1
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Cyphellostereum ushimanum sp. nov. (Hygrophoraceae, Agaricales) described from Amami-Oshima Island (Kagoshima Prefecture, Ryukyu Islands), Japan, with ultrastructural observations of its Rhizonema photobiont filaments penetrated longitudinally by a central haustorium. Mycol Prog 2022. [DOI: 10.1007/s11557-021-01766-w] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
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2
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Nelsen MP. Sharing and double-dating in the lichen world. Mol Ecol 2021; 30:1751-1754. [PMID: 33720470 DOI: 10.1111/mec.15884] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Abstract] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/09/2021] [Accepted: 03/03/2021] [Indexed: 11/28/2022]
Abstract
Historic and modern efforts to understand lichen diversity and evolution have overwhelmingly concentrated on that of the fungal partner, which represents one of the most taxonomically diverse nutritional modes among the Fungi. But what about the algal and cyanobacterial symbionts? An explosion of studies on these cryptic symbionts over the past 20+ years has facilitated a richer understanding of their diversity, patterns of association, and the symbiosis itself. In a From the Cover article in this issue of Molecular Ecology, Dal Forno et al. (2021) provide new insight into one of the most fascinating lichen symbioses. By sequencing cyanobacterial symbionts from over 650 specimens, they reveal the presence of overlooked cyanobacterial diversity, evidence for symbiont sharing among distantly related fungi, and utilize a comparative dating framework to demonstrate temporal discordance among interacting fungal and cyanobacterial lineages.
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Affiliation(s)
- Matthew P Nelsen
- Negaunee Integrative Research Center and Grainger Bioinformatics Center, The Field Museum, Chicago, IL, USA
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3
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Thiyagaraja V, Lücking R, Ertz D, Karunarathna SC, Wanasinghe DN, Lumyong S, Hyde KD. The Evolution of Life Modes in Stictidaceae, with Three Novel Taxa. J Fungi (Basel) 2021; 7:105. [PMID: 33540644 PMCID: PMC7913076 DOI: 10.3390/jof7020105] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/27/2020] [Revised: 01/26/2021] [Accepted: 01/28/2021] [Indexed: 02/08/2023] Open
Abstract
Ostropales sensu lato is a large group comprising both lichenized and non-lichenized fungi, with several lineages expressing optional lichenization where individuals of the same fungal species exhibit either saprotrophic or lichenized lifestyles depending on the substrate (bark or wood). Greatly variable phenotypic characteristics and large-scale phylogenies have led to frequent changes in the taxonomic circumscription of this order. Ostropales sensu lato is currently split into Graphidales, Gyalectales, Odontotrematales, Ostropales sensu stricto, and Thelenellales. Ostropales sensu stricto is now confined to the family Stictidaceae, which includes a large number of species that are poorly known, since they usually have small fruiting bodies that are rarely collected, and thus, their taxonomy remains partly unresolved. Here, we introduce a new genus Ostropomyces to accommodate a novel lineage related to Ostropa, which is composed of two new species, as well as a new species of Sphaeropezia, S. shangrilaensis. Maximum likelihood and Bayesian inference analyses of mitochondrial small subunit spacers (mtSSU), large subunit nuclear rDNA (LSU), and internal transcribed spacers (ITS) sequence data, together with phenotypic data documented by detailed morphological and anatomical analyses, support the taxonomic affinity of the new taxa in Stictidaceae. Ancestral character state analysis did not resolve the ancestral nutritional status of Stictidaceae with confidence using Bayes traits, but a saprotrophic ancestor was indicated as most likely in a Bayesian binary Markov Chain Monte Carlo sampling (MCMC) approach. Frequent switching in nutritional modes between lineages suggests that lifestyle transition played an important role in the evolution of this family.
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Affiliation(s)
- Vinodhini Thiyagaraja
- Department of Entomology and Plant Pathology, Faculty of Agriculture, Chiang Mai University, Chiang Mai 50200, Thailand;
- Centre of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai 57100, Thailand
- CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia (KLPB), Kunming Institute of Botany, Chinese Academy of Science, Kunming 650201, China; (S.C.K.); (D.N.W.)
| | - Robert Lücking
- Botanischer Garten und Botanisches Museum, Freie Universität Berlin, Königin-Luise-Str. 6-8, 14195 Berlin, Germany;
| | - Damien Ertz
- Research Department, Meise Botanic Garden, Nieuwelaan 38, BE-1860 Meise, Belgium;
- Fédération Wallonie-Bruxelles, Service Général de l’Enseignement Supérieur et de la Recherche Scientifique, Rue A. Lavallée 1, BE-1080 Bruxelles, Belgium
| | - Samantha C. Karunarathna
- CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia (KLPB), Kunming Institute of Botany, Chinese Academy of Science, Kunming 650201, China; (S.C.K.); (D.N.W.)
