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Phylogenetic classification and generic delineation of Hydeomyces desertipleosporoides gen. et sp. nov., (Phaeosphaeriaceae) from Jebel Akhdar Mountain in Oman
Abstract and Figures
Specimens of a new pleosporalean taxon were obtained on the bark of Juniperus excels from the northern mountains of Oman; from the Jebel Akhdar (‘Green Hills’). Sequence analyses based on the regions of large subunit rRNA (LSU), small subunit rRNA (SSU), translation elongation factor 1-α (TEF) and internal transcribed spacers (ITS) were performed to resolve the phylogenetic relationships of the new taxon in Phaeosphaeriaceae. The data concluded that the taxon represents a novel genus of the family Phaeosphaeriaceae and the generic name Hydeomyces and the species name H. desertipleosporoides are introduced for the new taxon. An outline of the characters which differentiate the new genus from phylogenetically closely related genera Dematiopleospora and Dlhawksworthia is given and its morphology of asexual and sexual morphs is described.
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... et al. , Murichromolaenicola Mapook & K.D. Hyde , Neoophiobolus Mapook & K.D. Hyde , Paraleptospora Mapook & K.D. Hyde , Pseudostaurosphaeria Mapook & K.D. Hyde and Vittaliana Devadatha et al. . Currently, more than 70 genera are accommodated in this family (Wanasinghe et al. 2018;Bakhshi et al. 2019;Maharachchikumbura et al. 2019;Phookamsak et al. 2019;Hongsanan et al. 2020;Hyde et al. 2020). ...
... Newly generated sequence data were initially subjected to blast search in NCBI to obtain the closest matches in GenBank. Sequences generated from this study were analyzed with related taxa in the family Phaeosphaeriaceae, which were obtained from GenBank and from recently published data (Bakhshi et al. 2019;Hyde et al. 2019;Maharachchikumbura et al. 2019;Yang et al. 2019;Mapook et al. 2020) ( Table 1). The combined dataset consisted of 168 sequences including our newly generated sequences. ...
... However, species identification has been revolutionized by the application of molecular based approaches incorporating DNA sequence data in Phaeosphaeriaceae Tennakoon et al. 2016;Wanasinghe et al. 2018;Bakhshi et al. 2019;Chethana et al. 2020;Hyde et al. 2020). Phaeosphaeriaceae species are adapted to a wide range of ecological environments and are present in soils, fresh and marine habitats and cause infections in humans (Yuan 1994;Phookamsak et al. 2014Phookamsak et al. , 2017Ahmed et al. 2017;Maharachchikumbura et al. 2019;Valenzuela-Lopez et al. 2019). Members of the Phaeosphaeriaceae have also been recorded from both temperate and tropical countries (i.e. ...
A novel ascomycetous genus, Elongaticollum , occurring on leaf litter of Hedychium coronarium (Zingiberaceae) in Taiwan, is described and illustrated. Elongaticollum is characterized by dark brown to black, superficial, obpyriform, pycnidial conidiomata with a distinct elongate neck, and oval to oblong, hyaline, aseptate conidia. Phylogenetic analyses (maximum likelihood, maximum parsimony and Bayesian) of combined ITS, LSU, SSU and tef1 -α sequence data revealed Elongaticollum as a distinct genus within the family Phaeosphaeriaceae with high statistical support. In addition, Ophiosphaerella taiwanensis and Phaeosphaeriopsis beaucarneae are described as new species from dead leaves of Agave tequilana and Beaucarnea recurvata (Asparagaceae), respectively. Neosetophoma poaceicola is reported as a new host record from dead leaves of Musa acuminata (Musaceae). Newly described taxa are compared with other similar species and comprehensive descriptions and micrographs are provided.
... Notes: Phaeosphaeriaceae was established by Barr (1979), who designated Phaeosphaeria as the generic type of the family. Phaeosphaeriaceae species have immersed to superficial, globose to subglobose ascomata, short papilla, bitunicate asci and hyaline to pigmented, fusiform to ellipsoidal, filiform, or muriform ascospores (Bakhshi et al. 2019;Maharachchikumbura et al. 2019;Yang et al. 2019c;Hongsanan et al. 2020). The asexual morphs of Phaeosphaeriaceae are commonly known as coelomycetous but there are some hyphomycetous genera as well (Phookamsak et al. 2014;Maharachchikumbura et al. 2019;Hongsanan et al. ...
... Phaeosphaeriaceae species have immersed to superficial, globose to subglobose ascomata, short papilla, bitunicate asci and hyaline to pigmented, fusiform to ellipsoidal, filiform, or muriform ascospores (Bakhshi et al. 2019;Maharachchikumbura et al. 2019;Yang et al. 2019c;Hongsanan et al. 2020). The asexual morphs of Phaeosphaeriaceae are commonly known as coelomycetous but there are some hyphomycetous genera as well (Phookamsak et al. 2014;Maharachchikumbura et al. 2019;Hongsanan et al. Fig. 28 The best scoring RAxML tree with a final likelihood value of -6630.165885 ...
This article provides descriptions and illustrations of microfungi associated with the leaf litter of Celtis formosana, Ficus ampelas, F. septica, Macaranga tanarius and Morus australis collected from Taiwan. These host species are native to the island and Celtis formosana is an endemic tree species. The study revealed 95 species, consisting of two new families (Cylindrohyalosporaceae and Oblongohyalosporaceae), three new genera (Cylindrohyalospora, Neodictyosporium and Oblongohyalospora), 41 new species and 54 new host records. The newly described species are Acrocalymma ampeli (Acrocalymmaceae), Arthrinium mori (Apiosporaceae), Arxiella celtidis (Muyocopronaceae), Bertiella fici (Melanommataceae), Cercophora fici (Lasiosphaeriaceae), Colletotrichum celtidis, C. fici, C. fici-septicae (Glomerellaceae), Conidiocarpus fici-septicae (Capnodiaceae), Coniella fici (Schizoparmaceae), Cylindrohyalospora fici (Cylindrohyalosporaceae), Diaporthe celtidis, D. fici-septicae (Diaporthaceae), Diaporthosporella macarangae (Diaporthosporellaceae), Diplodia fici-septicae (Botryosphaeriaceae), Discosia celtidis, D. fici (Sporocadaceae), Leptodiscella sexualis (Muyocopronaceae), Leptospora macarangae (Phaeosphaeriaceae), Memnoniella alishanensis, M. celtidis, M. mori (Stachybotryaceae), Micropeltis fici, M. ficina (Micropeltidaceae), Microthyrium fici-septicae (Microthyriaceae), Muyocopron celtidis, M. ficinum, Mycoleptodiscus alishanensis (Muyocopronaceae), Neoanthostomella fici (Xylariales genera incertae sedis), Neodictyosporium macarangae (Sordariales genera incertae sedis), Neofusicoccum moracearum (Botryosphaeriaceae), Neophyllachora fici (Phyllachoraceae), Nigrospora macarangae (Apiosporaceae), Oblongohyalospora macarangae (Oblongohyalosporaceae), Ophioceras ficinum (Ophioceraceae), Parawiesneriomyces chiayiensis (Wiesneriomycetaceae), Periconia alishanica, P. celtidis (Periconiaceae), Pseudocercospora fici-septicae (Mycosphaerellaceae), Pseudoneottiospora cannabacearum (Chaetosphaeriaceae) and Pseudopithomyces mori (Didymosphaeriaceae). The new host records are Alternaria burnsii, A. pseudoeichhorniae (Pleosporaceae), Arthrinium hydei, A. malaysianum, A. paraphaeospermum, A. rasikravindrae, A. sacchari (Apiosporaceae), Bartalinia robillardoides (Sporocadaceae), Beltrania rhombica (Beltraniaceae), Cladosporium tenuissimum (Cladosporiaceae), Coniella quercicola (Schizoparmaceae), Dematiocladium celtidicola (Nectriaceae), Diaporthe limonicola, D. millettiae, D. pseudophoenicicola (Diaporthaceae), Dictyocheirospora garethjonesii (Dictyosporiaceae), Dimorphiseta acuta (Stachybotryaceae), Dinemasporium parastrigosum (Chaetosphaeriaceae), Discosia querci (Sporocadaceae), Fitzroyomyces cyperacearum (Stictidaceae), Gilmaniella bambusae (Ascomycota genera incertae sedis), Hermatomyces biconisporus (Hermatomycetaceae), Lasiodiplodia thailandica, L. theobromae (Botryosphaeriaceae), Memnoniella echinata (Stachybotryaceae), Muyocopron dipterocarpi, M. lithocarpi (Muyocopronaceae), Neopestalotiopsis asiatica, N. phangngaensis (Sporocadaceae), Ophioceras chiangdaoense (Ophioceraceae), Periconia byssoides (Periconiaceae), Pestalotiopsis dracaenea, P. formosana, P. neolitseae, P. papuana, P. parva, P. portugallica, P. trachycarpicola (Sporocadaceae), Phragmocapnias betle (Capnodiaceae), Phyllosticta capitalensis (Phyllostictaceae), Pseudopestalotiopsis camelliae-sinensis (Sporocadaceae), Pseudopithomyces chartarum, P. sacchari (Didymosphaeriaceae), Pseudorobillarda phragmitis (Pseudorobillardaceae), Robillarda roystoneae (Sporocadaceae), Sirastachys castanedae, S. pandanicola (Stachybotryaceae), Spegazzinia musae (Didymosphaeriaceae), Stachybotrys aloeticola, S. microspora (Stachybotryaceae), Strigula multiformis (Strigulaceae), Torula fici (Torulaceae), Wiesneriomyces laurinus (Wiesneriomycetaceae) and Yunnanomyces pandanicola (Sympoventuriaceae). The taxonomic placement of most taxa discussed in this study is based on morphological observation of specimens, coupled with multi-locus phylogenetic analyses of sequence data. In addition, this study provides a host-fungus database for future studies and increases knowledge of fungal diversity, as well as new fungal discoveries from the island.
... To analyze the sequences generated from different primers of the five genes, we conducted a BLAST search to identify sequences with high similarity indices and find the closest matches with taxa in Phaeosphaeriaceae, following recent publications [19][20][21][22]. Later, we analyzed them with other sequences retrieved from GenBank (Table 1). ...
Simple Summary
Our study describes several species of Phaeosphaeriaceae found in terrestrial habitats in Sichuan Province, China. We used morphological and molecular data to accurately delimit these species and determine their taxonomic relationships within the family. Our findings contribute to understanding fungal diversity in China and provide a basis for future studies exploring the ecological roles and biotechnological potential of these fungi. Additionally, our multi-gene phylogenetic approach provides increased accuracy and resolution in the delimitation of species boundaries within Phaeosphaeriaceae.
Abstract
The family Phaeosphaeriaceae is a diverse group of ascomycetous fungi that are commonly found in terrestrial habitats worldwide. In recent years, there has been increasing interest in the biodiversity of Phaeosphaeriaceae in China, particularly in Sichuan Province, which has not been fully explored for its high fungal diversity. In our study, we conducted extensive surveys in Sichuan Province to identify and describe new species of Ascomycota with diverse habitats. Here, we present a taxonomic revision of Phaeosphaeriaceae with taxonomic novelties from terrestrial habitats in Sichuan Province based on a multi-gene phylogenetic approach. Our study focuses on the description of four new species of Phaeosphaeriaceae, representing novel additions to the diversity of this fungal family. Using a combination of morphological and molecular data, we provide detailed descriptions of the new taxa and their placement within the family. Additionally, we discuss the phylogenetic relationships of these new taxa with other members of Phaeosphaeriaceae, providing insights into the correct taxonomic classification of the family. Our taxonomic revision contributes to understanding fungal diversity in China and provides a foundation for future studies investigating the taxonomy and ecological roles of Phaeosphaeriaceae fungi. Furthermore, our multi-gene phylogenetic approach provides increased resolution and accuracy in the delimitation of species boundaries within the family. Our study highlights the importance of continued exploration and taxonomic revision in order to fully understand the diversity and distribution of fungal species in China and beyond. New species: Paraloratospora sichuanensis, Phaeosphaeria chengduensis, P. sichuanensis, and Septoriella shoemakeri. New combinations: Paraloratospora breonadiae, P. fructigena, Septoriella ammophilicola, S. asparagicola, S. festucae, S. luzulae, and S. verrucispora. New names: Septoriella paradactylidis, and S. neomuriformis.
... However, the polyphasic approach, including morphology and phylogeny, is highly recommended for species delineation in Ascomycota (Chethana et al. 2021;Maharachchikumbura et al. 2021Manawasinghe et al. 2021. Species of the Phaeosphaeriaceae are usually abundant in temperate and tropical countries including Austria, Belgium, Bulgaria, Canada, China, Germany, Italy, Japan, Norway, Poland, Thailand, Sweden, Switzerland and recorded from a wide range of host plant families viz Acoraceae, Arecaceae, Cyperaceae, Asparagaceae, Brassicaceae, Fabaceae, Poaceae, Marantaceae (Shoemaker and Babcock 1989;Phookamsak et al. 2014Phookamsak et al. , 2019Wanasinghe et al. 2018;Maharachchikumbura et al. 2019;Farr and Rossman 2020). ...
A bitunicate ascomycete was collected on dead bamboo leaves from Guizhou Province, China. Phylogenetic analyses based on large subunit rRNA (LSU), small subunit rRNA (SSU), translation elongation factor 1-α (tef 1-α) and internal transcribed spacers (ITS) revealed that this species belongs to the genus Neostagonosporella (Phaeosphaeriaceae, Pleosporales) and forms a well-supported lineage (98% ML, 1.00BYPP) with N. sichuanensis. This taxon resembles the type species of Neostagonosporella, N. sichuanensis by its globose to subglobose central ostiolate ascomata, cylindrical to cylindric-clavate, short pedicellate asci and hyaline, cylindrical to fusiform ascospores, as well as a close phylogenetic affinity. However, it differs from N. sichuanensis by its comparatively smaller ascomata, cellular, septate pseudoparaphyses and ascospores with thick sheath, whereas N. sichuanensis has comparatively large ascomata, trabeculate pseudoparaphyses and ascospores with comparatively thin sheath. Therefore, we introduce this taxon as a novel species, namely Neostagonosporella bambusicola and compare it with the other species of Neostagonosporella.
