Ima Fungus最新文献

{"title":"Ophiostomatoid fungi associated with pine bark beetles and infested pines in south-eastern Australia, including Graphilbum ipis-grandicollis sp. nov.","authors":"Conrad Trollip,&nbsp;Angus J Carnegie,&nbsp;Quang Dinh,&nbsp;Jatinder Kaur,&nbsp;David Smith,&nbsp;Ross Mann,&nbsp;Brendan Rodoni,&nbsp;Jacqueline Edwards","doi":"10.1186/s43008-021-00076-w","DOIUrl":"10.1186/s43008-021-00076-w","url":null,"abstract":"<p><p>The ophiostomatoid fungi are an assemblage of ascomycetes which are arguably best-known for their associations with bark and ambrosia beetles (Curculonidae) and blue stain (sap stain) of many economically important tree species. These fungi are considered a significant threat to coniferous forests, which has resulted in numerous studies characterising the diversity of bark beetles and their ophiostomatoid associates globally. The diversity of ophiostomatoid fungi present in Australian pine plantations, however, remains largely undetermined. The aims of this study were therefore to reconsider the diversity of ophiostomatoid fungi associated with Pinus in Australia, and to establish the baseline of expected taxa found within these plantation ecosystems. To achieve this, we reviewed Australian plant pathogen reference collections, and analysed samples collected during forest health surveillance programs from the major pine growing regions in south-eastern Australia. In total, 135 ophiostomatoid isolates (15 from reference collections and 120 collected during the current study) were assessed using morphological identification and ITS screening which putatively distinguished 15 taxonomic groups. Whole genome sequencing (WGS) of representative isolates from each taxon was performed to obtain high-quality sequence data for multi-locus phylogenetic analysis. Our results revealed a greater than expected diversity, expanding the status of ophiostomatoid fungi associated with Pinus in Australia to include 14 species from six genera in the Ophiostomatales and a single species residing in the Microascales. While most of these were already known to science, our study includes seven first records for Australia and the description of one new species, Graphilbum ipis-grandicollis sp. nov.. This study also provides an early example of whole genome sequencing (WGS) approaches replacing traditional PCR-based methods for taxonomic surveys. This not only allowed for robust multi-locus sequence extraction during taxonomic assessment, but also permitted the rapid establishment of a curated genomic database for ophiostomatoid fungi which will continue to aid in the development of improved diagnostic resources and capabilities for Australian biosecurity.</p>","PeriodicalId":54345,"journal":{"name":"Ima Fungus","volume":null,"pages":null},"PeriodicalIF":5.4,"publicationDate":"2021-09-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8408996/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39370852","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Fungi inhabiting attine ant colonies: reassessment of the genus Escovopsis and description of Luteomyces and Sympodiorosea gens. nov.","authors":"Quimi Vidaurre Montoya,&nbsp;Maria Jesus Sutta Martiarena,&nbsp;Rodolfo Bizarria,&nbsp;Nicole Marie Gerardo,&nbsp;Andre Rodrigues","doi":"10.1186/s43008-021-00078-8","DOIUrl":"https://doi.org/10.1186/s43008-021-00078-8","url":null,"abstract":"<p><p>Escovopsis is a diverse group of fungi, which are considered specialized parasites of the fungal cultivars of fungus-growing ants. The lack of a suitable taxonomic framework and phylogenetic inconsistencies have long hampered Escovopsis research. The aim of this study is to reassess the genus Escovopsis using a taxonomic approach and a comprehensive multilocus phylogenetic analysis, in order to set the basis of the genus systematics