- World Agro forestry Centre East and Central Asia, Kunming 650201, China
| | - Dhanushka N. Wanasinghe
- CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia (KLPB), Kunming Institute of Botany, Chinese Academy of Science, Kunming 650201, China; (S.C.K.); (D.N.W.)
- World Agro forestry Centre East and Central Asia, Kunming 650201, China
| | - Saisamorn Lumyong
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand;
- Center of Excellence in Bioresources for Agriculture, Industry and Medicine, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand
| | - Kevin D. Hyde
- Centre of Excellence in Fungal Research, Mae Fah Luang University, Chiang Rai 57100, Thailand
- CAS Key Laboratory for Plant Biodiversity and Biogeography of East Asia (KLPB), Kunming Institute of Botany, Chinese Academy of Science, Kunming 650201, China; (S.C.K.); (D.N.W.)
- Department of Biology, Faculty of Science, Chiang Mai University, Chiang Mai 50200, Thailand;
- Innovative Institute of Plant Health, Zhongkai University of Agriculture and Engineering, Haizhu District, Guangzhou 510225, China
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4
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Dal Forno M, Lawrey JD, Sikaroodi M, Gillevet PM, Schuettpelz E, Lücking R. Extensive photobiont sharing in a rapidly radiating cyanolichen clade. Mol Ecol 2020; 30:1755-1776. [PMID: 33080083 DOI: 10.1111/mec.15700] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/22/2020] [Revised: 09/24/2020] [Accepted: 10/13/2020] [Indexed: 01/21/2023]
Abstract
Recent studies have uncovered remarkable diversity in Dictyonema s.lat. basidiolichens, here recognized as subtribe Dictyonemateae. This group includes five genera and 148 species, but hundreds more await description. The photobionts of these lichens belong to Rhizonema, a recently resurrected cyanobacterial genus known by a single species. To further investigate photobiont diversity within Dictyonemateae, we generated 765 new cyanobacterial sequences from 635 specimens collected from 18 countries. The ITS barcoding locus supported the recognition of 200 mycobiont (fungal) species among these samples, but the photobiont diversity was comparatively low. Our analyses revealed three main divisions of Rhizonema, with two repeatedly recovered as monophyletic (proposed as new species), and the third mostly paraphyletic. The paraphyletic lineage corresponds to R. interruptum and partnered with mycobionts from all five genera in Dictyonemateae. There was no evidence of photobiont-mycobiont co-speciation, but one of the monophyletic lineages of Rhizonema appears to partner predominantly with one of the two major clades of Cora (mycobiont) with samples collected largely from the northern Andes. Molecular clock estimations indicate the Rhizonema species are much older than the fungal species in the Dictyonemateae, suggesting that these basidiolichens obtained their photobionts from older ascolichen lineages and the photobiont variation in extant lineages of Dictyonemateae is the result of multiple photobiont switches. These results support the hypothesis of lichens representing "fungal farmers," in which diverse mycobiont lineages associate with a substantially lower diversity of photobionts by sharing those photobionts best suited for the lichen symbiosis among multiple and often unrelated mycobiont lineages.
