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Phylogeny of Crepidotus applanatus Look-Alikes Reveals a Convergent Morphology Evolution and a New Species C. pini. J Fungi (Basel) 2022; 8:jof8050489. [PMID: 35628745 PMCID: PMC9144983 DOI: 10.3390/jof8050489] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/31/2022] [Revised: 05/04/2022] [Accepted: 05/04/2022] [Indexed: 12/10/2022] Open
Abstract
Crepidotus applanatus is known as a common wood inhabiting fungus widely distributed throughout the Northern Hemisphere. There have been contrasting opinions about the delimitation and taxonomic treatment of the similar species C. malachius. Our phylogeny did not support the close relationship of these two morphologically similar species and the grouping of collections labelled by both names within each phylogenetic species reflects unreliable species delimitations in the traditional literatures. Both species inhabit the wood of deciduous trees, and our morphological analysis identified the size of basidiospores as a significant difference between them. The collections from Pinus sylvestris are recognised as a new species, C. pini sp. nov., and its morphological identification requires a combination of both basidiospore and cheilocystidia characters.
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Abstract
Multigene data sets were assembled to evaluate the phylogeny of species attributed to the genus Pholiota sensu A.H. Sm. & Hesler. This effort included generation of just more than 200 new sequences from 19 type collections of Pholiota and recent samples from East Asia. Phylogenetic analyses reinforced the autonomous phylogenetic positions of pholiotoid taxa in the genera Flammula (Hymenogastraceae) and Kuehneromyces (Strophariaceae). Samples of Pholiota astragalina from diverse geographic regions split into two species-level lineages but occupied an isolated phylogenetic position apart from Pholiota sensu stricto. The new genus Pyrrhulomyces is described to accommodate P. astragalina and a new cryptic species from the Southern Appalachians, Pyrrhulomyces amariceps. Pyrrhulomyces is distinguished from other genera of Strophariaceae by the blackening basidiomata with a bitter taste, smooth basidiospores without a germ pore under light microscopy, presence of pleurochrysocystidia, an ixocutis, rugulose spore ornamentation under scanning electron microscope (SEM), and association with late stages of conifer wood decay. Pholiota subochracea was found to be sister to a clade containing samples of Hypholoma and Bogbodia, but this portion of the Strophariaceae will require further taxon and gene sampling to resolve relationships between these three taxa. Pholiota sensu stricto comprised at least two major groups, but several residual poorly placed lineages were also noted depending on the data set analyzed. New combinations are made in the genera Flammula, Kuehneromyces, and Stropharia for three species of Pholiota-P. abieticola, P. obscura, and P. scabella, respectively, based on molecular annotation of type collections. Overall, 20 new synonymies are proposed, mostly in Pholiota. Illustrations of Pyrrhulomyces are provided along with a key to genera of Strophariaceae and Hymenogastraceae.
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Affiliation(s)
- En-Jing Tian
- Engineering Research Center of Chinese Ministry of Education for Edible and Medicinal Fungi, Jilin Agricultural University , Changchun 130118, China
| | - P Brandon Matheny
- Department of Ecology and Evolutionary Biology, University of Tennessee , Knoxville, Tennessee 37996
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Lee JW, Park MS, Park JH, Cho Y, Kim C, Kim CS, Jo JW, Lim YW. Taxonomic Study of the Genus Pholiota (Strophariaceae, Basidiomycota) in Korea. MYCOBIOLOGY 2020; 48:476-483. [PMID: 33312014 PMCID: PMC7717605 DOI: 10.1080/12298093.2020.1831427] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 06/19/2020] [Revised: 09/28/2020] [Accepted: 09/29/2020] [Indexed: 06/12/2023]
Abstract
The genus Pholiota (Strophariaceae, Basidiomycota) is made up of wood-rotting saprotrophic mushrooms characterized by a yellow or brown pileus with scales and/or slimy, and by a brownish smooth spore with a germ pore. However, these features are not enough to distinguish its species, or separate the genus Pholiota from other brown-spored wood-rotting genera such as Hypholoma and Stropharia. Although internal transcribed spacer (ITS) sequence-based identification has improved identification accuracy for species of Pholiota, most Pholiota species in Korea are reported based on morphological features. To evaluate the taxonomy of Pholiota species, we investigated 62 specimens collected from 1999 to 2019 in Korea using ITS sequence analysis and morphological observation. Twelve of the 16 recorded Pholiota species in Korea were identified. While eight species were clearly separated, the ITS analysis did not distinguish three in the Pholiota adiposa complex. Therefore, further investigation is required to distinguish these three species. ITS sequences deposited in GenBank confirm that P. highlandensis exists in Korea. The presence of the other four Pholiota species could not be confirmed through specimens or sequence information in GenBank. A taxonomic key and the ITS sequence data for Korean Pholiota species are included and can be good baselines for further research on Pholiota taxonomy and diversity.