... 52(1): 161 (1969) Savoryella, typified by S. lignicola, was introduced by Jones and Eaton (1969), collected from submerged test-blocks in a water-cooling tower. Savoryella comprises 13 species wherein eleven are supported by molecular data (Minoura & Muroi 1978, Koch 1982, Jones and Hyde 1992, Ho et al. 1997, Abdel-Wahab & Jones 2000, Dayarathne et al. 2019, Zhang et al. 2019a). Hyde et al. (2020d) provided a historical and updated taxonomic account of Savoryella and we follow the treatment in this paper. ...
This is the seventh in a series of Mycosphere notes in which we provide notes on the collection of fungi isolated from various hosts. In this set of notes, we introduce Pseudophialocephala as a new genus, nine new species, 27 new host or country records and five new combinations. The new species are Ceratosphaeria yunnanensis, Cytospora salicis-albae, Gymnopus bunerensis, Kalmusia cordylines, Leucoagaricus croceus, Leucoagaricus laosensis, Neopyrenochaeta shaoguanica, Pseudophialocephala cuneata and Robillarda aquatica. Pseudophialocephala humicola, Pseudophialocephala aquatica, Pseudophialocephala salinicola, Pseudophialocephala terricola and Pseudophialocephala xalapensis are introduced as new combinations. We provide new molecular data for 43 species belonging to two phyla, three classes and 15 orders. Updated phylogenetic trees for 22 families (Agaricaceae, Botryosphaeriaceae, Chaetosphaeriaceae, Coniochaetaceae, Didymosphaeriaceae, Gloeophyllaceae, Glomerellaceae, Hysteriaceae, Lophiostomataceae, Magnaporthaceae, Neopyrenochaetaceae, Omphalotacea, Phaeosphaeriaceae, Phyllostictaceae, Pleosporaceae, Saccotheciaceae, Savoryellaceae, Sporocadaceae, Stachybotryaceae, Torulaceae, Valsaceae, Physalacriaceae) and 32 genera (Alfaria, Aureobasidium, Ceratosphaeria, Collybiopsis, Colletotrichum, Comoclathris, Coniochaeta, Cytospora, Dothiorella, Gymnopus, Gymnopus, Heliocybe, Hysterium, Hysterobrevium, Kalmusia, Leptospora, Letendraea, Leucoagaricus, Mucidula, Neoleptosporella, Neopyrenochaeta, Paraleptospora, Phyllosticta, Pseudophialocephala, Rhytidhysteron, Robillarda, Savoryella, Sporocadus, Thozetella, Torula and Vaginatispora) are given.
... Hydeomyces Maharachch. et al. Maharachchikumbura et al. (2019) introduced this holomorphic genus with a coelomycetous asexual morph. ...
... Hydeomyces Maharachch. et al. Maharachchikumbura et al. (2019) introduced this holomorphic genus with a coelomycetous asexual morph. ...
This is a continuation of a series of studies incorporating asexually reproducing fungi in a natural classification. Over 3653 genera (ca. 30,000 morphological species) are known from asexual reproduction (1388 coelomycetes and 2265 hyphomycetes) in their life cycle. Among these, 687 genera are pleomorphic (305 coelomycetous; 378 hyphomycetous and four genera show both coelomycetous and hyphomycetous morphs). We provide notes for these pleomorphic genera in this paper. The 1544 unlinked genera without molecular data (which comprise ca. 3850 species) are listed as Ascomycota genera incertae sedis. It is essential to recollect the fungi which are placed in Ascomycota genera incertae sedis and subject them to DNA based phylogenetic analysis as they might represent new fungal lineages.
... Most of the species and genera of Phaeosphaeriaceae are saprobes or endophytes. However, some members are well known phytopathogens that infect economically important cereal crops such as barley, wheat and rye (Cunfer 2000;Quaedvlieg et al. 2013;Karunarathna et al. 2017;Phookamsak et al. 2017;Wanasinghe et al. 2018;Maharachchikumbura et al. 2019). Members of the Phaeosphaeriaceae are ubiquitous in soils, freshwater and marine ecosystems and even cause a variety of human diseases (Ahmed et al. 2017). ...
Hot desert regions are undoubtedly challenging to fungal survival on the Arabian Peninsula. Fungi are, however, recognized as the most stress-resistant organisms among all eukaryotes, which could be a result of the rapid evolution of distinct species. Our current understanding of these microorganisms is derived from studies examining only a fraction of the overall fungal diversity. Therefore, further studies are needed to understand the diversity of fungi in desert regions. This paper highlights the taxonomy of several unusual fungal genera collected in a range of aquatic and terrestrial environments in Oman. These taxa were identified based on phylogenetic analyses of nuclear ribosomal DNA (rDNA) (LSU, SSU and ITS) and protein-coding genes (TEF, RPB2 and TUB), plus morphological comparisons. Phylogenetic analyses, including the presently recognized genera in Patellariales resulted in splitting the order into four clades in Dothideomycetes. The new family Holmiellaceae and new order Holmiellales are introduced to include Holmiella. Species of Homortomycetaceae form a well-supported and distinct clade and raise it to Homortomycetales ordo novus. Omania (Halojulellaceae), Desertiserpentica (Lophiostomataceae) and Montanitestudina (Testudinaceae) are described as novel genera in Dothideomycetes. A synnematous hyphomycete with basidiomycetous affinity (Corticiales) was also identified and described as Basidiodesertica. Additionally, an asexual morph was observed for Holmiella junipericola; Patellaria quercus is synonymized under P. atrata, and seven new species are described.
... Barr, Mycologia 71(5): 948 (1979) Notes: We follow the latest treatment and update accounts of Phaeosphaeriaceae in Hyde et al. (2019Hyde et al. ( , 2020a and Phookamsak et al. (2019). Eighty-three genera are accepted in this family (Bakhshi et al. 2019;Hyde et al. 2019;Karunarathna et al. 2019;Maharachchikumbura et al. 2019;Phookamsak et al. 2019;Yang et al. 2019;Zhang et al. 2019;Hongsanan et al. 2020). ...
This is the twelfth contribution to the Fungal Diversity Notes series on fungal taxonomy, based on materials collected from many countries which were examined and described using the methods of morphology, anatomy, and strain culture, combined with DNA sequence analyses. 110 taxa are described and illustrated, including five new genera, 92 new species, eight new combinations and other taxonomic contributions (one new sequenced species, one new host and three new records) which are accommodated in 40 families and 1 incertae sedis in Dothideomycetes. The new genera are Amyloceraceomyces, Catenuliconidia, Hansenopezia, Ionopezia and Magnopulchromyces. The new species are Amyloceraceomyces angustisporus, Amylocorticium ellipsosporum, Arthrinium sorghi, Catenuliconidia uniseptata, Clavulina sphaeropedunculata, Colletotrichum parthenocissicola, Coniothyrium triseptatum, Cortinarius indorusseus, C. paurigarhwalensis, C. sinensis, C. subsanguineus, C. xiaojinensis, Diaporthe pimpinellae, Dictyosporella guizhouensis, Diplodia torilicola, Fuscoporia marquesiana, F. semiarida, Hansenopezia decora, Helicoarctatus thailandicus, Hirsutella hongheensis, Humidicutis brunneovinacea, Lentaria gossypina, L. variabilis, Lycoperdon lahorense, L. pseudocurtisii, Magnopulchromyces scorpiophorus, Moelleriella gracilispora, Neodevriesia manglicola, Neodidymelliopsis salvia, N. urticae, Neoroussoella magnoliae, Neottiella gigaspora, Ophiosphaerella chiangraiensis, Phaeotremella yunnanensis, Podosphaera yulii, Rigidoporus juniperinus, Rhodofomitopsis pseudofeei, Russula benghalensis, Scleroramularia vermispora, Scytinopogon minisporus, Sporormurispora paulsenii, Thaxteriellopsis obliqus, Tomentella asiae-orientalis, T. atrobadia, T. atrocastanea, T. aureomarginata, T. brevis, T. brunneoflava, T. brunneogrisea, T. capitatocystidiata, T. changbaiensis, T. citrinocystidiata, T. coffeae, T. conclusa, T. cystidiata, T. dimidiata, T. duplexa, T. efibulata, T. efibulis, T. farinosa, T. flavidobadia, T. fuscocrustosa, T. fuscofarinosa, T. fuscogranulosa, T. fuscopelliculosa, T. globospora, T. gloeocystidiata, T. griseocastanea, T. griseofusca, T. griseomarginata, T. inconspicua, T. incrustata, T. interrupta, T. liaoningensis, T. longiaculeifera, T. longiechinuli, T. megaspora, T. olivacea, T. olivaceobrunnea, T. pallidobrunnea, T. pallidomarginata, T. parvispora, T. pertenuis, T. qingyuanensis, T. segregata, T. separata, T. stipitata, T. storea, Trichoderma ceratophylletum, Tyromyces minutulus, Umbelopsis heterosporus and Xylolentia reniformis. The new combinations are Antrodiella descendena, Chloridium macrocladum, Hansenopezia retrocurvata, Rhodofomitopsis monomitica, Rh. oleracea, Fuscoporia licnoides, F. scruposa and Ionopezia gerardii. A new sequenced species (Graphis supracola), one new host (Aplosporella prunicola) and three new geographical records (Golovinomyces monardae, Paradictyoarthrinium diffractum and Prosthemium betulinum), are reported.
... Phaeosphaeriaceae M.E. Barr Barr (1979) introduced Phaeosphaeriaceae which comprises 83 genera (Phookamsak et al. 2014, Wijayawardene et al. 2014, 2017a, 2018a, b, Hyde et al. 2016, Yang et al. 2019, Bakhshi et al. 2019, Maharachchikumbura et al. 2019, Marin-Felix et al. 2019, Hongsanan et al. 2020. Species in this family are often necrotrophic pathogens or saprobes on plants (Shoemaker & Babcock 1992, Carson 2005, Stukenbrock et al. 2006, Cannon & Kirk 2007, Tibpromma et al. 2017. ...
Pleosporales is the largest order in the class Dothideomycetes, comprising a quarter of all species of Dothideomycetes. This paper provides comprehensive illustrations and descriptions of newly collected saprobic pleosporalean taxa from dicotyledons and grasses in China, Italy, Russia and Thailand. These species are accommodated in 8 families in Pleosporales. The taxa described here include 14 new species, a new geographical record and three new host records of known species. New species are Alternaria rumicis, Bambusicola ficuum, Comoclathris flammulae, C. europaeae, C. lonicerae, Ophiobolus lathyri, Paraophiobolus torilicola, Parastagonospora dactylidicola, P. hieracioidis, Pseudopaucispora hyalinospora, Stagonospora poaceicola, Stemphylium artemisiae and Subplenodomus meldolanus. All species descriptions presented herein are based on morphological comparisons coupled with multi-gene phylogenetic analyses.
... Barr We follow the latest treatment and updated accounts of Phaeosphaeriaceae in and Phookamsak et al. (2019). Eighty-three genera are accepted in this family (Bakhshi et al. 2019, Maharachchikumbura et al. 2019, Phookamsak et al. 2019, Yang et al. 2019, Zhang et al. 2019a, Hongsanan et al. 2020). ...
This paper is the first in the AJOM series in which we report 100 new collections of fungi which include new species, host and country records. In all, nine new species, 90 new records and one new combination are introduced. The purpose of this series is to provide an outlet for publishing collections with sequence data, so that these observations will not be wasted and mycologists can use the information to update fungal classification and better identification of species. Previously, numerous species were described from the first collection and no further data on the species were published as it was considered low impact. This series will, therefore, increase the knowledge on the host occurrence, biogeography and sequence variability in each taxon dealt with. The distribution and hosts for each listed species are added if backed up by sequence data.
... Fresh fungal mycelium grown on PDA for 1 week at 25 °C was scraped from the colony margin and was used for genomic DNA extraction using a protocol in Doyle & Doyle (1987). Regions of the LSU, ITS and TEF were amplified using the PCR primers and conditions listed in Maharachchikumbura et al. (2019) on an Applied Biosystems ProFlex PCR System (Life Technologies, USA) using an illustra PuReTaq Ready-To-Go PCR Beads. The PCR products were visualized on 1 % agarose electrophoresis gel stained with ethidium bromide. ...
A fungus within the genus Phaeosphaeriaceae was isolated from brown leaf spot samples of Dracaena serrulata Baker (Yemen dragon tree) collected from Oman Botanic Garden, Muscat, Oman. Detailed morphological studies showed that this strain fits well within the species concept of the genus Phaeosphaeriopsis. Multilocus phylogeny based on LSU, ITS and TEF confirmed its uniqueness and supports its recognition as a new species, Phaeosphaeriopsis omaniana. Geography, pathogenic life mode and subglobose, smooth and brown conidia of the newly described species clearly differ from those of phylogenetically related species. A comprehensive description and illustrations of the new species, P. omaniana is provided and discussed with comparable taxa.
... Barr Barr (1979) introduced the family Phaeosphaeriaceae, which was initially characterized by immersed to superficial, globose to subglobose ascomata, short papilla, bitunicate asci and hyaline, yellowish or brown, fusiform to ellipsoidal, filiform, or muriform, septate ascospores (Barr 1979, Shoemaker 1984, Zhang et al. 2012, Hyde et al. 2013, Phookamsak et al. 2014. Phaeosphaeriaceae comprise more than 60 sexual and asexual genera (Phookamsak et al. 2014, 2019, Wijayawardene et al. 2014, 2017a, Yang et al. 2019, Bakhshi et al. 2019, Maharachchikumbura et al. 2019, Marin-Felix et al. 2019. Species in this family are often necrotrophic pathogens or saprobes on plants (Shoemaker & Babcock 1989, Carson 2005, Stukenbrock et al. 2006, Cannon & Kirk 2007, Tibpromma et al. 2017). ...