and the stage for future Escovopsis research. Our results support the separation of Escovopsis into three distinct genera. In light of this, we redefine Escovopsis as a monophyletic clade whose main feature is to form terminal vesicles on conidiophores. Consequently, E. kreiselii and E. trichodermoides were recombined into two new genera, Sympodiorosea and Luteomyces, as S. kreiselii and L. trichodermoides, respectively. This study expands our understanding of the systematics of Escovopsis and related genera, thereby facilitating future research on the evolutionary history, taxonomic diversity, and ecological roles of these inhabitants of the attine ant colonies.</p>","PeriodicalId":54345,"journal":{"name":"Ima Fungus","volume":null,"pages":null},"PeriodicalIF":5.4,"publicationDate":"2021-08-24","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8383443/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39354072","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Competing sexual-asexual generic names in Agaricomycotina (Basidiomycota) with recommendations for use.","authors":"Joost A Stalpers,&nbsp;Scott A Redhead,&nbsp;Tom W May,&nbsp;Amy Y Rossman,&nbsp;Jo Anne Crouch,&nbsp;Marc A Cubeta,&nbsp;Yu-Cheng Dai,&nbsp;Roland Kirschner,&nbsp;Gitta Jutta Langer,&nbsp;Karl-Henrik Larsson,&nbsp;Jonathan Mack,&nbsp;Lorelei L Norvell,&nbsp;Franz Oberwinkler,&nbsp;Viktor Papp,&nbsp;Peter Roberts,&nbsp;Mario Rajchenberg,&nbsp;Keith A Seifert,&nbsp;R Greg Thorn","doi":"10.1186/s43008-021-00061-3","DOIUrl":"https://doi.org/10.1186/s43008-021-00061-3","url":null,"abstract":"<p><p>With the change to one scientific name for fungal taxa, generic names typified by species with sexual or asexual morph types are being evaluated to determine which names represent the same genus and thus compete for use. In this paper generic names of the Agaricomycotina (Basidiomycota) were evaluated to determine synonymy based on their type. Forty-seven sets of sexually and asexually typified names were determined to be congeneric and recommendations are made for which generic name to use. In most cases the principle of priority is followed. However, 16 generic names are recommended for use that do not have priority and thus need to be protected: Aleurocystis over Matula; Armillaria over Acurtis and Rhizomorpha; Asterophora over Ugola; Botryobasidium over Acladium, Allescheriella, Alysidium, Haplotrichum, Physospora, and Sporocephalium; Coprinellus over Ozonium; Coprinopsis over Rhacophyllus; Dendrocollybia over Sclerostilbum and Tilachlidiopsis; Diacanthodes over Bornetina; Echinoporia over Echinodia; Neolentinus over Digitellus; Postia over Ptychogaster; Riopa over Sporotrichum; Scytinostroma over Artocreas, Michenera, and Stereofomes; Tulasnella over Hormomyces; Typhula over Sclerotium; and Wolfiporia over Gemmularia and Pachyma. Nine species names are proposed for protection: Botryobasidium aureum, B. conspersum, B. croceum, B. simile, Pellicularia lembosporum (syn. B. lembosporum), Phanerochaete chrysosporium, Polyporus metamorphosus (syn. Riopa metamorphosa), Polyporus mylittae (syn. Laccocephalum mylittae), and Polyporus ptychogaster (syn. Postia ptychogaster). Two families are proposed for protection: Psathyrellaceae and Typhulaceae. Three new species names and 30 new combinations are established, and one lectotype is designated.