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Affiliation(s)
- Jun Won Lee
- School of Biological Sciences and Institute of Microbiology, Seoul National University, Seoul, Republic of Korea
| | - Myung Soo Park
- School of Biological Sciences and Institute of Microbiology, Seoul National University, Seoul, Republic of Korea
| | - Ji-Hyun Park
- School of Biological Sciences and Institute of Microbiology, Seoul National University, Seoul, Republic of Korea
| | - Yoonhee Cho
- School of Biological Sciences and Institute of Microbiology, Seoul National University, Seoul, Republic of Korea
| | - Changmu Kim
- Microorganism Resources Division, National Institute of Biological Resources, Incheon, Republic of Korea
| | - Chang Sun Kim
- Taxonomy Research Lab, Forest Biodiversity Division, Korea National Arboretum, Gyeonggi-do, Korea
| | - Jong Won Jo
- Taxonomy Research Lab, Forest Biodiversity Division, Korea National Arboretum, Gyeonggi-do, Korea
| | - Young Woon Lim
- School of Biological Sciences and Institute of Microbiology, Seoul National University, Seoul, Republic of Korea
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He MQ, Zhao RL, Hyde KD, Begerow D, Kemler M, Yurkov A, McKenzie EHC, Raspé O, Kakishima M, Sánchez-Ramírez S, Vellinga EC, Halling R, Papp V, Zmitrovich IV, Buyck B, Ertz D, Wijayawardene NN, Cui BK, Schoutteten N, Liu XZ, Li TH, Yao YJ, Zhu XY, Liu AQ, Li GJ, Zhang MZ, Ling ZL, Cao B, Antonín V, Boekhout T, da Silva BDB, De Crop E, Decock C, Dima B, Dutta AK, Fell JW, Geml J, Ghobad-Nejhad M, Giachini AJ, Gibertoni TB, Gorjón SP, Haelewaters D, He SH, Hodkinson BP, Horak E, Hoshino T, Justo A, Lim YW, Menolli N, Mešić A, Moncalvo JM, Mueller GM, Nagy LG, Nilsson RH, Noordeloos M, Nuytinck J, Orihara T, Ratchadawan C, Rajchenberg M, Silva-Filho AGS, Sulzbacher MA, Tkalčec Z, Valenzuela R, Verbeken A, Vizzini A, Wartchow F, Wei TZ, Weiß M, Zhao CL, Kirk PM. Notes, outline and divergence times of Basidiomycota. FUNGAL DIVERS 2019. [DOI: 10.1007/s13225-019-00435-4] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/20/2022]
Abstract
AbstractThe Basidiomycota constitutes a major phylum of the kingdom Fungi and is second in species numbers to the Ascomycota. The present work provides an overview of all validly published, currently used basidiomycete genera to date in a single document. An outline of all genera of Basidiomycota is provided, which includes 1928 currently used genera names, with 1263 synonyms, which are distributed in 241 families, 68 orders, 18 classes and four subphyla. We provide brief notes for each accepted genus including information on classification, number of accepted species, type species, life mode, habitat, distribution, and sequence information. Furthermore, three phylogenetic analyses with combined LSU, SSU, 5.8s, rpb1, rpb2, and ef1 datasets for the subphyla Agaricomycotina, Pucciniomycotina and Ustilaginomycotina are conducted, respectively. Divergence time estimates are provided to the family level with 632 species from 62 orders, 168 families and 605 genera. Our study indicates that the divergence times of the subphyla in Basidiomycota are 406–430 Mya, classes are 211–383 Mya, and orders are 99–323 Mya, which are largely consistent with previous studies. In this study, all phylogenetically supported families were dated, with the families of Agaricomycotina diverging from 27–178 Mya, Pucciniomycotina from 85–222 Mya, and Ustilaginomycotina from 79–177 Mya. Divergence times as additional criterion in ranking provide additional evidence to resolve taxonomic problems in the Basidiomycota taxonomic system, and also provide a better understanding of their phylogeny and evolution.
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Guzmán-Dávalos L, Pradeep CK, Vrinda KB, Manoj Kumar A, Ramírez-Cruz V, Herrera M, Villalobos-Arámbula AR, Soytong K, Baroni TJ, Aime MC. A new stipitate species of Crepidotus from India and Thailand, with notes on other tropical species. Mycologia 2018; 109:804-814. [PMID: 29345534 DOI: 10.1080/00275514.2017.1401834] [Citation(s) in RCA: 4] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Abstract
A new Asian species of Crepidotus (Basidiomycota, Agaricales), C. asiaticus, is presented based on morphological and nuc rDNA internal transcribed spacer (ITS1-5.8S-ITS2 = ITS) and large subunit (28S) sequence data. This new species, found in India and Thailand, is characterized by the centrally stipitate medium-sized basidiomata, orange to reddish brown pileus, white to brownish orange lamellae, and white stipe. Based on morphology, C. asiaticus is similar to the neotropical C. thermophilus. However, the microscopic characters, especially the size and shape of the basidiospores, can be used to distinguish these two taxa, as well as their geographic distributions. Further, the phylogenetic position of C. asiaticus is unique based on ITS and 28S nuc rDNA sequences. Melanomphalia argipoda, described by Singer from Ecuador, is also a stipitate Crepidotus based on an ITS sequence of the type specimen, so the new combination is proposed here. Phylogenetically, the three species form a monophyletic group with the Asiatic C. asiaticus forming the sister lineage to the neotropical C. argipodus and C. thermophilus.
