samples could aid in our understanding of their ecological significance and potential for biotechnological exploitation. While there has been much focus on pathogenic fungi or commercially cultivated ... ...

    Abstract The characterization of viruses from environmental samples could aid in our understanding of their ecological significance and potential for biotechnological exploitation. While there has been much focus on pathogenic fungi or commercially cultivated mushrooms, attention to viruses from wild Basidiomycota mushrooms is lacking. Therefore, in this study, we conducted viral screening of fungal mycelia isolated from wild basidiocarps using agarose gel electrophoresis (AGE) and fragmented and primer-ligated dsRNA sequencing (FLDS). Among the 51 isolates, seven isolates were detected with virus-like bands during the initial screening with AGE, but only five isolates were detected with viruses after long-term storage. Using the FLDS method, we obtained seven viral genome sequences, including five double-stranded RNA (dsRNA) viruses belonging to Partitiviridae and Curvulaviridae, one positive-sense single-stranded RNA (ssRNA) virus belonging to Endornaviridae and one negative-sense ssRNA virus belonging to Tulasviridae (Bunyavirales). All viruses characterized in this study are novel species. These findings greatly expanded our knowledge of the diversity of RNA viruses from environmental samples.
    MeSH term(s) RNA, Viral/genetics ; Fungal Viruses ; Agaricales/genetics ; Japan ; RNA Viruses ; RNA, Double-Stranded/genetics ; Phylogeny ; Genome, Viral
    Chemical Substances RNA, Viral ; RNA, Double-Stranded
    Language English
    Publishing date 2023-01-18
    Publishing country Netherlands
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 605780-9
    ISSN 1872-7492 ; 0168-1702
    ISSN (online) 1872-7492
    ISSN 0168-1702
    DOI 10.1016/j.virusres.2023.199045
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  5. Article: Type study of Japanese Dacrymycetes described by Yosio Kobayasi: Redescriptions of five species and a new name proposal

    Shirouzu, Takashi / Tsuyoshi Hosoya

    The Mycological Society of Japan Mycoscience. 2017 May, v. 58, no. 3

    2017  

    Abstract: The Japanese mycologist, Yosio Kobayasi, described 16 species of Japanese Dacrymycetes. Almost all of the type specimens were thought to have been destroyed during World War II. In this study, Kobayasi's specimens were surveyed, and holotypes of six ... ...

    Abstract The Japanese mycologist, Yosio Kobayasi, described 16 species of Japanese Dacrymycetes. Almost all of the type specimens were thought to have been destroyed during World War II. In this study, Kobayasi's specimens were surveyed, and holotypes of six species, Dacrymyces adpressus Kobayasi, D. applanatus, D. pezizoides, D. puniceus, D. subalpinus, and Dacryopinax imazekiana, were found and recognized as distinct species. Dacrymyces adpressus Kobayasi, a later homonym of D. adpressus Grognot, was redescribed with a new name, D. kobayasii. The mycoflora of Japanese Dacrymycetes has been updated to 44 species in nine genera.
    Keywords Dacrymyces ; holotypes ; homonym ; nomen novum
    Language English
    Dates of publication 2017-05
    Size p. 129-136.
    Publishing place Elsevier B.V.
    Document type Article
    ZDB-ID 1285813-4
    ISSN 1618-2545 ; 1340-3540
    ISSN (online) 1618-2545
    ISSN 1340-3540
    DOI 10.1016/j.myc.2016.11.003
    Database NAL-Catalogue (AGRICOLA)

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  6. Article ; Online: Complementary molecular methods reveal comprehensive phylogenetic diversity integrating inconspicuous lineages of early-diverged wood-decaying mushrooms.

    Shirouzu, Takashi / Matsuoka, Shunsuke / Doi, Hideyuki / Nagata, Nobuaki / Ushio, Masayuki / Hosaka, Kentaro

    Scientific reports

    2020  Volume 10, Issue 1, Page(s) 3057

    Abstract: Among terrestrial microorganisms, mushroom-forming fungi have been relatively well investigated, however the inconspicuous strains may be overlooked by conventional visual investigations causing underestimation of their phylogenetic diversity. Herein, we ...

    Abstract Among terrestrial microorganisms, mushroom-forming fungi have been relatively well investigated, however the inconspicuous strains may be overlooked by conventional visual investigations causing underestimation of their phylogenetic diversity. Herein, we sought to obtain a comprehensive phylogenetic diversity profile for the early-diverging wood-decaying mushrooms Dacrymycetes, using an approach that combines fruiting-body collection, culture isolation, and environmental DNA (eDNA) metabarcoding of decaying branches. Among the 28 operational taxonomic units (OTUs) detected during a three-year investigation, 10 each were from fruiting bodies and cultured mycelia and 27 were detected as eDNA sequences. eDNA metabarcoding revealed various lineages across the Dacrymycetes phylogeny. Alternatively, fruiting-body and culture surveys uncovered only ~50% of the OTUs detected through eDNA metabarcoding, suggesting that several inconspicuous or difficult-to-isolate strains are latent in the environment. Further, eDNA and culture surveys revealed early-diverging clades that were not identified in the fruiting-body survey. Thus, eDNA and culture-based techniques can uncover inconspicuous yet phylogenetically important mushroom lineages that may otherwise be overlooked via typical visual investigations.
    MeSH term(s) Agaricales/classification ; Base Sequence ; Biodiversity ; Confidence Intervals ; DNA Barcoding, Taxonomic/methods ; Forests ; Linear Models ; Phylogeny ; Seasons ; Wood/microbiology
    Language English
    Publishing date 2020-02-20
    Publishing country England
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-020-59620-0
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  7. Article: Early-diverging wood-decaying fungi detected using three complementary sampling methods