</p>","PeriodicalId":54345,"journal":{"name":"Ima Fungus","volume":null,"pages":null},"PeriodicalIF":5.4,"publicationDate":"2021-08-11","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8359032/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39311798","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Genomic characterization of three marine fungi, including Emericellopsis atlantica sp. nov. with signatures of a generalist lifestyle and marine biomass degradation.","authors":"Ole Christian Hagestad, Lingwei Hou, Jeanette H Andersen, Espen H Hansen, Bjørn Altermark, Chun Li, Eric Kuhnert, Russell J Cox, Pedro W Crous, Joseph W Spatafora, Kathleen Lail, Mojgan Amirebrahimi, Anna Lipzen, Jasmyn Pangilinan, William Andreopoulos, Richard D Hayes, Vivian Ng, Igor V Grigoriev, Stephen A Jackson, Thomas D S Sutton, Alan D W Dobson, Teppo Rämä","doi":"10.1186/s43008-021-00072-0","DOIUrl":"10.1186/s43008-021-00072-0","url":null,"abstract":"<p><p>Marine fungi remain poorly covered in global genome sequencing campaigns; the 1000 fungal genomes (1KFG) project attempts to shed light on the diversity, ecology and potential industrial use of overlooked and poorly resolved fungal taxa. This study characterizes the genomes of three marine fungi: Emericellopsis sp. TS7, wood-associated Amylocarpus encephaloides and algae-associated Calycina marina. These species were genome sequenced to study their genomic features, biosynthetic potential and phylogenetic placement using multilocus data. Amylocarpus encephaloides and C. marina were placed in the Helotiaceae and Pezizellaceae (Helotiales), respectively, based on a 15-gene phylogenetic analysis. These two genomes had fewer biosynthetic gene clusters (BGCs) and carbohydrate active enzymes (CAZymes) than Emericellopsis sp. TS7 isolate. Emericellopsis sp. TS7 (Hypocreales, Ascomycota) was isolated from the sponge Stelletta normani. A six-gene phylogenetic analysis placed the isolate in the marine Emericellopsis clade and morphological examination confirmed that the isolate represents a new species, which is described here as E. atlantica. Analysis of its CAZyme repertoire and a culturing experiment on three marine and one terrestrial substrates indicated that E. atlantica is a psychrotrophic generalist fungus that is able to degrade several types of marine biomass. FungiSMASH analysis revealed the presence of 35 BGCs including, eight non-ribosomal peptide synthases (NRPSs), six NRPS-like, six polyketide synthases, nine terpenes and six hybrid, mixed or other clusters. Of these BGCs, only five were homologous with characterized BGCs. The presence of unknown BGCs sets and large CAZyme repertoire set stage for further investigations of E. atlantica. The Pezizellaceae genome and the genome of the monotypic Amylocarpus genus represent the first published genomes of filamentous fungi that are restricted in their occurrence to the marine habitat and form thus a valuable resource for the community that can be used in studying ecological adaptions of fungi using comparative genomics.</p>","PeriodicalId":54345,"journal":{"name":"Ima Fungus","volume":null,"pages":null},"PeriodicalIF":5.4,"publicationDate":"2021-08-09","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8351168/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39296300","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Enlightening the black and white: species delimitation and UNITE species hypothesis testing in the Russula albonigra species complex.","authors":"Ruben De Lange,&nbsp;Slavomír Adamčík,&nbsp;Katarína Adamčíkova,&nbsp;Pieter Asselman,&nbsp;Jan Borovička,&nbsp;Lynn Delgat,&nbsp;Felix Hampe,&nbsp;Annemieke Verbeken","doi":"10.1186/s43008-021-00064-0","DOIUrl":"https://doi.org/10.1186/s43008-021-00064-0","url":null,"abstract":"<p><p>Russula albonigra is considered a well-known species, morphologically delimited by the context of the basidiomata blackening without intermediate reddening, and the menthol-cooling taste of the lamellae. It is supposed to have a broad ecological range and a large distribution area. A thorough molecular analysis based on four nuclear markers (ITS, LSU, RPB2 and TEF1-α) shows this traditional concept of R. albonigra s. lat. represents a species complex consisting of at least five European, three North American, and