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Affiliation(s)
- Laura Guzmán-Dávalos
- a Departamento de Botánica y Zoología , Universidad de Guadalajara , Apdo. Postal 1-139, Zapopan, Jal., 45101 , Mexico
| | - C K Pradeep
- b Jawaharlal Nehru Tropical Botanic Garden & Research Institute , Palode, Thiruvananthapuram , 695 562 , Kerala , India
| | - K B Vrinda
- b Jawaharlal Nehru Tropical Botanic Garden & Research Institute , Palode, Thiruvananthapuram , 695 562 , Kerala , India
| | - A Manoj Kumar
- b Jawaharlal Nehru Tropical Botanic Garden & Research Institute , Palode, Thiruvananthapuram , 695 562 , Kerala , India
| | - Virginia Ramírez-Cruz
- c Instituto de Estudios Ambientales, Universidad de la Sierra Juárez , Ixtlán de Juárez , Oaxaca , Mexico
| | - María Herrera
- a Departamento de Botánica y Zoología , Universidad de Guadalajara , Apdo. Postal 1-139, Zapopan, Jal., 45101 , Mexico
| | | | - Kasem Soytong
- e Faculty of Agricultural Technology , King Mongkut's Institute of Technology , Ladkrabang , Bangkok , Thailand
| | - Timothy J Baroni
- f Department of Biological Sciences , State University of New York-College at Cortland , Cortland , New York 13045
| | - M Catherine Aime
- g Department of Botany and Plant Pathology , Purdue University , West Lafayette , Indiana 47907
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Vizzini A, Angelini C, Ercole E. A new Neopaxillus species (Agaricomycetes) from the Dominican Republic and the status of Neopaxillus within the Agaricales. Mycologia 2017; 104:138-47. [DOI: 10.3852/10-345] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Alfredo Vizzini
- Dipartimento di Biologia Vegetale, Università di Torino, Viale Mattioli 25, 10125 Torino, Italy
| | | | - Enrico Ercole
- Dipartimento di Biologia Vegetale, Università di Torino, Viale Mattioli 25, 10125 Torino, Italy
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Matheny PB, Moreau PA, Vizzini A, Harrower E, De Haan A, Contu M, Curti M. CrassisporiumandRomagnesiella: two new genera of dark-spored Agaricales. SYST BIODIVERS 2014. [DOI: 10.1080/14772000.2014.967823] [Citation(s) in RCA: 16] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/24/2022]
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Enghoff H, Petersen G, Seberg O. The aberrant millipede genus Pteridoiulus and its position in a revised molecular phylogeny of the family Julidae (Diplopoda : Julida). INVERTEBR SYST 2013. [DOI: 10.1071/is13016] [Citation(s) in RCA: 8] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/23/2022]
Abstract
A phylogenetic analysis of 62 species (32 genera) of the Palaearctic millipede family Julidae, including the aberrant alpine genus Pteridoiulus Verhoeff, 1913, was made based on partial sequences of the mitochondrial 16S rRNA (16S) gene and the nuclear 28S rRNA (28S) gene, respectively. The two datasets (16S rDNA and 28S rDNA) were analysed in combination but treated as different partitions using direct optimisation as implemented in POY. The 16S rDNA and the 28S rDNA sequences vary from 410 to 449 bp and from 467 to 525 bp in length, respectively. All searches were performed under six different gap opening costs, an extension gap cost of 1, and a substitution cost of 2. Based on previous investigations the optimal gap opening cost was set to 4, and the robustness of different gap opening costs ranging from 1 to 6 investigated. Additionally, the two data partitions were aligned individually using MAFTT and run in TNT both with gaps treated as a fifth state, and as missing, and finally the alignments were used as input in a maximum likelihood (ML) analysis. The order Julida and the family Julidae were recovered as monophyletic under all weight sets in POY, as well as in the TNT and ML analyses. Likewise, in all analyses Pteridoiulus was found to be sister to another monotypic alpine genus, Heteroiulus Verhoeff, 1897. The Pteridoiulus + Heteroiulus clade is robust to parameter changes but lacks morphological support. The distribution pattern of the clade, Pteridoiulus in the eastern Alps (mainly Austria), Heteroiulus in the southern Alps (Italy) seems unique, since similar patterns all involve very similar, closely related species pairs.
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Sharma PP, Vahtera V, Kawauchi GY, Giribet G. Running WILD: the case for exploring mixed parameter sets in sensitivity analysis. Cladistics 2010; 27:538-549. [DOI: 10.1111/j.1096-0031.2010.00345.x] [Citation(s) in RCA: 21] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022] Open
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Simocybe montana (Crepidotaceae, Agaricales), a new species from the alpine belt in the Swiss Alps and the Romanian Carpathians. Mycol Prog 2010. [DOI: 10.1007/s11557-010-0714-1] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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