Morpho-molecular characterization of microfungi associated with marine based habitats. Abstract Our investigation of saprobic marine fungi in India, Thailand, Sweden and the UK yielded 57 species accommodated in 26 families. In the present study, we describe two new genera, 37 new species and 15 new host records. Novel genera, Halocryptosphaeria and Halotestudina are introduced within Diatrypaceae (Xylariales) and Testudinaceae (Xenoacremonium brunneosporum are introduced based on multigene analyses and morphological studies. This study also provides insights into the diversity of fungi from marine based habitats and confirm that they occupy diverse marine niches. We also demonstrate how marine based substrates, including sand dunes, are fascinating substrates for discovering novel taxa. All taxa described herein are based on morphological examination of fresh specimens supported by multigene phylogenies to better integrate taxa into higher taxonomic framework and infer their phylogenetic relationships as well as establish new species.
... Barr Barr (1979) introduced the family Phaeosphaeriaceae, which was initially characterized by immersed to superficial, globose to subglobose ascomata, short papilla, bitunicate asci and hyaline, yellowish or brown, fusiform to ellipsoidal, filiform, or muriform, septate ascospores (Barr 1979, Shoemaker 1984, Zhang et al. 2012, Hyde et al. 2013, Phookamsak et al. 2014. Phaeosphaeriaceae comprise more than 60 sexual and asexual genera (Phookamsak et al. 2014, 2019, Wijayawardene et al. 2014, 2017a, Yang et al. 2019, Bakhshi et al. 2019, Maharachchikumbura et al. 2019, Marin-Felix et al. 2019. Species in this family are often necrotrophic pathogens or saprobes on plants (Shoemaker & Babcock 1989, Carson 2005, Stukenbrock et al. 2006, Cannon & Kirk 2007, Tibpromma et al. 2017). ...
Our investigation of saprobic marine fungi in India, Thailand, Sweden and the UK yielded 57 species accommodated in 26 families. In the present study, we describe two new genera, 37 new species and 15 new host records. Novel genera, Halocryptosphaeria and Halotestudina are introduced within Diatrypaceae (Xylariales) and Testudinaceae (Xenoacremonium brunneosporum are introduced based on multigene analyses and morphological studies. This study also provides insights into the diversity of fungi from marine based habitats and confirm that they occupy diverse marine niches. We also demonstrate how marine based substrates, including sand dunes, are fascinating substrates for discovering novel taxa. All taxa described herein are based on morphological examination of fresh specimens supported by multigene phylogenies to better integrate taxa into higher taxonomic framework and infer their phylogenetic relationships as well as establish new species.
... Phaeosphaeriaceae is one of the largest families in Pleosporales, comprising over 60 genera and more than 400 species (Phookamsak et al. 2014(Phookamsak et al. , 2017Wanasinghe et al. 2018a;Wijayawardene et al. 2018;Yang et al. 2019;Bakhshi et al. 2019;Maharachchikumbura et al. 2019;Marin-Felix et al. 2019). Species of this family are saprotrophs, nectrotrophs, or endophytes. ...
We introduce a new fungal species, Ophiobolus hydei, from dead stems of Cirsium alatum (Compositae) and Phlomoides brachystegia (Lamiaceae), based on morphological and phylogenetic evidence. The species was collected from the Mountains of Western Tien Shan and southwestern Hissar in Uzbekistan. Ophiobolus hydei is characterized by globose to subglobose ascomata with short to long papilla, cylindrical to subcylindric-clavate asci, broad pseudoparaphyses, and scolecosporous, yellowish-brown to brown, filiform, multiseptate ascospores that can split into several part-spores at the septa. Multigene phylogenetic analyses using a combined gene analysis of ITS, LSU, SSU, and TEF1- indicated that the new species has a close affinity to Ophiobolus ponticus, but differs from that species in the micromorphological characteristics of the ascomata, asci, and ascospores, as well as biogeographic distribution. A distribution map, morphological descriptions, and illustrations with colour photographs of the novel species are provided.
... Phookamsak et al. (2014) comprehensively reviewed the family Phaeosphaeriaceae, accepting 30 genera (including 17 asexual morph genera) based on morphological data, with the addition of multi-gene (ITS, LSU, SSU, RPB2 and TEF1) analyses. Several more genera have been added to Phaeosphaeriaceae following recent studies (Liu et al. 2015, Ariyawansa et al. 2015, Crous et al. 2015, Li et al. 2015, Phukhamsakda et al. 2015, Tennakoon et al. 2016, Hyde et al. 2017, Thambugala et al. 2017, Karunarathna et al. 2017, Phookamsak et al. 2017, 2019, Wanasinghe et al. 2018, Bakhshi et al. 2019, Yang et al. 2019, Maharachchikumbura et al. 2019. The majority of asexual morphs in this family are coelomycetous (Li et al. 2015). ...
Phaeosphaeriaceae comprises many fungal species occuring mainly on grasses and cereal crops as endophytes, saprobes and especially pathogens. Parastagonospora is an important genus in Phaeosphaeriaceae that includes pathogens causing leaf and glume blotch on cereal crops. In this study, a sexual morph species and an asexual morph species, occuring as saprobes on Poaceae are introduced based on morphology and a combined molecular analysis of the LSU, ITS and RPB2 gene sequence data. The sexual morph of a new Parastagonospora species, P. elymi was isolated from dead stems of Elymus repens in Russia. Parastagonospora elymi is similar to the sexual morph of P. avenae in having cylindrical asci, bearing eight, overlapping biseriate, fusiform ascospores but can be distinguished by its subglobose to conical-shaped, wider ascomata. In addition, no sheath was observed surrounding the ascospores. An asexual morph of Parastagonospora was isolated from dead stems of Dactylis glomerata in Italy and is introduced as P. macrouniseptata. Parastagonospora macrouniseptata is a coelomycete and bears a close resemblance to P. allouniseptata and P. uniseptata in having globose to subglobose, pycnidia and hyaline, cylindrical, 1-septate conidia. However, the new species is morphologically distinct in its conidiomata characteristics and phylogenetic affinity.
... Phaeosphaeriaceae is a large, highly diverse family in the order Pleosporales containing 58 genera with more than 400 species , Wijayawardene et al. 2018. Barr (1979) introduced Phaeosphaeriaceae, which is characterized by immersed to superficial, globose to subglobose ascomata, short papilla, bitunicate asci and hyaline, yellowish or brown, fusiform to ellipsoidal, filiform, or muriform, septate ascospores (Bakhshi et al. 2019, Maharachchikumbura et al. 2019. Members of the Phaeosphaeriaceae are cosmopolitan and occur on a wide range of monocotyledons and dicotyledons plants (Phookamsak et al. , 2017. ...
Phaeosphaeria ampeli is a new species collected from dead leaves of Ficus ampelas in Fanlu Township area, Dahu forest, Chiayi, Taiwan. Phaeosphaeria musae is a new record from dead leaves of Roystonea regia. Both species are described, illustrated and compared with similar species. Phaeosphaeria ampeli is distinguished from other Phaeosphaeria species based on distinct size differences of the ascomata, asci, ascospores and analyses of DNA sequence data. Maximum parsimony, maximum likelihood and Bayesian inference analyses of combined ITS, LSU, SSU and tef1-α sequence data are used to clarify the phylogenetic affinities of the species.
... Amplifications were carried out in an Applied Biosystems ProFlex PCR System (Life Technologies, USA). SSU, LSU and ITS gene regions were amplified by conditions explained in Maharachchikumbura et al. (2019). PCR conditions for the TEF gene consisted of 40 cycles of 30 s at 94 °C, 30 s at 52 °C / 59 °C and 45 s at 72 °C with the final elongation step being 7 min at 72 °C. ...
The genus Alternaria contains a large number of diverse species which include many phytopathogens, endophytes and saprobes, as well as environmental species. An Alternaria species was isolated from dead wood of unknown plant collected from the Al Jabal al-Akhdar Mountain in Oman. This species did not have a conclusive match to any known Alternaria in the GenBank database using BLAST searchers based on ITS gene sequences. The analysis of a sequence dataset based on SSU, LSU, ITS, GPDH, TEF and RPB2 genes of the newly discovered species showed that it represented a new section in Altenraria. A detailed morphological comparison of both sexual and asexual morphs support the conclusions based on the sequence data. Therefore, we introduce a new Alternaria section Omanenses and a new species, Alternaria omanensis.
China has a huge area of diverse landscapes and is believed to conceive incredibly high fungal diversity. To systematically and promptly report Chinese fungal species, we initiate the series of Catalogue of fungi in China here. In the first paper of this series, we focus on plant-inhabiting fungi. A total of 33 new taxa are described all over China. These taxa include two new genera, viz., and N. yoshinagae. The morphological characteristics and phylogenetic evidence are used to support the establishment of these new taxa and the accuracy of their taxonomic placements. We hope that the series of Catalogue of fungi in China will contribute to Chinese fungal diversity and promote the significance of recording new fungal taxa from China. ARTICLE HISTORY
This study documents the morphology and phylogeny of ascomycetes collected from karst landscapes of Guizhou Province, China. Based on morphological characteristics in conjunction with DNA sequence data, 70 species are identified and distributed in two classes (Dothideomycetes and Sordariomycetes), 16 orders, 41 families and 60 genera. One order Planisphaeriales, four families Leptosphaerioidaceae, Neoleptosporellaceae, Planisphaeriaceae and Profundisphaeriaceae, ten genera Conicosphaeria, Karstiomyces, Leptosphaerioides, Neoceratosphaeria, Neodiaporthe, Neodictyospora, Planisphaeria, Profundisphaeria, Stellatus and Truncatascus, and 34 species (Amphisphaeria karsti, Anteaglonium hydei, Atractospora terrestris, Conicosphaeria vaginatispora, Corylicola hydei, Diaporthe cylindriformispora, Dictyosporium karsti, Hysterobrevium karsti, Karstiomyces guizhouensis, Leptosphaerioides guizhouensis, Lophiotrema karsti, Murispora hydei, Muyocopron karsti, Neoaquastroma guizhouense, Neoceratosphaeria karsti, Neodiaporthe reniformispora, Neodictyospora karsti, Neoheleiosa guizhouensis, Neoleptosporella fusiformispora, Neoophiobolus filiformisporum, Ophioceras guizhouensis, Ophiosphaerella karsti, Paraeutypella longiasca, Paraeutypella karsti, Patellaria guizhouensis, Planisphaeria karsti, Planisphaeria reniformispora, Poaceascoma herbaceum, Profundisphaeria fusiformispora, Pseudocoleophoma guizhouensis, Pseudopolyplosphaeria guizhouensis, Stellatus guizhouensis, Sulcatispora karsti and Truncatascus microsporus) are introduced as new to science. Moreover, 13 new geographical records for China are also reported, which are Acrocalymma medicaginis, Annulohypoxylon thailandicum, Astrosphaeriella bambusae, Diaporthe novem, Hypoxylon rubiginosum, Ophiosphaerella agrostidis, Ophiosphaerella chiangraiensis, Patellaria atrata, Polyplosphaeria fusca, Psiloglonium macrosporum, Sarimanas shirakamiense, Thyridaria broussonetiae and Tremateia chromolaenae. Additionally, the family Eriomycetaceae was resurrected as a non-lichenized family and accommodated within Monoblastiales. Detailed descriptions and illustrations of all these taxa are provided.
In this study, a saprobic species of Murichromolaenicola (Phaeosphaeriaceae, Dothideomycetes) was collected from dead
stems of Chromolaena odorata in northern Thailand. It is introduced as a new species Murichromolaenicola thailandensis
sp. nov. based on morphology and multigene phylogeny of combined LSU, SSU, ITS, tef1-α, and rpb2 sequence data.
Murichromolaenicola thailandensis is similar to other Murichromolaenicola species by having muriform spores but can be
differentiated by its smaller conidia with a gelatinous cap and the number of septa on conidia. Here, we present a detailed
description, illustrations and antibacterial potential of this new species. Our findings contribute to the expanding knowledge
of fungal diversity in Thailand and highlight the importance of utilizing molecular approaches to accurately identify and
classify fungi in Ascomycota.
In the present study, we surveyed the ascomycetes from bamboo of Phyllostachys across Sichuan Province, China. A biphasic approach based on morphological characteristics and multi-gene phylogeny confirmed seven species, including one new genus, two new species, and five new host record species. A novel genus Paralloneottiosporina is introduced to accommodate Pa. sichuanen-sis that was collected from leaves of Phyllostachys violascens. Moreover, the newly introduced species Bifusisporella sichuanensis was isolated from leaves of P. edulis, and five species were newly recorded on bamboos, four species belonging to Apiospora, viz. Ap. yunnana, Ap. neosubglobosa, Ap. jiang-xiensis, and Ap. hydei, and the last species, Seriascoma yunnanense, isolated from dead culms of P. heterocycla. Morphologically similar and phylogenetically related taxa were compared. Comprehensive descriptions, color photo plates of micromorphology are provided.