one Chinese species. Morphological study shows traditional characters used to delimit R. albonigra are not always reliable. Therefore, a new delimitation of the R. albonigra complex is proposed and a key to the described European species of R. subgen. Compactae is presented. A lectotype and an epitype are designated for R. albonigra and three new European species are described: R. ambusta, R. nigrifacta, and R. ustulata. Different thresholds of UNITE species hypotheses were tested against the taxonomic data. The distance threshold of 0.5% gives a perfect match to the phylogenetically defined species within the R. albonigra complex. Publicly available sequence data can contribute to species delimitation and increase our knowledge on ecology and distribution, but the pitfalls are short and low quality sequences.</p>","PeriodicalId":54345,"journal":{"name":"Ima Fungus","volume":null,"pages":null},"PeriodicalIF":5.4,"publicationDate":"2021-08-02","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s43008-021-00064-0","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39263785","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Taxonomy and phylogeny of Resinicium sensu lato from Asia-Pacific revealing a new genus and five new species (Hymenochaetales, Basidiomycota).","authors":"Jia Yu,&nbsp;Xue-Wei Wang,&nbsp;Shi-Liang Liu,&nbsp;Shan Shen,&nbsp;Li-Wei Zhou","doi":"10.1186/s43008-021-00071-1","DOIUrl":"https://doi.org/10.1186/s43008-021-00071-1","url":null,"abstract":"<p><p>Resinicium, belonging to Hymenochaetales, Agaricomycetes, is a worldwide genus of corticioid wood-inhabiting fungi. To improve the knowledge of species diversity within the Hymenochaetales, two dozen specimens from Asia-Pacific preliminarily identified to be members of Resinicium sensu lato were carefully studied from morphological and phylogenetic perspectives. From these specimens, a new monotypic genus Skvortzoviella, and five new species, viz. Resinicium austroasianum, R. lateastrocystidium, Skvortzovia dabieshanensis, S. qilianensis and Skvortzoviella lenis are described; moreover, a new basal lineage of Resinicium represented by a Vietnam specimen and three Chinese specimens of S. pinicola are identified. The six newly proposed taxa are morphologically compared with related genera and species, while the family positions of Resinicium, Skvortzovia, and Skvortzoviella within the Hymenochaetales are still ambiguous. In addition, the ancestral geographic origin of Resinicium, even though inconclusive, is now thought to be Asia-Pacific instead of tropical America as previously assumed.</p>","PeriodicalId":54345,"journal":{"name":"Ima Fungus","volume":null,"pages":null},"PeriodicalIF":5.4,"publicationDate":"2021-07-19","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s43008-021-00071-1","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39197973","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Nomenclatural issues concerning cultured yeasts and other fungi: why it is important to avoid unneeded name changes.","authors":"Andrey Yurkov,&nbsp;Artur Alves,&nbsp;Feng-Yan Bai,&nbsp;Kyria Boundy-Mills,&nbsp;Pietro Buzzini,&nbsp;Neža Čadež,&nbsp;Gianluigi Cardinali,&nbsp;Serge Casaregola,&nbsp;Vishnu Chaturvedi,&nbsp;Valérie Collin,&nbsp;Jack W Fell,&nbsp;Victoria Girard,&nbsp;Marizeth Groenewald,&nbsp;Ferry Hagen,&nbsp;Chris Todd Hittinger,&nbsp;Aleksey V Kachalkin,&nbsp;Markus Kostrzewa,&nbsp;Vassili Kouvelis,&nbsp;Diego Libkind,&nbsp;Xinzhan Liu,&nbsp;Thomas Maier,&nbsp;Wieland Meyer,&nbsp;Gábor Péter,&nbsp;Marcin Piątek,&nbsp;Vincent Robert,&nbsp;Carlos A Rosa,&nbsp;Jose Paulo Sampaio,&nbsp;Matthias Sipiczki,&nbsp;Marc Stadler,&nbsp;Takashi Sugita,&nbsp;Junta Sugiyama,&nbsp;Hiroshi Takagi,&nbsp;Masako Takashima,&nbsp;Benedetta Turchetti,&nbsp;Qi-Ming Wang,&nbsp;Teun Boekhout","doi":"10.1186/s43008-021-00067-x","DOIUrl":"https://doi.org/10.1186/s43008-021-00067-x","url":null,"abstract":"<p><p>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.