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Affiliation(s)
- Manuela Dal Forno
- Botanical Research Institute of Texas, Fort Worth, TX, USA.,Department of Botany, Smithsonian Institution, National Museum of Natural History, Washington, DC, USA
| | - James D Lawrey
- Department of Biology, George Mason University, Fairfax, VA, USA
| | | | | | - Eric Schuettpelz
- Department of Botany, Smithsonian Institution, National Museum of Natural History, Washington, DC, USA
| | - Robert Lücking
- Botanical Garden and Botanical Museum Berlin, Berlin, Germany.,Research Associate, Science & Education, The Field Museum, Chicago, IL, USA
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5
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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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6
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Liu D, Yu Wang X, Wang LS, Maekawa N, Hur JS. Sulzbacheromyces sinensis, an Unexpected Basidiolichen, was Newly Discovered from Korean Peninsula and Philippines, with a Phylogenetic Reconstruction of Genus Sulzbacheromyces. MYCOBIOLOGY 2019; 47:191-199. [PMID: 31448139 PMCID: PMC6691760 DOI: 10.1080/12298093.2019.1617825] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Subscribe] [Scholar Register] [Received: 01/17/2019] [Revised: 04/30/2019] [Accepted: 05/07/2019] [Indexed: 06/10/2023]
Abstract
Most of lichens are formed by Ascomycota, less than 1% are lichenized Basidiomycota. The flora investigation of lichenized Ascomycota of South Korea has been well studied in the past three decades; however, prior to this study, none of basidiolichens was discovered. During the recent excursion, an unexpected clavarioid basidiolichen, Sulzbacheromyces sinensis was collected. Morphology and ecology has been recorded in detail. DNA was extracted, and ITS, 18S, 28S nuclear rDNA were generated. In order to further confirm the systematic position of the Korean specimens, maximum likelihood and Bayesian inference analysis including all the species of the order Lepidostromatales were conducted based on the ITS. As a result, the phylogenetic tree of the order Lepidostromatales was reconstructed, which differed from the previous studies. The inferred phylogenetic tree showed that species of Sulzbacheromyces in three different continents (Asia, South Africa and South America) were separated into three clades with support. In this study, the species worldwide distribution map of Lepidostromatales was illustrated, and S. sinensis had a widest distribution range (paleotropical extend to the Sino-Japanese) than other species (paleotropical or neotropical). Prior to this study, the range of distribution, southernmost and northernmost points and the fruiting time of S. sinensis were recorded, and the genus Sulzbacheromyces was firstly reported from Korean peninsula and Philippines.
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Affiliation(s)
- Dong Liu
- Korean Lichen Research Institute (KoLRI), Sunchon National University, Suncheon, Korea
| | - Xin Yu Wang
- Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, China
| | - Li Song Wang
- Key Laboratory for Plant Diversity and Biogeography of East Asia Kunming Institute of Botany, Chinese Academy of Sciences, Kunming, China
| | - Nitaro Maekawa
- Fungus/Mushroom Resource and Research Center, Faculty of Agriculture, Tottori University, Tottori, Japan
| | - Jae-Seoun Hur
- Korean Lichen Research Institute (KoLRI), Sunchon National University, Suncheon, Korea
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7
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Wang CQ, Zhang M, Li TH, Liang XS, Shen YH. Additions to tribe Chromosereae (Basidiomycota, Hygrophoraceae) from China, including Sinohygrocybe gen. nov. and a first report of Gloioxanthomycesnitidus. MycoKeys 2018:59-76. [PMID: 30275740 PMCID: PMC6160846 DOI: 10.3897/mycokeys.38.25427] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/02/2018] [Accepted: 08/02/2018] [Indexed: 11/12/2022] Open
Abstract
Sinohygrocybe gen. nov., typified by S.tomentosipes sp. nov., is described upon morphological and molecular evidence. The new genus is characterised by its sinuate to subdecurrent or short deccurent, usually furcate and interveined and relatively distant lamellae, dry and whitish tomentose stipe, thin-walled ellipsoid to oviod, non-constricted basidiospores and particularly elongated basidia and a ratio of basidiospore to basidium length of >5 to 8; it is close to genera Chromosera and Gloioxanthomyces of the tribe Chromosereae, but morphologically differs from Chromosera in less umbilicate basidiomata, tomentose stipe and usually longer basidia and differs from Gloioxanthomyces in more robust basidioma and less glutinous pileus and/or stipe surface. Phylogenetic analyses, with ITS-LSU-RPB2 data, also indicate that Sinohygrocybe forms a very distinct and independent clade at the generic level. In addition, a Chinese new record G.nitidus is described here.