    Shirouzu, Takashi / Kentaro Hosaka / Kunihiko Uno / Tsuyoshi Hosoya

    Molecular phylogenetics and evolution. 2016 May, v. 98

    2016  

    Abstract: Wood-decaying fungi are essential components of degradation systems in forest ecosystems. However, their species diversity and ecological features are largely unknown. Three methods are commonly used to investigate fungal diversity: fruiting body ... ...

    Abstract Wood-decaying fungi are essential components of degradation systems in forest ecosystems. However, their species diversity and ecological features are largely unknown. Three methods are commonly used to investigate fungal diversity: fruiting body collection, culturing, and environmental DNA analysis. Because no single method fully characterises fungal diversity, complementary approaches using two or more methods are required. However, few studies have compared the different methods and determined the best way to characterise fungal diversity. To this end, we investigated wood-decomposing Dacrymycetes (Agaricomycotina, Basidiomycota) using a complementary approach combining fruiting body collection, culturing, and environmental DNA analysis, thereby offering an effective approach for investigating the diversity of saprotrophic mushrooms. Fruiting body collection, culturing, and environmental DNA analysis detected 11, 10, and 16 operational taxonomic units (OTUs; 25 OTUs in total) and identified three, seven, and seven novel lineages, respectively. The three methods were complementary to each other to detect greater Dacrymycetes diversity. The culturing and environmental DNA analysis identified three early-diverging lineages that were not identified in the fruiting body collection suggesting that diverse lineages lacking observable fruiting bodies remain undiscovered. Such lineages may be important to understand Dacrymycetes evolution. To detect early branches of Dacrymycetes more efficiently, we recommend a combined approach consisting of a primary environmental DNA survey to detect novel lineages and a secondary culture survey to isolate their living mycelia. This approach would be helpful for identifying otherwise-undetectable lineages, and could thus uncover missing links that are important for understanding the evolution of mushroom-forming fungi.
    Keywords Dacrymycetes ; decay fungi ; DNA ; evolution ; forest ecosystems ; fruiting bodies ; mushrooms ; mycelium ; saprotrophs ; species diversity ; surveys
    Language English
    Dates of publication 2016-05
    Size p. 11-20.
    Publishing place Elsevier Inc.
    Document type Article
    ZDB-ID 33610-5
    ISSN 1095-9513 ; 1055-7903
    ISSN (online) 1095-9513
    ISSN 1055-7903
    DOI 10.1016/j.ympev.2016.01.015
    Database NAL-Catalogue (AGRICOLA)

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  8. Article ; Online: Early-diverging wood-decaying fungi detected using three complementary sampling methods.

    Shirouzu, Takashi / Uno, Kunihiko / Hosaka, Kentaro / Hosoya, Tsuyoshi

    Molecular phylogenetics and evolution

    2016  Volume 98, Page(s) 11–20

    Abstract: Wood-decaying fungi are essential components of degradation systems in forest ecosystems. However, their species diversity and ecological features are largely unknown. Three methods are commonly used to investigate fungal diversity: fruiting body ... ...

    Abstract Wood-decaying fungi are essential components of degradation systems in forest ecosystems. However, their species diversity and ecological features are largely unknown. Three methods are commonly used to investigate fungal diversity: fruiting body collection, culturing, and environmental DNA analysis. Because no single method fully characterises fungal diversity, complementary approaches using two or more methods are required. However, few studies have compared the different methods and determined the best way to characterise fungal diversity. To this end, we investigated wood-decomposing Dacrymycetes (Agaricomycotina, Basidiomycota) using a complementary approach combining fruiting body collection, culturing, and environmental DNA analysis, thereby offering an effective approach for investigating the diversity of saprotrophic mushrooms. Fruiting body collection, culturing, and environmental DNA analysis detected 11, 10, and 16 operational taxonomic units (OTUs; 25 OTUs in total) and identified three, seven, and seven novel lineages, respectively. The three methods were complementary to each other to detect greater Dacrymycetes diversity. The culturing and environmental DNA analysis identified three early-diverging lineages that were not identified in the fruiting body collection suggesting that diverse lineages lacking observable fruiting bodies remain undiscovered. Such lineages may be important to understand Dacrymycetes evolution. To detect early branches of Dacrymycetes more efficiently, we recommend a combined approach consisting of a primary environmental DNA survey to detect novel lineages and a secondary culture survey to isolate their living mycelia. This approach would be helpful for identifying otherwise-undetectable lineages, and could thus uncover missing links that are important for understanding the evolution of mushroom-forming fungi.
    MeSH term(s) Basidiomycota/genetics ; Basidiomycota/growth & development ; Basidiomycota/isolation & purification ; Basidiomycota/metabolism ; DNA, Fungal/analysis ; DNA, Fungal/genetics ; Forests ; Fruiting Bodies, Fungal/isolation & purification ; Genetic Variation ; Mycelium/isolation & purification ; Phylogeny ; Wood/metabolism ; Wood/microbiology
    Chemical Substances DNA, Fungal
    Language English
    Publishing date 2016-05
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 33610-5
    ISSN 1095-9513 ; 1055-7903
    ISSN (online) 1095-9513
    ISSN 1055-7903
    DOI 10.1016/j.ympev.2016.01.015
    Database MEDical Literature Analysis and Retrieval System OnLINE