Fungal diversity notes is one of the important journal series of fungal taxonomy that provide detailed descriptions and illustrations of new fungal taxa, as well as providing new information of fungal taxa worldwide. This article is the 11th contribution to the fungal diversity notes series, in which 126 taxa distributed in two phyla, six classes, 24 orders and 55 families are described and illustrated. Taxa in this study were mainly collected from Italy by Erio Camporesi and also collected from China, India and Thailand, as well as in some other European, North American and South American countries. Taxa described in the present study include two new families, 12 new genera, 82 new species, five new combinations and 25 new records on new hosts and new geographical distributions as well as sexual-asexual reports. The two new families are Eriomycetaceae (Dothideomycetes, family incertae sedis) and Fasciatisporaceae (Xylariales, Sordariomycetes). The twelve new genera comprise Bhagirathimyces (Phaeosphaeriaceae), Camporesiomyces (Tubeufiaceae), Eriocamporesia (Cryphonectriaceae), Eriomyces (Eriomycetaceae), Neomonodictys (Pleurotheciaceae), Paraloratospora (Phaeosphaeriaceae), Paramonodictys (Parabambusicolaceae), Pseudoconlarium (Diaporthomycetidae, genus incertae sedis), Pseudomurilentithecium (Lentitheciaceae), Setoapiospora (Muyocopronaceae), Srinivasanomyces (Vibrisseaceae) and Xenoanthostomella (Xylariales, genera incertae sedis). The 82 new species comprise Acremonium chiangraiense, Adustochaete nivea, Angustimassarina camporesii, Bhagirathimyces himalayensis, Brunneoclavispora camporesii, Camarosporidiella camporesii, Camporesiomyces mali, Camposporium appendiculatum, Camposporium multiseptatum, Camposporium septatum, Canalisporium aquaticium, Clonostachys eriocamporesiana, Clonostachys eriocamporesii, Colletotrichum hederiicola, Coniochaeta vineae, Conioscypha verrucosa, Cortinarius ainsworthii, Cortinarius aurae, Cortinarius britannicus, Cortinarius heatherae, Cortinarius scoticus, Cortinarius subsaniosus, Cytospora fusispora, Cytospora rosigena, Diaporthe camporesii, Diaporthe nigra, Diatrypella yunnanensis, Dictyosporium muriformis, Didymella camporesii, Diutina bernali, Diutina sipiczkii, Eriocamporesia aurantia, Eriomyces heveae, Ernakulamia tanakae, Falciformispora uttaraditensis, Fasciatispora cocoes, Foliophoma camporesii, Fuscostagonospora camporesii, Helvella subtinta, Kalmusia erioi, Keissleriella camporesiana, Keissleriella camporesii, Lanspora cylindrospora, Loratospora arezzoensis, Mariannaea atlantica, Melanographium phoenicis, Montagnula camporesii, Neodidymelliopsis camporesii, Neokalmusia kunmingensis, Neoleptosporella camporesiana, Neomonodictys muriformis, Neomyrmecridium guizhouense, Neosetophoma camporesii, Paraloratospora camporesii, Paramonodictys solitarius, Periconia palmicola, Plenodomus triseptatus, Pseudocamarosporium camporesii, Pseudocercospora maetaengensis, Pseudochaetosphaeronema kunmingense, Pseudoconlarium punctiforme, Pseudodactylaria camporesiana, Pseudomurilentithecium camporesii, Pseudotetraploa rajmachiensis, Pseudotruncatella camporesii, Rhexocercosporidium senecionis, Rhytidhysteron camporesii, Rhytidhysteron erioi, Septoriella camporesii, Setoapiospora thailandica, Srinivasanomyces kangrensis, Tetraploa dwibahubeeja, Tetraploa pseudoaristata, Tetraploa thrayabahubeeja, Torula camporesii, Tremateia camporesii, Tremateia lamiacearum, Uzbekistanica pruni, Verruconis mangrovei, Wilcoxina verruculosa, Xenoanthostomella chromolaenae and Xenodidymella camporesii. The five new combinations are Camporesiomyces patagoniensis, Camporesiomyces vaccinia, Camposporium lycopodiellae, Paraloratospora gahniae and Rhexocercosporidium microsporum. The 22 new records on host and geographical distribution comprise Arthrinium marii, Ascochyta medicaginicola, Ascochyta pisi, Astrocystis bambusicola, Camposporium pellucidum, Dendryphiella phitsanulokensis, Diaporthe foeniculina, Didymella macrostoma, Diplodia mutila, Diplodia seriata, Heterosphaeria patella, Hysterobrevium constrictum, Neodidymelliopsis ranunculi, Neovaginatispora fuckelii, Nothophoma quercina, Occultibambusa bambusae, Phaeosphaeria chinensis, Pseudopestalotiopsis theae, Pyxine berteriana, Tetraploa sasicola, Torula gaodangensis and Wojnowiciella dactylidis. In addition, the sexual morphs of Dissoconium eucalypti and Phaeosphaeriopsis pseudoagavacearum are reported from Laurus nobilis and Yucca gloriosa in Italy, respectively. The holomorph of Diaporthe cynaroidis is also reported for the first time.
The endophytic Talaromyces omanensis sp. nov., a new microfungus isolated from the desert plant Rhazya stricta in Oman, is described and illustrated. The new species forms a distinct sister clade to the section Subinflati in the phylogeny of internal transcribed spacer (ITS), β-tubulin (benA) and Calmodulin (CaM). Talaromyces omanensis remains distinct and unique from the other species in the section Subinflati in having monoverticillate conidiophores.
This article is the ninth in the series of Fungal Diversity Notes, where 107 taxa distributed in three phyla, nine classes, 31 orders and 57 families are described and illustrated. Taxa described in the present study include 12 new genera, 74 new species, three new combinations, two reference specimens, a re-circumscription of the epitype, and 15 records of sexual-asexual morph connections, new hosts and new geographical distributions. Twelve new genera comprise Brunneofusispora, Brunneomurispora, Liua, Lonicericola, Neoeutypella, Paratrimmatostroma, Parazalerion, Proliferophorum, Pseudoastrosphaeriellopsis, Septomelanconiella, Velebitea and Vicosamyces. Seventy-four new species are Agaricus memnonius, A. langensis, Aleurodiscus patagonicus, Amanita flavoalba, A. subtropicana, Amphisphaeria mangrovei, Baorangia major, Bartalinia kunmingensis, Brunneofusispora sinensis, Brunneomurispora lonicerae, Capronia camelliae-yunnanensis, Clavulina thindii, Coniochaeta simbalensis, Conlarium thailandense, Coprinus trigonosporus, Liua muriformis, Cyphellophora filicis, Cytospora ulmicola, Dacrymyces invisibilis, Dictyocheirospora metroxylonis, Distoseptispora thysanolaenae, Emericellopsis koreana, Galiicola baoshanensis, Hygrocybe lucida, Hypoxylon teeravasati, Hyweljonesia indica, Keissleriella caraganae, Lactarius olivaceopallidus, Lactifluus midnapurensis, Lembosia brigadeirensis, Leptosphaeria urticae, Lonicericola hyaloseptispora, Lophiotrema mucilaginosis, Marasmiellus bicoloripes, Marasmius indojasminodorus, Micropeltis phetchaburiensis, Mucor orantomantidis, Murilentithecium lonicerae, Neobambusicola brunnea, Neoeutypella baoshanensis, Neoroussoella heveae, Neosetophoma lonicerae, Ophiobolus malleolus, Parabambusicola thysanolaenae, Paratrimmatostroma kunmingensis, Parazalerion indica, Penicillium dokdoense, Peroneutypa mangrovei, Phaeosphaeria cycadis, Phanerochaete australosanguinea, Plectosphaerella kunmingensis, Plenodomus artemisiae, P. lijiangensis, Proliferophorum thailandicum, Pseudoastrosphaeriellopsis kaveriana, Pseudohelicomyces menglunicus, Pseudoplagiostoma mangiferae, Robillarda mangiferae, Roussoella elaeicola, Russula choptae, R. uttarakhandia, Septomelanconiella thailandica, Spencermartinsia acericola, Sphaerellopsis isthmospora, Thozetella lithocarpi, Trechispora echinospora, Tremellochaete atlantica, Trichoderma koreanum, T. pinicola, T. rugulosum, Velebitea chrysotexta, Vicosamyces venturisporus, Wojnowiciella kunmingensis and Zopfiella indica. Three new combinations are Baorangia rufomaculata, Lanmaoa pallidorosea and Wojnowiciella rosicola. The reference specimens of Canalisporium kenyense and Tamsiniella labiosa are designated. The epitype of Sarcopeziza sicula is re-circumscribed based on cyto- and histochemical analyses. The sexual-asexual morph connection of Plenodomus sinensis is reported from ferns and Cirsium for the first time. In addition, the new host records and country records are Amanita altipes, A. melleialba, Amarenomyces dactylidis, Chaetosphaeria panamensis, Coniella vitis, Coprinopsis kubickae, Dothiorella sarmentorum, Leptobacillium leptobactrum var. calidus, Muyocopron lithocarpi, Neoroussoella solani, Periconia cortaderiae, Phragmocamarosporium hederae, Sphaerellopsis paraphysata and Sphaeropsis eucalypticola.
We present the latest version of the Molecular Evolutionary Genetics Analysis (MEGA) software, which contains many sophisticated
methods and tools for phylogenomics and phylomedicine. In this major upgrade, MEGA has been optimized for use on 64-bit computing
systems for analyzing bigger datasets. Researchers can now explore and analyze tens of thousands of sequences in MEGA. The
new version also provides an advanced wizard for building timetrees and includes a new functionality to automatically predict
gene duplication events in gene family trees. The 64-bit MEGA is made available in two interfaces: graphical and command line.
The graphical user interface (GUI) is a native Microsoft Windows application that can also be used on Mac OSX. The command
line MEGA is available as native applications for Windows, Linux, and Mac OSX. They are intended for use in high-throughput
and scripted analysis. Both versions are available from www.megasoftware.net free of charge.
Accurate identification and demarcation of taxa has far reaching implications in mycology, especially when plant pathogens are involved. Yet few publications have seriously proposed recommendations as to how to delineate species boundaries. Morphology, with all its taxonomic disparities, has been the main criterion upon which current fungal species concepts are based and morphologically defined species make up the largest number of named species. Although phylogenomic based studies arguably offer novel insights into classification at higher taxonomic levels, relationships at the species level and recognition of species remain largely controversial and subject to different interpretations. Our recommendations herein will provide a more rational framework based on scientific data on how to delineate species and establish a new taxon.
This paper is the seventh in the Fungal Diversity Notes series, where 131 taxa accommodated in 28 families are mainly described from Rosa (Rosaceae) and a few other hosts. Novel fungal taxa are described in the present study, including 17 new genera, 93 new species, four combinations, a sexual record for a species and new host records for 16 species. Bhatiellae, Cycasicola, Dactylidina, Embarria, Hawksworthiana, Italica, Melanocucurbitaria, Melanodiplodia, Monoseptella, Uzbekistanica, Neoconiothyrium, Neopaucispora, Pararoussoella, Paraxylaria, Marjia, Sporormurispora and Xenomassariosphaeria are introduced as new ascomycete genera. We also introduce the new species Absidia jindoensis, Alternaria doliconidium, A. hampshirensis, Angustimassarina rosarum, Astragalicola vasilyevae, Backusella locustae, Bartalinia rosicola, Bhatiellae rosae, Broomella rosae, Castanediella camelliae, Coelodictyosporium rosarum, Comoclathris rosae, C. rosarum, Comoclathris rosigena, Coniochaeta baysunika, C. rosae, Cycasicola goaensis, Dactylidina shoemakeri, Dematiopleospora donetzica, D. rosicola, D. salsolae, Diaporthe rosae, D. rosicola, Endoconidioma rosae-hissaricae, Epicoccum rosae, Hawksworthiana clematidicola, H. lonicerae, Italica achilleae, Keissleriella phragmiticola, K. rosacearum, K. rosae, K. rosarum, Lophiostoma rosae, Marjia tianschanica, M. uzbekistanica, Melanocucurbitaria uzbekistanica, Melanodiplodia tianschanica, Monoseptella rosae, Mucor fluvius, Muriformistrickeria rosae, Murilentithecium rosae, Neoascochyta rosicola, Neoconiothyrium rosae, Neopaucispora rosaecae, Neosetophoma rosarum, N. rosae, N. rosigena, Neostagonospora artemisiae, Ophiobolus artemisiicola, Paraconiothyrium rosae, Paraphaeosphaeria rosae, P. rosicola, Pararoussoella rosarum, Parathyridaria rosae, Paraxylaria rosacearum, Penicillium acidum, P. aquaticum, Phragmocamarosporium rosae, Pleospora rosae, P. rosae-caninae, Poaceicola agrostina, P. arundinicola, P. rosae, Populocrescentia ammophilae, P. rosae, Pseudocamarosporium pteleae, P. ulmi-minoris, Pseudocercospora rosae, Pseudopithomyces rosae, Pseudostrickeria rosae, Sclerostagonospora lathyri, S. rosae, S. rosicola, Seimatosporium rosigenum, S. rosicola, Seiridium rosarum, Setoseptoria arundelensis, S. englandensis, S. lulworthcovensis, Sigarispora agrostidis, S. caryophyllacearum, S. junci, S. medicaginicola, S. rosicola, S. scrophulariae, S. thymi, Sporormurispora atraphaxidis, S. pruni, Suttonomyces rosae, Umbelopsis sinsidoensis, Uzbekistanica rosae-hissaricae, U. yakutkhanika, Wojnowicia rosicola, Xenomassariosphaeria rosae. New host records are provided for Amandinea punctata, Angustimassarina quercicola, Diaporthe rhusicola, D. eres, D. foeniculina, D. rudis, Diplodia seriata, Dothiorella iberica, Lasiodiplodia theobromae, Lecidella elaeochroma, Muriformistrickeria rubi, Neofusicoccum australe, Paraphaeosphaeria michotii, Pleurophoma pleurospora, Sigarispora caulium and Teichospora rubriostiolata. The new combinations are Dactylidina dactylidis (=Allophaeosphaeria dactylidis), Embarria clematidis (=Allophaeosphaeria clematidis), Hawksworthiana alliariae (=Dematiopleospora alliariae) and Italica luzulae (=Dematiopleospora luzulae). This study also provides some insights into the diversity of fungi on Rosa species and especially those on Rosa spines that resulted in the characterisation of eight new genera, 45 new species, and nine new host records. We also collected taxa from Rosa stems and there was 31% (20/65) overlap with taxa found on stems with that on spines. Because of the limited and non-targeted sampling for comparison with collections from spines and stems of the same host and location, it is not possible to say that the fungi on spines of Rosa differ from those on stems. The study however, does illustrate how spines are interesting substrates with high fungal biodiversity. This may be because of their hard structure resulting in slow decay and hence are suitable substrates leading to fungal colonisation. All data presented herein are based on morphological examination of specimens, coupled with phylogenetic sequence data to better integrate taxa into appropriate taxonomic ranks and infer their evolutionary relationships.
Taxonomic placement of genera have been changing rapidly as taxonomists widely use DNA sequence data in phylogenetic and evolutionary studies. It is essential to update existing databases/outlines based on recent studies, since these sources are widely used as a foundation for other research. In this outline, we merge both asexual and sexual genera into one outline. The phylum Ascomycota comprises of three subphyla viz. Pezizomycotina (including 13 classes, 124 orders and 507 families), Saccharomycotina (including one class, one order and 13 families) and Taphrinomycotina (five classes, five orders and six families). Approximately, 6600 genera have been listed under different taxonomic ranks including auxiliary (intermediate) taxonomic ranks.