</p>","PeriodicalId":54345,"journal":{"name":"Ima Fungus","volume":null,"pages":null},"PeriodicalIF":5.4,"publicationDate":"2021-07-13","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s43008-021-00067-x","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39180064","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Molecular systematics of Keratinophyton: the inclusion of species formerly referred to Chrysosporium and description of four new species.","authors":"Roman Labuda,&nbsp;Andreas Bernreiter,&nbsp;Doris Hochenauer,&nbsp;Alena Kubátová,&nbsp;Hazal Kandemir,&nbsp;Christoph Schüller","doi":"10.1186/s43008-021-00070-2","DOIUrl":"https://doi.org/10.1186/s43008-021-00070-2","url":null,"abstract":"<p><p>Four new Keratinophyton species (Ascomycota, Pezizomycotina, Onygenales), K. gollerae, K. lemmensii, K. straussii, and K. wagneri, isolated from soil samples originating from Europe (Austria, Italy, and Slovakia) are described and illustrated. The new taxa are well supported by phylogenetic analysis of the internal transcribed spacer region (ITS) region, the combined data analysis of ITS and the nuclear large subunit (LSU) rDNA, and their phenotype. Based on ITS phylogeny, within the Keratinophyton clade, K. lemmensii is clustered with K. durum, K. hubeiense, K. submersum, and K. siglerae, while K. gollerae, K. straussii and K. wagneri are resolved in a separate terminal cluster. All four new species can be well distinguished from other species in the genus based on phenotype characteristics alone. Ten new combinations are proposed for Chrysosporium species which are resolved in the monophyletic Keratinophyton clade. A new key to the recognized species is provided herein.</p>","PeriodicalId":54345,"journal":{"name":"Ima Fungus","volume":null,"pages":null},"PeriodicalIF":5.4,"publicationDate":"2021-07-08","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s43008-021-00070-2","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39161661","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Unravelling hybridization in Phytophthora using phylogenomics and genome size estimation.","authors":"Kris Van Poucke,&nbsp;Annelies Haegeman,&nbsp;Thomas Goedefroit,&nbsp;Fran Focquet,&nbsp;Leen Leus,&nbsp;Marília Horta Jung,&nbsp;Corina Nave,&nbsp;Miguel Angel Redondo,&nbsp;Claude Husson,&nbsp;Kaloyan Kostov,&nbsp;Aneta Lyubenova,&nbsp;Petya Christova,&nbsp;Anne Chandelier,&nbsp;Slavcho Slavov,&nbsp;Arthur de Cock,&nbsp;Peter Bonants,&nbsp;Sabine Werres,&nbsp;Jonàs Oliva Palau,&nbsp;Benoit Marçais,&nbsp;Thomas Jung,&nbsp;Jan Stenlid,&nbsp;Tom Ruttink,&nbsp;Kurt Heungens","doi":"10.1186/s43008-021-00068-w","DOIUrl":"https://doi.org/10.1186/s43008-021-00068-w","url":null,"abstract":"<p><p>The genus Phytophthora comprises many economically and ecologically important plant pathogens. Hybrid species have previously been identified in at least six of the 12 phylogenetic clades. These hybrids can potentially infect a wider host range and display enhanced vigour compared to their progenitors. Phytophthora hybrids therefore pose a serious threat to agriculture as well as to natural ecosystems. Early and correct identification of hybrids is therefore essential for adequate plant protection but this is hampered by the limitations of morphological and traditional molecular methods. Identification of hybrids is also important in evolutionary studies as the positioning of hybrids in a phylogenetic tree can lead to suboptimal topologies. To improve the identification of hybrids we have combined genotyping-by-sequencing (GBS) and genome size estimation on a genus-wide collection of 614 Phytophthora isolates. Analyses based on locus- and allele