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  9. Article: Resource utilization of wood decomposers: mycelium nuclear phases and host tree species affect wood decomposition by Dacrymycetes

    Shirouzu, Takashi / Dai Hirose / Takashi Osono

    Fungal ecology. 2014 June, v. 9

    2014  

    Abstract: Throughout evolution, wood-decaying fungi have adapted to different woody plants, resulting in wide species diversity. Dacrymycetes, which are brown-rot fungi and include host-recurrent species, are useful for studying fungal adaptation to host trees. ... ...

    Abstract Throughout evolution, wood-decaying fungi have adapted to different woody plants, resulting in wide species diversity. Dacrymycetes, which are brown-rot fungi and include host-recurrent species, are useful for studying fungal adaptation to host trees. When estimating the decay abilities of basidiomycetes, the nuclear phases of the mycelium should be considered, since dikaryons are thought to be more efficient wood-decayers than monokaryons; however, the difference in their physiological performances remains largely untested. In this study, we verified the decay capabilities of dikaryotic and monokaryotic mycelia and tested the hypothesis that the host tree-recurrence of wood-decaying fungi results from their resource utilization in each host wood. The mass loss caused by eight dacrymycetous species from wood of four tree species was investigated in pure cultures. The decomposition ability of dikaryons was greater than that of monokaryons in these experiments. Dikaryotization is expected to raise certain physiological parameters, such as the quantity and variety of wood-decomposing enzymes, thus enhancing the decomposition rate of wood decomposers. The high decomposition ability of dikaryons suggests their superiority over monokaryons to survive under natural conditions. All dacrymycetous strains caused high mass loss from Pinus wood, the main host tree of Dacrymycetes. However, most of the individual tested strains did not cause the greatest mass loss from the wood of their original host group. This result suggested that host-recurrence can be partly explained by resource utilization, but it is likely that other micro-organisms and abiotic factors also affect host-recurrence in the field environment.
    Keywords brown-rot fungi ; Dacrymycetes ; decayed wood ; environmental factors ; enzymes ; evolution ; mycelium ; Pinus ; species diversity ; trees ; wood utilization ; woody plants
    Language English
    Dates of publication 2014-06
    Size p. 11-16.
    Publishing place Elsevier Ltd
    Document type Article
    ISSN 1754-5048
    DOI 10.1016/j.funeco.2014.01.008
    Database NAL-Catalogue (AGRICOLA)

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  10. Article: Host tree-recurrence of wood-decaying Dacrymycetes

    Shirouzu, Takashi / Hirose, Dai / Tokumasu, Seiji

    Fungal ecology. 2012 Oct., v. 5, no. 5

    2012  

    Abstract: Host-recurrence of wood-decaying polypores has been substantiated and some species of the class Dacrymycetes, consisting of wood-decaying jelly fungi, occur recurrently on coniferous and broad-leaved tree wood. However, there has been no quantitative ... ...

    Abstract Host-recurrence of wood-decaying polypores has been substantiated and some species of the class Dacrymycetes, consisting of wood-decaying jelly fungi, occur recurrently on coniferous and broad-leaved tree wood. However, there has been no quantitative analysis for Dacrymycetes. To evaluate their host-recurrence, the fruit body occurrence of Dacrymycetes was investigated at 60 sites, including 13 core sampling sites. A total of 577 samples of 28 species were collected. Principal component analysis revealed characteristic communities on conifers and broad-leaved trees. Binomial tests showed that 12 and four Dacrymycetes species occurred significantly more frequently on conifers and broad-leaved trees, respectively. Of these host-recurrent species, eight and two species exclusively occurred on conifers and broad-leaved trees, respectively, suggesting that some Dacrymycetes species have a strict host-recurrence on these tree groups.
    Keywords Dacrymycetes ; Tremellales ; conifers ; fruiting bodies ; principal component analysis ; quantitative analysis ; trees ; wood
    Language English
    Dates of publication 2012-10
    Size p. 562-570.
    Publishing place Elsevier Ltd
    Document type Article
    ISSN 1754-5048
    DOI 10.1016/j.funeco.2012.01.006
    Database NAL-Catalogue (AGRICOLA)

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