This is the sixth in a series of papers where we bring collaborating mycologists together to produce a set of notes of several taxa of fungi. In this study we introduce a new family Fuscostagonosporaceae in Dothideomycetes. We also introduce the new ascomycete genera Acericola, Castellaniomyces, Dictyosporina and Longitudinalis and new species Acericola italica, Alternariaster trigonosporus, Amarenomyces dactylidis, Angustimassarina coryli, Astrocystis bambusicola, Castellaniomyces rosae, Chaetothyrina artocarpi, Chlamydotubeufia krabiensis, Colletotrichum lauri, Collodiscula chiangraiensis, Curvularia palmicola, Cytospora mali-sylvestris, Dictyocheirospora cheirospora, Dictyosporina ferruginea, Dothiora coronillae, Dothiora spartii, Dyfrolomyces phetchaburiensis, Epicoccum cedri, Epicoccum pruni, Fasciatispora calami, Fuscostagonospora cytisi, Grandibotrys hyalinus, Hermatomyces nabanheensis, Hongkongmyces thailandica, Hysterium rhizophorae, Jahnula guttulaspora, Kirschsteiniothelia rostrata, Koorchalomella salmonispora, Longitudinalis nabanheensis, Lophium zalerioides, Magnibotryascoma mali, Meliola clerodendri-infortunati, Microthyrium chinense, Neodidymelliopsis moricola, Neophaeocryptopus spartii, Nigrograna thymi, Ophiocordyceps cossidarum, Ophiocordyceps issidarum, Ophiosimulans plantaginis, Otidea pruinosa, Otidea stipitata, Paucispora kunmingense, Phaeoisaria microspora, Pleurothecium floriforme, Poaceascoma halophila, Periconia aquatica, Periconia submersa, Phaeosphaeria acaciae, Phaeopoacea muriformis, Pseudopithomyces kunmingnensis, Ramgea ozimecii, Sardiniella celtidis, Seimatosporium italicum, Setoseptoria scirpi, Torula gaodangensis and Vamsapriya breviconidiophora. We also provide an amended account of Rhytidhysteron to include apothecial ascomata and a J+ hymenium. The type species of Ascotrichella hawksworthii (Xylariales genera incertae sedis), Biciliopsis leptogiicola (Sordariomycetes genera incertae sedis), Brooksia tropicalis (Micropeltidaceae), Bryochiton monascus (Teratosphaeriaceae), Bryomyces scapaniae (Pseudoperisporiaceae), Buelliella minimula (Dothideomycetes genera incertae sedis), Carinispora nypae (Pseudoastrosphaeriellaceae), Cocciscia hammeri (Verrucariaceae), Endoxylina astroidea (Diatrypaceae), Exserohilum turcicum (Pleosporaceae), Immotthia hypoxylon (Roussoellaceae), Licopolia franciscana (Vizellaceae), Murispora rubicunda (Amniculicolaceae) and Doratospora guianensis (synonymized under Rizalia guianensis, Trichosphaeriaceae) were re-examined and descriptions, illustrations and discussion on their familial placement are given based on phylogeny and morphological data. New host records or new country reports are provided for Chlamydotubeufia huaikangplaensis, Colletotrichum fioriniae, Diaporthe subclavata, Diatrypella vulgaris, Immersidiscosia eucalypti, Leptoxyphium glochidion, Stemphylium vesicarium, Tetraploa yakushimensis and Xepicula leucotricha. Diaporthe baccae is synonymized under Diaporthe rhusicola. A reference specimen is provided for Periconia minutissima. Updated phylogenetic trees are provided for most families and genera. We introduce the new basidiomycete species Agaricus purpurlesquameus, Agaricus rufusfibrillosus, Lactifluus holophyllus, Lactifluus luteolamellatus, Lactifluus pseudohygrophoroides, Russula benwooii, Russula hypofragilis, Russula obscurozelleri, Russula parapallens, Russula phoenicea, Russula pseudopelargonia, Russula pseudotsugarum, Russula rhodocephala, Russula salishensis, Steccherinum amapaense, Tephrocybella constrictospora, Tyromyces amazonicus and Tyromyces angulatus and provide updated trees to the genera. We also introduce Mortierella formicae in Mortierellales, Mucoromycota and provide an updated phylogenetic tree.
Ophiobolus is a large genus of Phaeosphaeriaceae comprising more than 350 possible species, most of which are saprobes on herbaceous plants in Europe and North America. Ophiobolus species are polyphyletic and the type of Ophiobolus is not represented in GenBank. Therefore, an increased taxon sampling of ophiobolus-like taxa and epitypification of the type species, O. disseminans is reported. Multigene phylogenetic analyses of combined LSU, SSU, TEF1-α and ITS sequence data position O. disseminans in a sister clade with O. ponticus and several Entodesmium species in Phaeosphaeriaceae with high support. Therefore, Entodesmium is synonymized under Ophiobolus. Premilcurensis with it type species, P. senecionis also clusters within the Ophiobolus clade and is synonymized under Ophiobolus. Ophiobolus rossicus sp. nov. is introduced and a reference specimen is designated for O. ponticus. Other ophiobolus-like taxa (Ophiobolus sensu lato) can be distinguished as three main groups, which are introduced as new genera. Ophiobolopsis is introduced to accommodate the new species, Ophiobolopsis italica. The new genus Paraophiobolus is introduced to accommodate P. arundinis sp. nov. and P. plantaginis comb. nov. This genus is characterized by hyaline to pale yellowish ascospores, some green-yellowish at maturity, with a swollen cell, terminal appendages and ascospores not separating into part spores. Pseudoophiobolus gen. nov. is introduced to accommodate six new species and two new combinations, viz. Ps. achilleae, Ps. erythrosporus, Ps. galii, Ps. italicus, Ps. mathieui, Ps. rosae, Ps. subhyalinisporus and Ps. urticicola. Pseudoophiobolus is characterized by subhyaline to pale yellowish or yellowish ascospores, with a swollen cell, lack of terminal appendages and ascospores that do not separate into part spores and is related to Nodulosphaeria. An updated tree for Phaeosphaeriaceae based on multigene analysis is also provided.
EHC 2017-Novel fungal species of Phaeosphaeriaceae with an asexual/sexual morph connection. Abstract We are studying Dothideomycetes from different hosts in different geographical regions and have introduced new taxa from China, Iran and Italy. In this paper, we introduce Yunnanensis gen. nov. on Poaceae from Yunnan Province, in China, to accommodate Y. phragmitis sp. nov. Neosetophoma iranianum sp. nov. recovered from soil in Iran is also introduced and a sexual morph of Wojnowicia dactylidis on Asperula sp. (Rubiaceae) collected in Italy is also reported. DNA sequence based phylogenies (ribosomal gene) are also generated to infer potential taxonomic relationships. Yunnanensis is morphologically distinct from other genera in Phaeosphaeriaceae in having ascomata with evenly thickened walls comprising with textura angularis and textura angularis to textura prismatica inner layers, broadly cylindrical to cylindric-clavate asci, muriform ascospores with a mucilaginous sheath and a coelomycetous asexual state with muriform conidia. Sciences 1819 iranianum is distinct from other species in having subglobose, ovoid to tear-drop shaped transversely septate;, biseptate to triseptate conidia. Neosetophoma iranianum is closely related to N. lunariae but DNA sequence data differences are sufficient to segregate them as two species. Another interesting finding are the asexual/sexual morph connections in Yunnanensis phragmitis and Wojnowiciella dactylidis. All novel taxa investigated herein belong to the family Phaeosphaeriaceae.
This study examined fungal diversity and composition in conventional (CM) and desert farming (DE) systems in Oman. Fungal diversity in the rhizosphere of tomato was assessed using 454-pyrosequencing and culture-based techniques. Both techniques produced variable results in terms of fungal diversity, with 25% of the fungal classes shared between the two techniques. In addition, pyrosequencing recovered more taxa compared to direct plating. These findings could be attributed to the ability of pyrosequencing to recover taxa that cannot grow or are slow growing on culture media. Both techniques showed that fungal diversity in the conventional farm was comparable to that in the desert farm. However, the composition of fungal classes and taxa in the two farming systems were different. Pyrosequencing revealed that Microsporidetes and Dothideomycetes are the two most common fungal classes in CM and DE, respectively. However, the culture-based technique revealed that Eurotiomycetes was the most abundant class in both farming systems and some classes, such as Microsporidetes, were not detected by the culture-based technique. Although some plant pathogens (e.g., Pythium or Fusarium) were detected in the rhizosphere of tomato, the majority of fungal species in the rhizosphere of tomato were saprophytes. Our study shows that the cultivation system may have an impact on fungal diversity. The factors which affected fungal diversity in both farms are discussed.
Two new pathogens of pyrethrum, described as Paraphoma chlamydocopiosa and Paraphoma pye, isolated from necrotic leaf lesions on pyrethrum plants in northern Tasmania, Australia, were identified using morphological characters, phylogenetic analysis of the internal transcribed spacer (ITS), elongation factor 1-α (EF1-α) and β-tubulin (TUB) genes, and pathogenicity bioassays. Bootstrap support in the combined and individual gene region phylogenetic trees supported the two species that were significantly different from the closely related P. chrysanthemicola and P. vinacea. Morphological characteristics also supported the two new species, with conidia of P. chlamydocopiosa being considerably longer and wider than either P. chrysanthemicola or P. vinacea, and P. pye being distinct in forming bilocular pycnidia. Glasshouse pathogenicity tests based on root dip inoculation resulted in P. chlamydocopiosa and P. pye infecting the crown and upper root tissues of pyrethrum plants, and significant reduction in biomass 2 months after inoculation. Both of these Paraphoma species caused leaf lesions during in vitro and in vivo bioassays 2 weeks after foliar spray inoculation. Although P. chlamydocopiosa and P. pye were shown to be crown rot pathogens, they were also commonly isolated from leaves of diseased plants in pyrethrum fields of northern Tasmania.
This is a continuity of a series of taxonomic and phylogenetic papers on the fungi where materials were collected from many countries, examined and described. In addition to extensive morphological descriptions and appropriate asexual and sexual connections, DNA sequence data are also analysed from concatenated datasets to infer phylogenetic relationships and substantiate systematic positions of taxa within appropriate ranks. Wherever new species or combinations are proposed, we apply an integrative approach using morphological and molecular data as well as ecological features wherever applicable. Notes on 112 fungal taxa are compiled in this paper including Biatriosporaceae and Roussoellaceae, Didysimulans gen. nov., 81 new species, 18 new host records and new country records, five reference specimens, two new combinations, and three sexual and asexual morph reports. The new species are Amanita cornelii, A. emodotrygon, Angustimassarina alni, A. arezzoensis, A. italica, A. lonicerae, A. premilcurensis, Ascochyta italica, A. rosae, Austroboletus appendiculatus, Barriopsis thailandica, Berkleasmium ariense, Calophoma petasitis, Camarosporium laburnicola, C. moricola, C. grisea, C. ossea, C. paraincrustata, Colletotrichum sambucicola, Coprinopsis cerkezii, Cytospora gelida, Dacrymyces chiangraiensis, Didysimulans italica, D. mezzanensis, Entodesmium italica, Entoloma magnum, Evlachovaea indica, Exophiala italica, Favolus gracilisporus, Femsjonia monospora, Fomitopsis flabellata, F. roseoalba, Gongronella brasiliensis, Helvella crispoides, Hermatomyces chiangmaiensis, H. chromolaenae, Hysterium centramurum, Inflatispora caryotae, Inocybe brunneosquamulosa, I. luteobrunnea, I. rubrobrunnea, Keissleriella cirsii, Lepiota cylindrocystidia, L. flavocarpa, L. maerimensis, Lophiotrema guttulata, Marasmius luculentus, Morenoina calamicola, Moelleriella thanathonensis, Mucor stercorarius, Myrmecridium fluviae, Myrothecium septentrionale, Neosetophoma garethjonesii, Nigrograna cangshanensis, Nodulosphaeria guttulatum, N. multiseptata, N. sambuci, Panus subfasciatus, Paraleptosphaeria padi, Paraphaeosphaeria viciae, Parathyridaria robiniae, Penicillium punicae, Phaeosphaeria calamicola, Phaeosphaeriopsis yuccae, Pleurophoma italica, Polyporus brevibasidiosus, P. koreanus, P. orientivarius, P. parvovarius, P. subdictyopus, P. ulleungus, Pseudoasteromassaria spadicea, Rosellinia mearnsii, Rubroboletus demonensis, Russula yanheensis, Sigarispora muriformis, Sillia italica, Stagonosporopsis ailanthicola, Strobilomyces longistipitatus, Subplenodomus galicola and Wolfiporia pseudococos. The new combinations are Melanomma populina and Rubroboletus eastwoodiae. The reference specimens are Cookeina tricholoma, Gnomoniopsis sanguisorbae, Helvella costifera, Polythrincium trifolii and Russula virescens. The new host records and country records are Ascochyta medicaginicola, Boletellus emodensis, Cyptotrama asprata, Cytospora ceratosperma, Favolaschia auriscalpium, F. manipularis, Hysterobrevium mori, Lentinus sajor-caju, L. squarrosulus, L. velutinus, Leucocoprinus cretaceus, Lophiotrema vagabundum, Nothophoma quercina, Platystomum rosae, Pseudodidymosphaeria phlei, Tremella fuciformis, Truncatella spartii and Vaginatispora appendiculata and three sexual and asexual morphs are Aposphaeria corallinolutea, Dothiora buxi and Hypocrella calendulina.