counts and especially on the combination of species-specific loci and genome size estimations allowed us to confirm and characterize 27 previously described hybrid species and discover 16 new hybrid species. Our method was also valuable for species identification at an unprecedented resolution and further allowed correct naming of misidentified isolates. We used both a concatenation- and a coalescent-based phylogenomic method to construct a reliable phylogeny using the GBS data of 140 non-hybrid Phytophthora isolates. Hybrid species were subsequently connected to their progenitors in this phylogenetic tree. In this study we demonstrate the application of two validated techniques (GBS and flow cytometry) for relatively low cost but high resolution identification of hybrids and their phylogenetic relations.</p>","PeriodicalId":54345,"journal":{"name":"Ima Fungus","volume":null,"pages":null},"PeriodicalIF":5.4,"publicationDate":"2021-07-01","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://www.ncbi.nlm.nih.gov/pmc/articles/PMC8246709/pdf/","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39125090","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}

{"title":"Molecular reassessment of diaporthalean fungi associated with strawberry, including the leaf blight fungus, Paraphomopsis obscurans gen. et comb. nov. (Melanconiellaceae).","authors":"Dhanushka Udayanga,&nbsp;Shaneya D Miriyagalla,&nbsp;Dimuthu S Manamgoda,&nbsp;Kim S Lewers,&nbsp;Alain Gardiennet,&nbsp;Lisa A Castlebury","doi":"10.1186/s43008-021-00069-9","DOIUrl":"https://doi.org/10.1186/s43008-021-00069-9","url":null,"abstract":"<p><p>Phytopathogenic fungi in the order Diaporthales (Sordariomycetes) cause diseases on numerous economically important crops worldwide. In this study, we reassessed the diaporthalean species associated with prominent diseases of strawberry, namely leaf blight, leaf blotch, root rot and petiole blight, based on molecular data and morphological characters using fresh and herbarium collections. Combined analyses of four nuclear loci, 28S ribosomal DNA/large subunit rDNA (LSU), ribosomal internal transcribed spacers 1 and 2 with 5.8S ribosomal DNA (ITS), partial sequences of second largest subunit of RNA polymerase II (RPB2) and translation elongation factor 1-α (TEF1), were used to reconstruct a phylogeny for these pathogens. Results confirmed that the leaf blight pathogen formerly known as Phomopsis obscurans belongs in the family Melanconiellaceae and not with Diaporthe (syn. Phomopsis) or any other known genus in the order. A new genus Paraphomopsis is introduced herein with a new combination, Paraphomopsis obscurans, to accommodate the leaf blight fungus. Gnomoniopsis fragariae comb. nov. (Gnomoniaceae), is introduced to accommodate Gnomoniopsis fructicola, the cause of leaf blotch of strawberry. Both of the fungi causing leaf blight and leaf blotch were epitypified. Fresh collections and new molecular data were incorporated for Paragnomonia fragariae (Sydowiellaceae), which causes petiole blight and root rot of strawberry and is distinct from the above taxa. An updated multilocus phylogeny for the Diaporthales is provided with representatives of currently known families.</p>","PeriodicalId":54345,"journal":{"name":"Ima Fungus","volume":null,"pages":null},"PeriodicalIF":5.4,"publicationDate":"2021-06-22","publicationTypes":"Journal Article","fieldsOfStudy":null,"isOpenAccess":false,"openAccessPdf":"https://sci-hub-pdf.com/10.1186/s43008-021-00069-9","citationCount":null,"resultStr":null,"platform":"Semanticscholar","paperid":"39097834","PeriodicalName":null,"FirstCategoryId":null,"ListUrlMain":null,"RegionNum":1,"RegionCategory":"生物学","ArticlePicture":[],"TitleCN":null,"AbstractTextCN":null,"PMCID":"OA","EPubDate":null,"PubModel":null,"JCR":null,"JCRName":null,"Score":null,"Total":0}