A phylogenetic analysis of nuLSU and ITS sequences representing genera previously included in Dacampiaceae indicates that the family is strongly polyphyletic and that the type species of Dacampia is placed in Pleosporales. The genus Munkovalsaria s. str. is placed in Didymosphaeriaceae (Pleosporales). Polycoccum s. str. and two species of Clypeococcum are shown to form a new lineage sister to the Trypetheliaceae in Trypetheliales and described here as Polycoccaceae. Other members of Polycoccum s. lat. are included in the Pleosporales and are closely related to lichenicolous Phoma-like species of the family Phaeosphaeriaceae. The genus Didymocyrtis is resurrected for these species and for lichenicolous species previously assigned to Diederichia, Diederichomyces, Leptosphaeria and Phoma. The genera Diederichia and Diederichomyces are synonymized with Didymocyrtis. The new combinations Didymocyrtis bryonthae, D. cladoniicola, D. foliaceiphila, D. infestans, D. kaernefeltii, D. melanelixiae, D. pseudeverniae, D. ramalinae, D. slaptoniensis and D. xanthomendozae are made, and the new name D. epiphyscia is introduced for Phoma physciicola. Some anamorph-teleomorph relationships are resolved, such as Didymocyrtis ramalinae–Phoma ficuzzae and Didymocyrtis consimilis–Phoma caloplacae, the phylogenetic results being supported by single ascospore cultures that lead to the asexual stage producing pycnidia and conidia in culture. Speciation by host switching is assumed to be important in the genus Didymocyrtis. An identification key to Didymocyrtis species is provided.
Muriphaeosphaeria galatellae was collected from Galatella villosa in Russia and is introduced as a novel monotypic genus
and species in the family Phaeosphaeriaceae (Pleosporales). Muriphaeosphaeria is distinct from other genera of the family
Phaeosphaeriaceae by its unique suite of characters such as, superficial ascomata with an ascomatal wall comprising thinwalled
brown cells, cellular pseudoparaphyses, muriform ascospores; and conidiomata with a thick hyaline inner wall layer
producing cylindrical to subclavate, 1−3-transversely septate, brown conidia. The asexual morph of M. galatellae developed
in cultures when grown on sterilized pine needles and bamboo pieces. A phylogenetic analysis based on combined LSU, SSU
and ITS sequence data showed that M. galatellae forms a distinct lineage in Phaeosphaeriaceae. The new genus and species
are introduced and compared with other taxa in the family.
Keywords: Dothideomycetes, Galatella villosa, Holomorph, New genus, Russia
This paper is a compilation of notes on 110 fungal taxa, including one new family, 10 new genera, and 76 new species, representing a wide taxonomic and geographic range. The new family, Paradictyoarthriniaceae is introduced based on its distinct lineage in Dothideomycetes and its unique morphology. The family is sister to Biatriosporaceae and Roussoellaceae. The new genera are Allophaeosphaeria (Phaeosphaeriaceae), Amphibambusa (Amphisphaeriaceae), Brunneomycosphaerella (Capnodiales genera incertae cedis), Chaetocapnodium (Capnodiaceae), Flammeascoma (Anteagloniaceae), Multiseptospora (Pleosporales genera incertae cedis), Neogaeumannomyces (Magnaporthaceae), Palmiascoma (Bambusicolaceae), Paralecia (Squamarinaceae) and Sarimanas (Melanommataceae). The newly described species are the Ascomycota Aliquandostipite manochii, Allophaeosphaeria dactylidis, A. muriformia, Alternaria cesenica, Amphibambusa bambusicola, Amphisphaeria sorbi, Annulohypoxylon thailandicum, Atrotorquata spartii, Brunneomycosphaerella laburni, Byssosphaeria musae, Camarosporium aborescentis, C. aureum, C. frutexensis, Chaetocapnodium siamensis, Chaetothyrium agathis, Colletotrichum sedi, Conicomyces pseudotransvaalensis, Cytospora berberidis, C. sibiraeae, Diaporthe thunbergiicola, Diatrype palmicola, Dictyosporium aquaticum, D. meiosporum, D. thailandicum, Didymella cirsii, Dinemasporium nelloi, Flammeascoma bambusae, Kalmusia italica, K. spartii, Keissleriella sparticola, Lauriomyces synnematicus, Leptosphaeria ebuli, Lophiostoma pseudodictyosporium, L. ravennicum, Lophiotrema eburnoides, Montagnula graminicola, Multiseptospora thailandica, Myrothecium macrosporum, Natantispora unipolaris, Neogaeumannomyces bambusicola, Neosetophoma clematidis, N. italica, Oxydothis atypica, Palmiascoma gregariascomum, Paraconiothyrium nelloi, P. thysanolaenae, Paradictyoarthrinium tectonicola, Paralecia pratorum, Paraphaeosphaeria spartii, Pestalotiopsis digitalis, P. dracontomelon, P. italiana, Phaeoisaria pseudoclematidis, Phragmocapnias philippinensis, Pseudocamarosporium cotinae, Pseudocercospora tamarindi, Pseudotrichia rubriostiolata, P. thailandica, Psiloglonium multiseptatum, Saagaromyces mangrovei, Sarimanas pseudofluviatile, S. shirakamiense, Tothia spartii, Trichomerium siamensis, Wojnowicia dactylidicola, W. dactylidis and W. lonicerae. The Basidiomycota Agaricus flavicentrus, A. hanthanaensis, A. parvibicolor, A. sodalis, Cantharellus luteostipitatus, Lactarius atrobrunneus, L. politus, Phylloporia dependens and Russula cortinarioides are also introduced. Epitypifications or reference specimens are designated for Hapalocystis berkeleyi, Meliola tamarindi, Pallidocercospora acaciigena, Phaeosphaeria musae, Plenodomus agnitus, Psiloglonium colihuae, P. sasicola and Zasmidium musae while notes and/or new sequence data are provided for Annulohypoxylon leptascum, A. nitens, A. stygium, Biscogniauxia marginata, Fasciatispora nypae, Hypoxylon fendleri, H. monticulosum, Leptosphaeria doliolum, Microsphaeropsis olivacea, Neomicrothyrium, Paraleptosphaeria nitschkei, Phoma medicaginis and Saccotheciaceae. A full description of each species is provided with light micrographs (or drawings). Molecular data is provided for 90 taxa and used to generate phylogenetic trees to establish a natural classification for species.
Parastagonospora nodorum is a necrotrophic fungal pathogen that causes Septoria nodorum blotch (SNB) (formerly Stagonospora nodorum blotch) on wheat. P. nodorum produces necrotrophic effectors (NE) that are recognized by dominant host sensitivity gene products resulting in disease development. The NE-host interaction is critical to inducing necrotrophic effector-triggered susceptibility (NETS). To date, seven NE-host sensitivity gene interactions, following an inverse gene-for-gene model, have been identified in the P. nodorum-wheat pathosystem. Here we used a wheat mapping population that segregated for sensitivity to two previously characterized interactions (SnTox1-Snn1 and SnTox3-Snn3-B1) to identify and characterize a new interaction involving the NE designated SnTox6 and the host sensitivity gene designated Snn6. SnTox6 is a small secreted protein that induces necrosis on wheat lines harboring Snn6. The SnTox6-Snn6 interaction was light dependent and was shown to underlie a major disease susceptibility QTL. No other QTL were identified even though the P. nodorum isolate used in this study harbored both the SnTox1 and SnTox3 genes. RT-PCR showed that the expression of SnTox1 was not detectable; whereas SnTox3 was expressed and yet still did not play a significant role in disease development. This work expands our knowledge of the wheat-P. nodorum interaction and further establishes this system as a model for necrotrophic specialist pathosystems.
Phaeosphaeriaceae is a large and important family in the order Pleosporales which includes economically important plant pathogens. Species may also be endophytes or saprobes on plant hosts, especially on monocotyledons (e.g., Cannaceae, Cyperaceae, Juncaceae, Poaceae); some species have also been reported on dicotyledons. The family previously accommodated 35 sexual and asexual genera and comprised more than 300 species with a range of morphological characters. The morphological characters of taxa in this family are often ambiguous and can be confused with other taxa in Leptosphaeriaceae and Montagnulaceae. Fourteen specimens of the type genera of Phaeosphaeriaceae were loaned from herbaria worldwide and were re-examined and illustrated. Fresh collections were obtained from Italy and Thailand, characterized, examined, isolated into pure culture and used to obtain molecular data. The asexual state was induced where possible on sterile bamboo pieces placed on water agar. Multigene phylogenetic analyses of ITS, LSU, SSU, RPB2 and TEF1 sequence datasets were carried out using maximum likelihood, maximum parsimony and Bayesian analysis. Molecular analyses shows that 21 genera (Amarenomyces, Ampelomyces, Chaetosphaeronema, Dematiopleospora, Entodesmium, Loratospora, Neosetophoma, Neostagonospora, Nodulosphaeria, Ophiobolus, Ophiosphaerella, Paraphoma, Parastagonospora, Phaeosphaeria, Phaeosphaeriopsis, Sclerostagonospora, Setomelanomma, Setophoma, Vrystaatia, Wojnowicia and Xenoseptoria) belong in Phaeosphaeriaceae, while seven genera (Amarenographium, Bricookea, Dothideopsella, Eudarluca, Phaeostagonospora, Scolecosporiella and Tiarospora) are included based on morphological data. Amarenomyces is reinstated and Nodulosphaeria is confirmed in Phaeosphaeriaceae. Eudarluca is distinguished from Sphaerellopsis based on its morphological characters and is typical of Phaeosphaeriaceae. ITS gene phylogenetic analysis indicates that Sphaerellopsis belongs to Leptosphaeriaceae. Ophiobolus species form a clade within Phaeosphaeriaceae while Ophiosphaerella is shown to be polyphyletic. Phaeosphaeria sensu stricto is redefined. Two new species of Phaeosphaeria and one of Phaeosphaeriopsis are introduced while the asexual states of Phaeosphaeria chiangraina and Phaeosphaeriopsis dracaenicola are reported. Scolicosporium minkeviciusii forms a sister clade with Neostagonospora and Parastagonospora in Phaeosphaeriaceae. However, Scolicosporium minkeviciusii is not the type species. Thus, the placement of Scolicosporium sensu stricto in Phaeosphaeriaceae is questionable. Phylogenetic analysis of combined ITS and LSU genes, confirm the placement of Septoriella oudemansii in Phaeosphaeriaceae. However, it is not represented by the generic type, thus the placement of Septoriella is questionable. Setophaeosphaeria is excluded from Phaeosphariaceae as the type species, Sp. hemerocallidis forms a clade at the base of Cucurbitariaceae. Wilmia clusters in Didymosphaeriaceae and is synonymized under Letendraea. Barria, Chaetoplea, Hadrospora, Lautitia, Metameris, Mixtura and Pleoseptum are excluded from Phaeosphaeriaceae based on their morphological characters. The asexual genera Mycopappus and Xenostigmina are excluded from this family based on the phylogenetic evidence; these genera form a clade close to Melanommataceae.
A new species of Wojnowiciawas isolated from leaves of Viburnum utile in Guizhou
Province, China. The new species, Wojnowicia viburni, is described, illustrated and compared with similar species. It differs from other Wojnowicia species in its 6–8 euseptate,
smaller conidia and lack of setae. Phylogenetic analysis of LSU rDNA sequence data shows
that the species groups with W. hirtaand Ophiosphaerella herpotricha in the family Phaeosphaeriaceae.The genus Wojnowiciais emended to include species without setae. This is
the first record of the genus from China as well as from Asia. A key is provided for the four
species accepted in Wojnowicia
Dothideomycetes comprise a highly diverse range of fungi characterized mainly by asci with two wall layers (bitunicate asci) and often with fissitunicate dehiscence. Many species are saprobes, with many asexual states comprising important plant pathogens. They are also endophytes, epiphytes, fungicolous, lichenized, or lichenicolous fungi. They occur in terrestrial, freshwater and marine habitats in almost every part of the world. We accept 105 families in Dothideomycetes with the new families Anteagloniaceae, Bambusicolaceae, Biatriosporaceae, Lichenoconiaceae, Muyocopronaceae, Paranectriellaceae, Roussoellaceae, Salsugineaceae, Seynesiopeltidaceae and Thyridariaceae introduced in this paper. Each family is provided with a description and notes, including asexual and asexual states, and if more than one genus is included, the type genus is also characterized. Each family is provided with at least one figure-plate, usually illustrating the type genus, a list of accepted genera, including asexual genera, and a key to these genera. A phylogenetic tree based on four gene combined analysis add support for 64 of the families and 22 orders, including the novel orders, Dyfrolomycetales, Lichenoconiales, Lichenotheliales, Monoblastiales, Natipusillales, Phaeotrichales and Strigulales. The paper is expected to provide a working document on Dothideomycetes which can be modified as new data comes to light. It is hoped that by illustrating types we provide stimulation and interest so that more work is carried out in this remarkable group of fungi.
One-hundred and sixteen genera are listed as incertae sedis in the class Dothideomycetes. This is a first of a series of
papers in which we re-examine the herbarium types of these genera, which are generally poorly known. By examining
the generic types we can suggest higher level placements, but more importantly we illustrate the taxa so that they are
better understood. In this way the taxa can be recollected, sequenced and placed in a natural taxonomic framework in the
Ascomycota. In this study we re-examined the genera Dermatodothella, Dothideopsella, Gloeodiscus, Grandigallia and
Hysteropeltella. We re-describe and illustrate the type species of these genera and discuss their placements using modern
concepts. Dermatodothella is placed in Polystomellaceae, Dothideopsella in Phaeosphaeriaceae, Grandigallia in
Shiraiaceae and Hysteropeltella in Schizothyriaceae, while Gloeodiscus is retained in Dothideomycetes incertae sedis.
Fresh collections of these genera are needed for further studies, so that they can be epitypified and molecular data can be
analyzed to obtain a natural classification
Unlabelled:
Septoria represents a genus of plant pathogenic fungi with a wide geographic distribution, commonly associated with leaf spots and stem cankers of a broad range of plant hosts. A major aim of this study was to resolve the phylogenetic generic limits of Septoria, Stagonospora, and other related genera such as Sphaerulina, Phaeosphaeria and Phaeoseptoria using sequences of the the partial 28S nuclear ribosomal RNA and RPB2 genes of a large set of isolates. Based on these results Septoria is shown to be a distinct genus in the Mycosphaerellaceae, which has mycosphaerella-like sexual morphs. Several septoria-like species are now accommodated in Sphaerulina, a genus previously linked to this complex. Phaeosphaeria (based on P. oryzae) is shown to be congeneric with Phaeoseptoria (based on P. papayae), which is reduced to synonymy under the former. Depazea nodorum (causal agent of nodorum blotch of cereals) and Septoria avenae (causal agent of avenae blotch of barley and rye) are placed in a new genus, Parastagonospora, which is shown to be distinct from Stagonospora (based on S. paludosa) and Phaeosphaeria. Partial nucleotide sequence data for five gene loci, ITS, LSU, EF-1α, RPB2 and Btub were generated for all of these isolates. A total of 47 clades or genera were resolved, leading to the introduction of 14 new genera, 36 new species, and 19 new combinations.
Taxonomic novelties:
New genera - Acicuseptoria Quaedvlieg, Verkley & Crous, Cylindroseptoria Quaedvlieg, Verkley & Crous, Kirstenboschia Quaedvlieg, Verkley & Crous, Neoseptoria Quaedvlieg, Verkley & Crous, Neostagonospora Quaedvlieg, Verkley & Crous, Parastagonospora Quaedvlieg, Verkley & Crous, Polyphialoseptoria Quaedvlieg, R.W. Barreto, Verkley & Crous, Ruptoseptoria Quaedvlieg, Verkley & Crous, Septorioides Quaedvlieg, Verkley & Crous, Setoseptoria Quaedvlieg, Verkley & Crous, Stromatoseptoria Quaedvlieg, Verkley & Crous, Vrystaatia Quaedvlieg, W.J. Swart, Verkley & Crous, Xenobotryosphaeria Quaedvlieg, Verkley & Crous, Xenoseptoria Quaedvlieg, H.D. Shin, Verkley & Crous. New species - Acicuseptoria rumicis Quaedvlieg, Verkley & Crous, Caryophylloseptoria pseudolychnidis Quaedvlieg, H.D. Shin, Verkley & Crous, Coniothyrium sidae Quaedvlieg, Verkley, R.W. Barreto & Crous, Corynespora leucadendri Quaedvlieg, Verkley & Crous, Cylindroseptoria ceratoniae Quaedvlieg, Verkley & Crous, Cylindroseptoria pistaciae Quaedvlieg, Verkley & Crous, Kirstenboschia diospyri Quaedvlieg, Verkley & Crous, Neoseptoria caricis Quaedvlieg, Verkley & Crous, Neostagonospora caricis Quaedvlieg, Verkley & Crous, Neostagonospora elegiae Quaedvlieg, Verkley & Crous, Paraphoma dioscoreae Quaedvlieg, H.D. Shin, Verkley & Crous, Parastagonospora caricis Quaedvlieg, Verkley & Crous, Parastagonospora poae Quaedvlieg, Verkley & Crous, Phlyctema vincetoxici Quaedvlieg, Verkley & Crous, Polyphialoseptoria tabebuiae-serratifoliae Quaedvlieg, Alfenas & Crous, Polyphialoseptoria terminaliae Quaedvlieg, R.W. Barreto, Verkley & Crous, Pseudoseptoria collariana Quaedvlieg, Verkley & Crous, Pseudoseptoria obscura Quaedvlieg, Verkley & Crous, Sclerostagonospora phragmiticola Quaedvlieg, Verkley & Crous, Septoria cretae Quaedvlieg, Verkley & Crous, Septoria glycinicola Quaedvlieg, H.D. Shin, Verkley & Crous, Septoria oenanthicola Quaedvlieg, H.D. Shin, Verkley & Crous, Septoria pseudonapelli Quaedvlieg, H.D. Shin, Verkley & Crous, Setophoma chromolaenae Quaedvlieg, Verkley, R.W. Barreto & Crous, Setoseptoria phragmitis Quaedvlieg, Verkley & Crous, Sphaerulina amelanchier Quaedvlieg, Verkley & Crous, Sphaerulina pseudovirgaureae Quaedvlieg, Verkley & Crous, Sphaerulina viciae Quaedvlieg, H.D. Shin, Verkley & Crous, Stagonospora duoseptata Quaedvlieg, Verkley & Crous, Stagonospora perfecta Quaedvlieg, Verkley & Crous, Stagonospora pseudocaricis Quaedvlieg, Verkley, Gardiennet & Crous, Stagonospora pseudovitensis Quaedvlieg, Verkley & Crous, Stagonospora uniseptata Quaedvlieg, Verkley & Crous, Vrystaatia aloeicola Quaedvlieg, Verkley, W.J. Swart & Crous, Xenobotryosphaeria calamagrostidis Quaedvlieg, Verkley & Crous, Xenoseptoria neosaccardoi Quaedvlieg, H.D. Shin, Verkley & Crous. New combinations - Parastagonospora avenae (A.B. Frank) Quaedvlieg, Verkley & Crous, Parastagonospora nodorum (Berk.) Quaedvlieg, Verkley & Crous, Phaeosphaeria papayae (Speg.) Quaedvlieg, Verkley & Crous, Pseudocercospora domingensis (Petr. & Cif.) Quaedvlieg, Verkley & Crous, Ruptoseptoria unedonis (Roberge ex Desm.) Quaedvlieg, Verkley & Crous, Septorioides pini-thunbergii (S. Kaneko) Quaedvlieg, Verkley & Crous, Sphaerulina abeliceae (Hiray.) Quaedvlieg, Verkley & Crous, Sphaerulina azaleae (Voglino) Quaedvlieg, Verkley & Crous, Sphaerulina berberidis (Niessl) Quaedvlieg, Verkley & Crous, Sphaerulina betulae (Pass.) Quaedvlieg, Verkley & Crous, Sphaerulina cercidis (Fr.) Quaedvlieg, Verkley & Crous, Sphaerulina menispermi (Thüm.) Quaedvlieg, Verkley & Crous, Sphaerulina musiva (Peck) Quaedvlieg, Verkley & Crous, Sphaerulina oxyacanthae (Kunze & J.C. Schmidt) Quaedvlieg, Verkley & Crous, Sphaerulina patriniae (Miura) Quaedvlieg, Verkley & Crous, Sphaerulina populicola (Peck) Quaedvlieg, Verkley & Crous, Sphaerulina quercicola (Desm.) Quaedvlieg, Verkley & Crous, Sphaerulina rhabdoclinis (Butin) Quaedvlieg, Verkley & Crous, Stromatoseptoria castaneicola (Desm.) Quaedvlieg, Verkley & Crous. Typifications: Epitypifications - Phaeosphaeria oryzae I. Miyake, Phaeoseptoria papayae Speg.; Neotypification - Hendersonia paludosa Sacc. & Speg.
Al-Sadi, A. M., Al-Ghaithi, A. G., Al-Balushi, Z. M., and Al-Jabri, A. H. 2012. Analysis of diversity in Pythium aphanidermatum populations from a single greenhouse reveals phenotypic and genotypic changes over 2006 to 2011. Plant Dis. 96:852-858. A study was conducted to investigate phenotypic and genotypic changes within Pythium aphanidermatum populations during the period 2006 to 2011. In total, 92 isolates of P. aphanidermatum (59 in 2006 and 33 in 2011) were obtained from different planting sites (soil) of cucumber from a single greenhouse. Generated sequences of the internal transcribed spacer (ITS) ribosomal DNA showed that all, except one isolate, share an identical sequence of the ITS region. Most (89%) P. aphanidermatum isolates were found to be aggressive on cucumber seedlings, with no significant differences in the aggressiveness level between populations obtained from different planting rows or different years. Sensitivity to metalaxyl among populations of P aphanidermatum increased significantly from concentration resulting in 50% growth inhibition levels of 0.070 to 1.823 (average 0.824 mu g ml(-1)) in 2006 to 0.002 to 0.564 (average 0.160 mu g ml(-1)) in 2011. Amplified fragment length polymorphism analysis of the 92 isolates produced 92 different genotypes and 985 polymorphic loci. P. apha-nidermatum populations from 2006 and 2011 were found to have low levels of genetic diversity (H = 0.1425), which implies introduction of the isolates into the greenhouse via common sources. Results from analysis of molecular variance (F-ST = 0.0307 in 2006 and 0.0222 in 2011) provided evidence for frequent exchange of Pythium inoculum between different planting locations within the same year. However, the analysis showed moderate levels (F-ST = 0.1731) of genetic differentiation among populations from the 2 years. This was supported by unweighted pair group method with arithmetic means analysis, which showed clustering of many of the 2006 isolates in separate clusters. The change in the metalaxyl sensitivity of the populations from 2006 to 2011 accompanied by the genetic differences among these two populations may suggest that many of the isolates from 2006 were lost and were replaced by new and highly sensitive P. aphanidermatum isolates by 2011.
One hundred and five generic types of Pleosporales are described and illustrated. A brief introduction and detailed history with short notes on morphology, molecular phylogeny as well as a general conclusion of each genus are provided. For those genera where the type or a representative specimen is unavailable, a brief note is given. Altogether 174 genera of Pleosporales are treated. Phaeotrichaceae as well as Krie-geriella, Zeuctomorpha and Muroia are excluded from Pleosporales. Based on the multigene phylogenetic analysis, the suborder Massarineae is emended to accommodate five families, viz. Lentitheciaceae, Massarinaceae, Montagnulaceae, Morosphaeriaceae and Trematosphaeriaceae.
With the increasing availability of molecular data, maximum likelihood approaches have gained a new central role in phylogenetic reconstructions. Extremely fast tree-search algorithms have been developed to handle data sets of ample size in reasonable time. In the past few years, RAxML has achieved great relevance in this field and obtained wide distribution among evolutionary biologists and taxonomists because of its high computational performance and accuracy. However, there are certain drawbacks with regard to its usability, since the program is exclusively command-line based. To overcome this problem, we developed raxmlGUI, a graphical user interface that makes the use of RAxML easier and highly intuitive, enabling the user to perform phylogenetic analyses of varying complexity. The GUI includes all main options of RAxML, and a number of functions are automated
or simplified. In addition, some features extend the standard use of RAxML, like assembling concatenated alignments with automatic partitioning. RaxmlGUI is an open source Python program, available in a cross-platform package that incorporates RAxML executables for the main operating systems. It can be downloaded from http://sourceforge.net/projects/raxmlgui/.
Keywords: Rapid bootstrap; Graphical user interface; Maximum likelihood; Phylogenetic analyses; Python; RAxML
Since its introduction in 2001, MrBayes has grown in popularity as a software package for Bayesian phylogenetic inference using Markov chain Monte Carlo (MCMC) methods. With this note, we announce the release of version 3.2, a major upgrade to the latest official release presented in 2003. The new version provides convergence diagnostics and allows multiple analyses to be run in parallel with convergence progress monitored on the fly. The introduction of new proposals and automatic optimization of tuning parameters has improved convergence for many problems. The new version also sports significantly faster likelihood calculations through streaming single-instruction-multiple-data extensions (SSE) and support of the BEAGLE library, allowing likelihood calculations to be delegated to graphics processing units (GPUs) on compatible hardware. Speedup factors range from around 2 with SSE code to more than 50 with BEAGLE for codon problems. Checkpointing across all models allows long runs to be completed even when an analysis is prematurely terminated. New models include relaxed clocks, dating, model averaging across time-reversible substitution models, and support for hard, negative, and partial (backbone) tree constraints. Inference of species trees from gene trees is supported by full incorporation of the Bayesian estimation of species trees (BEST) algorithms. Marginal model likelihoods for Bayes factor tests can be estimated accurately across the entire model space using the stepping stone method. The new version provides more output options than previously, including samples of ancestral states, site rates, site d(N)/d(S) rations, branch rates, and node dates. A wide range of statistics on tree parameters can also be output for visualization in FigTree and compatible software.
Sequence data from the 18S nrDNA (SSU) and 28S nrDNA (LSU) regions of isolates of Phoma section Paraphoma were compared with those of representative isolates of the morphologically similar anamorph genera Pleurophoma and Pyrenochaeta and of the type species of Phoma sections Phoma, Pilosa and Plenodomus. Phoma section Paraphoma was found to be highly polyphyletic within the Pleosporales and only distantly related to Phoma section Phoma. The genus Paraphoma, which is based on Paraphoma radicina, is reintroduced in the Phaeosphaeriaceae with two additional taxa. The new genera Setophoma and Neosetophoma, type species Setophoma terrestris comb. nov. and Neosetophoma samarorum comb. nov., are introduced and represent species that are closely related to Paraphoma but differ based on morphological characters and molecular phylogeny. Phoma coonsii is transferred to genus Chaetosphaeronema that also belongs to the Phaeosphaeriaceae. Pyrenochaetopsis gen. nov. is introduced to accommodate the type species Pyrenochaetopsis leptospora comb. nov., as well as several other species formerly accommodated in Phoma and Pyrenochaeta. Pyrenochaetopsis is closely related to Pyrenochaeta and classified in the Cucurbitariaceae. Pleurophoma cava is transferred to genus Pyrenochaeta. The new genera elucidate the confusing taxonomy of species in genera Phoma, Pyrenochaeta and Pleurophoma and recognize monophyletic genera with distinct teleomorph affinities.
The recent development of Bayesian phylogenetic inference using Markov chain Monte Carlo (MCMC) techniques has facilitated the exploration of parameter-rich evolutionary models. At the same time, stochastic models have become more realistic (and complex) and have been extended to new types of data, such as morphology. Based on this foundation, we developed a Bayesian MCMC approach to the analysis of combined data sets and explored its utility in inferring relationships among gall wasps based on data from morphology and four genes (nuclear and mitochondrial, ribosomal and protein coding). Examined models range in complexity from those recognizing only a morphological and a molecular partition to those having complex substitution models with independent parameters for each gene. Bayesian MCMC analysis deals efficiently with complex models: convergence occurs faster and more predictably for complex models, mixing is adequate for all parameters even under very complex models, and the parameter update cycle is virtually unaffected by model partitioning across sites. Morphology contributed only 5% of the characters in the data set but nevertheless influenced the combined-data tree, supporting the utility of morphological data in multigene analyses. We used Bayesian criteria (Bayes factors) to show that process heterogeneity across data partitions is a significant model component, although not as important as among-site rate variation. More complex evolutionary models are associated with more topological uncertainty and less conflict between morphology and molecules. Bayes factors sometimes favor simpler models over considerably more parameter-rich models, but the best model overall is also the most complex and Bayes factors do not support exclusion of apparently weak parameters from this model. Thus, Bayes factors appear to be useful for selecting among complex models, but it is still unclear whether their use strikes a reasonable balance between model complexity and error in parameter estimates.
A classification of the Loculoascomycetes is presented in the form of dichotomous keys to 58 families in eight orders. The families Chaeto-thyriaceae, Fenestellaceae, Parmulariaceae, Phaeosphaeriaceae, Pied-raiaceae, Pleomassariaceae, Pyrenophoraceae, Tubeufiaceae, and Venturiaceae are newly described or are validated. For each family, the type genus is designated and representative genera are indicated.
This study was conducted to investigate the Alternaria species associated with leaf spot of date palm and wheat in Oman. Out of 98 date palm leaf samples and 146 wheat leaf samples, Alternaria was isolated from 27 and 23% of the samples developing leaf spot symptoms, respectively. Identification of Alternaria isolates using sequences of the internal transcribed spacer region of the ribosomal RNA (ITS rRNA), glyceraldehyde-3-phosphate dehydrogenase (GPDH), translation elongation factor (TEF) and RNA polymerase II subunit (RPB2) genes, showed that the isolates belong to seven Alternaria species or species complexes. A. burnsii - A. tomato and A. arborescens species complexes (58 and 4%, respectively) and A. alternata (38%) were the species recovered from the symptomatic date palm leaves. A. alternata (67%), A. burnsii - A. tomato species complex (15%), A. jacinthicola (3%), A. ventricosa (3%), A. slovaca (6%) and Alternaria caespitosa (6%) were isolated from wheat. Pathogenicity test showed that tested isolates of A. alternata (DPM19, WDK12), A. burnsii - A. tomato species complex (DPM31), A. jacinthicola (WBR4) and A. slovaca (WDK9, WDK7) were pathogenic on date palm, while A. alternata (DPM19, WDK12), A. burnsii - A. tomato species complex (DPM31, WDK11) and A. slovaca (WDK9, WDK7) were pathogenic on wheat. This is the first report of date palm and wheat as new hosts for A. burnsii - A. tomato species complex and the first reports of A. burnsii - A. tomato species complex, A. caespitosa A. slovaca, and A. ventricosa in Oman. The study shows that several species of Alternaria are associated with leaf spot in date palm and wheat in Oman, with some isolates having the ability to cause infection in both hosts.
Acrocordiella omanensis sp. nov. is described and illustrated from specimens on dead stem of Juniper sp. collected in Al Jabal al-Akhdar (Green Mountain), Sultanate of Oman. It strongly resembles Acrocordiella occulta, the type of the genus, in its similar asci and ascospore anatomy. It differs from A. occulta in having bell-shaped to cap-like clypeus around the ostiole and larger asci and ascospores. The combined large subunit nuclear ribosomal DNA and internal transcribed spacer sequences support the conclusions based on the morphological data.
Phaeosphaeriaceae is a family in the order Pleosporales containing numerous plant pathogens, endophytes, lichenised fungi, and environmental saprobes. A novel genus, Tintelnotia is introduced containing two species, one of which caused an eye infection and several nail infections in humans. All species of Tintelnotia produce conidia in soft pycnidia with a wide ostiole. The generic type species is T. opuntiae causing necrotic spots on cactus plants. The isolates of the human opportunist T. destructans showed variable susceptibility pattern to a panel of common antifungal agents. The MICs of amphotericin B, voriconazole, posaconazole and itraconazole were 1 μg/mL, complemented by an in vitro MEC of 16 μg/mL against caspofungin; the MIC of terbinafine was 0.125 μg/mL. The latter compound contributed to the successful therapy in the ocular mycosis refractory to standard antifungal therapy, the benefit of terbinafine should be highlighted as a therapeutic option especially in difficult-to-treat fungal keratitis.
This is a continuity of a series of taxonomic papers where materials are examined, described and novel combinations are proposed where necessary to improve our traditional species concepts and provide updates on their classification. In addition to extensive morphological descriptions and appropriate asexual and sexual connections, DNA sequence data are also analysed from concatenated datasets (rDNA, TEF-α, RBP2 and β-Tubulin) to infer phylogenetic relationships and substantiate systematic position of taxa within appropriate ranks. Wherever new species or combinations are being proposed, we apply an integrative approach (morphological and molecular data as well as ecological features wherever applicable). Notes on 125 fungal taxa are compiled in this paper, including eight new genera, 101 new species, two new combinations, one neotype, four reference specimens, new host or distribution records for eight species and one alternative morphs. The new genera introduced in this paper are Alloarthopyrenia, Arundellina, Camarosporioides, Neomassaria, Neomassarina, Neotruncatella, Paracapsulospora and Pseudophaeosphaeria. The new species are Alfaria spartii, Alloarthopyrenia italica, Anthostomella ravenna, An. thailandica, Arthrinium paraphaeospermum, Arundellina typhae, Aspergillus koreanus, Asterina cynometrae, Bertiella ellipsoidea, Blastophorum aquaticum, Cainia globosa, Camarosporioides phragmitis, Ceramothyrium menglunense, Chaetosphaeronema achilleae, Chlamydotubeufia helicospora, Ciliochorella phanericola, Clavulinopsis aurantiaca, Colletotrichum insertae, Comoclathris italica, Coronophora myricoides, Cortinarius fulvescentoideus, Co. nymphatus, Co. pseudobulliardioides, Co. tenuifulvescens, Cunninghamella gigacellularis, Cyathus pyristriatus, Cytospora cotini, Dematiopleospora alliariae, De. cirsii, Diaporthe aseana, Di. garethjonesii, Distoseptispora multiseptata, Dis. tectonae, Dis. tectonigena, Dothiora buxi, Emericellopsis persica, Gloniopsis calami, Helicoma guttulatum, Helvella floriforma, H. oblongispora, Hermatomyces subiculosa, Juncaceicola italica, Lactarius dirkii, Lentithecium unicellulare, Le. voraginesporum, Leptosphaeria cirsii, Leptosphaeria irregularis, Leptospora galii, Le. thailandica, Lindgomyces pseudomadisonensis, Lophiotrema bambusae, Lo. fallopiae, Meliola citri-maximae, Minimelanolocus submersus, Montagnula cirsii, Mortierella fluviae, Muriphaeosphaeria ambrosiae, Neodidymelliopsis ranunculi, Neomassaria fabacearum, Neomassarina thailandica, Neomicrosphaeropsis cytisi, Neo. cytisinus, Neo. minima, Neopestalotiopsis cocoës, Neopestalotiopsis musae, Neoroussoella lenispora, Neotorula submersa, Neotruncatella endophytica, Nodulosphaeria italica, Occultibambusa aquatica, Oc. chiangraiensis, Ophiocordyceps hemisphaerica, Op. lacrimoidis, Paracapsulospora metroxyli, Pestalotiopsis sequoiae, Peziza fruticosa, Pleurotrema thailandica, Poaceicola arundinis, Polyporus mangshanensis, Pseudocoleophoma typhicola, Pseudodictyosporium thailandica, Pseudophaeosphaeria rubi, Purpureocillium sodanum, Ramariopsis atlantica, Rhodocybe griseoaurantia, Rh. indica, Rh. luteobrunnea, Russula indoalba, Ru. pseudoamoenicolor, Sporidesmium aquaticivaginatum, Sp. olivaceoconidium, Sp. pyriformatum, Stagonospora forlicesenensis, Stagonosporopsis centaureae, Terriera thailandica, Tremateia arundicola, Tr. guiyangensis, Trichomerium bambusae, Tubeufia hyalospora, Tu. roseohelicospora and Wojnowicia italica. New combinations are given for Hermatomyces mirum and Pallidocercospora thailandica. A neotype is proposed for Cortinarius fulvescens. Reference specimens are given for Aquaphila albicans, Leptospora rubella, Platychora ulmi and Meliola pseudosasae, while new host or distribution records are provided for Diaporthe eres, Di. siamensis, Di. foeniculina, Dothiorella iranica, Do. sarmentorum, Do. vidmadera, Helvella tinta and Vaginatispora fuckelii, with full taxonomic details. An asexual state is also reported for the first time in Neoacanthostigma septoconstrictum. This paper contributes to a more comprehensive update and improved identification of many ascomycetes and basiodiomycetes.
Mycologists and plant pathologists have long been documenting fungi in checklists or adding them to databases that list hosts and associated fungi. Most references to the fungi of Oman are scattered in journals, reports and university theses. A review of the fungal status of Oman is long overdue as soil-borne and plant pathogens have been studied to some extent. Although Waller & Bridge (1978) listed the fungal diseases on economically important crops in Oman, the present study is the first attempt to put together all hitherto recorded fungi from this part of the world. This paper presents a systematic checklist of 318 fungal species, in 173 genera, currently known to occur in Oman. A working checklist of accepted taxa in Oman is vital in progress of the systematics, agriculture, quarantine and many other applied scientific fields in the country.
A coelomycetous fungus was isolated from conifer litter collected in western New Mexico and is described herein as a new species Wojnowicia colluvium. When grown in both nutrient media and on alfalfa twigs in water agar, the characteristics of the conidiomata, conidiogenous cells and conidia remain relatively constant. A synopsis is provided of the three species accepted in Wojnowicia. Based on their descriptions, W. buxi is considered a synonym of W. ephedrae, and W. byrophila does not belong in Wojnowicia.
ematiopleospora mariae, isolated from Ononis spinosa collected in Forlí-Cesena Province in Italy, is introduced as a new ascomycete genus and species based on morphology and combined LSU and SSU sequence analyses. Phylogenetic analysis based on maximum parsimony (MP), maximum likelihood (ML) and Mr Bayes all support Dematiopleospora as being a distinct genus within the Phaeosphaeriaceae. Dematiopleospora is distinguished from other genera in this family in having ascospores whose central cells have longitudinal septa with light end cells, ascomata with a thick peridium and necks comprising short, light brown setae. Phylogenetic analysis also separates Dematiopleospora from other genera in the Phaeosphaeriaceae. Dematiopleospora forms a sister group with Entodesmium and Chaetosphaeronema, but these three genera are clearly separated in the molecular analysis with relatively high bootstrap support (89% and 99% respectively). The new genus is compared with similar genera of Phaeosphaeriaceae and a comprehensive description, and micrographs are provided.
This paper presents a comprehensive review of the foliar diseases caused by Stagonospora and Septoria fungi on barley, oat, and rye. The relationship of the pathogens to related species that cause disease on wheat is discussed. The diseases are more serious during periods of cool wet weather and are more prevalent in northern Europe and North America. They are frequently associated with the planting of highly susceptible cultivars. The biotype of Stagonospora nodorum that infects barley differs significantly from the biotype that attacks wheat and is occasionally important in the southeastern U.S.A. and northern Europe. Stagonospora avenae f. sp. triticea infects barley, rye, and wheat. It is usually a minor pathogen of barley and rye, but these hosts may serve as an inoculum reservoir for infection of wheat. Stagonospora avenae f. sp. avenaria causes stagonospora leaf blotch and black stem on oat. The black stem phase of the disease causes significant yield reduction and is frequently important in eastern Canada. Morphological characteristics and host range are similar among the Stagonospora species. Teleomorphs of these fungi are in Phaeosphaeria, and the epidemiological importance of this state varies with each pathogen. Septoria passerinii causes speckled leaf blotch on barley. It has become increasingly important in recent years in north central North America and may be associated with reduced tillage. Septoria tritici f. avenae occurs infrequently on oat, and Septoria seculis causes a minor disease on rye. Teleomophic states of these Septoria species have not been identified. Resistance to Stagonospora nodorum has been identified in barley and to Stagonospora avenae f. sp. avenaria and Septoria passerinii in the cultivated hosts and wild relatives.. Race-specific resistance has not been identified and resistance is primarily partial resistance. Recent use of molecular genetics is providing a clearer understanding of the relationships among these and related pathogens on wheat and grasses.
Six genera of the order Pleosporales are revised taxonomically. Although five genera have unusual applanate ascospores, they are members of three different families. Clathrospora (10 species, 2 new), Comoclathris (21 species, 7 new), and Macrospora (3 species) are placed in a new family Diademaceae in which the ascoma opening is a characteristic flat circular lid. Diademosa, a new genus with one species with terete ascospores is placed in Diademaceae. Graphyllium (3 species) is placed in the family Hysteriaceae characterized by hysterothecia with a slit-like opening. Platysporoides n.gen. (11 species, 1 new) is maintained in the Pleosporaceae because of the terete pored beak of the ascomata. Key words: Pleosporales, applanate ascospores, Clathrospora, Comoclathris, Macrospora, Diademosa, Graphyllium, Platysporoides.
Twenty-eight species are illustrated and described from Canada or extralimital regions and keys to species are provided. One new species, N. revelstokensis, is described on Castilleja miniata Dougl. Twelve species are excluded.
Detailed restriction analyses of many samples often require substantial amounts of time and effort for DNA extraction, restriction digests, Southern blotting, and hybridization. We describe a novel approach that uses the polymerase chain reaction (PCR) for rapid simplified restriction typing and mapping of DNA from many different isolates. DNA fragments up to 2 kilobase pairs in length were efficiently amplified from crude DNA samples of several pathogenic Cryptococcus species, including C. neoformans, C. albidus, C. laurentii, and C. uniguttulatus. Digestion and electrophoresis of the PCR products by using frequent-cutting restriction enzymes produced complex restriction phenotypes (fingerprints) that were often unique for each strain or species. We used the PCR to amplify and analyze restriction pattern variation within three major portions of the ribosomal DNA (rDNA) repeats from these fungi. Detailed mapping of many restriction sites within the rDNA locus was determined by fingerprint analysis of progressively larger PCR fragments sharing a common primer site at one end. As judged by PCR fingerprints, the rDNA of 19 C. neoformans isolates showed no variation for four restriction enzymes that we surveyed. Other Cryptococcus spp. showed varying levels of restriction pattern variation within their rDNAs and were shown to be genetically distinct from C. neoformans. The PCR primers used in this study have also been successfully applied for amplification of rDNAs from other pathogenic and nonpathogenic fungi, including Candida spp., and ought to have wide applicability for clinical detection and other studies.
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