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Affiliation(s)
- Chao-Qun Wang
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou 510070, China Guangdong Institute of Microbiology Guangzhou China
| | - Ming Zhang
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou 510070, China Guangdong Institute of Microbiology Guangzhou China
| | - Tai-Hui Li
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou 510070, China Guangdong Institute of Microbiology Guangzhou China
| | - Xi-Shen Liang
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou 510070, China Guangdong Institute of Microbiology Guangzhou China
| | - Ya-Heng Shen
- State Key Laboratory of Applied Microbiology Southern China, Guangdong Provincial Key Laboratory of Microbial Culture Collection and Application, Guangdong Open Laboratory of Applied Microbiology, Guangdong Institute of Microbiology, Guangzhou 510070, China Guangdong Institute of Microbiology Guangzhou China
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8
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Liu D, Goffinet B, Ertz D, De Kesel A, Wang X, Hur JS, Shi H, Zhang Y, Yang M, Wang L. Circumscription and phylogeny of the Lepidostromatales (lichenized Basidiomycota) following discovery of new species from China and Africa. Mycologia 2018; 109:730-748. [PMID: 29370576 DOI: 10.1080/00275514.2017.1406767] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/18/2022]
Abstract
Based on an exhaustive sampling of all known Lepidostromatales, a lineage of clavarioid lichen-forming basidiomycetes, we assess (i) the phylogenetic affinities of the six Chinese species currently accommodated in Multiclavula (Cantharellales) based on inferences from the 18S and 28S subunits of the nuclear ribosomal DNA repeat and (ii) the phylogenetic structure among Chinese populations of Lepidostromatales, based on the nuc rDNA ITS1-5.8S-ITS2 (internal transcribed spacer [ITS]) regions. Multiclavula fossicola and M. sinensis belong to the Lepidostromatales and are transferred to Sulzbacheromyces. Chinese reports of M. clara and M. vernalis belong to species of Lepidostromatales, and specimens identified as M. mucida belong to the nonlichenized genus Clavaria. Hence, evidence of Multiclavula occurring in China is lacking. Similarly, L. calocerum is excluded from the Chinese flora. The recently described L. asianum should be regarded as conspecific with S. sinensis. Three new species of Sulzbacheromyces are described: S. bicolor and S. yunnanensis from China and S. miomboensis from the Democratic Republic of Congo. Consequently, Sulzbacheromyces is new to Asia and Africa. A worldwide key to the species of Lepidostromatales is provided.
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Affiliation(s)
- Dong Liu
- a Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences , Heilongtan, Kunming , Yunnan , 650204 , China.,b Korean Lichen Research Institute, Sunchon National University , Suncheon 57922 , Korea
| | - Bernard Goffinet
- c Department of Ecology and Evolutionary Biology , University of Connecticut , 75 North Eagleville Road, Storrs , Connecticut 06269-3043
| | - Damien Ertz
- d Botanic Garden Meise , Department Research , Nieuwelaan 38, B-1860 Meise , Belgium.,e Fédération Wallonie-Bruxelles, Direction Générale de l'Enseignement non obligatoire et de la Recherche scientifique , Rue A. Lavallée 1, 1080 Bruxelles , Belgium
| | - André De Kesel
- d Botanic Garden Meise , Department Research , Nieuwelaan 38, B-1860 Meise , Belgium
| | - Xinyu Wang
- a Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences , Heilongtan, Kunming , Yunnan , 650204 , China
| | - Jae-Seoun Hur
- b Korean Lichen Research Institute, Sunchon National University , Suncheon 57922 , Korea
| | - Haixia Shi
- a Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences , Heilongtan, Kunming , Yunnan , 650204 , China
| | - Yanyun Zhang
- a Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences , Heilongtan, Kunming , Yunnan , 650204 , China
| | - Meixia Yang
- a Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences , Heilongtan, Kunming , Yunnan , 650204 , China
| | - Lisong Wang
- a Key Laboratory for Plant Diversity and Biogeography of East Asia, Kunming Institute of Botany, Chinese Academy of Sciences , Heilongtan, Kunming , Yunnan , 650204 , China
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9
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Kaasalainen U, Schmidt AR, Rikkinen J. Diversity and ecological adaptations in Palaeogene lichens. NATURE PLANTS 2017; 3:17049. [PMID: 28436942 DOI: 10.1038/nplants.2017.49] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.6] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 10/04/2016] [Accepted: 03/16/2017] [Indexed: 06/07/2023]
Abstract
Lichens are highly specialized symbioses between heterotrophic fungi and photoautotrophic green algae or cyanobacteria. The mycobionts of many lichens produce morphologically complex thalli to house their photobionts. Lichens play important roles in ecosystems and have been used as indicators of environmental change. Here we report the finding of 152 new fossil lichens from European Palaeogene amber, and hence increase the total number of known fossil lichens from 15 to 167. Most of the fossils represent extant lineages of the Lecanoromycetes, an almost exclusively lichen-symbiotic class of Ascomycota. The fossil lichens show a wide diversity of morphological adaptations that attached epiphytic thalli to their substrates, helped to combine external water storage with effective gas exchange and facilitated the simultaneous reproduction and dispersal of both partners in symbiosis. The fossil thallus morphologies suggest that the climate of European Palaeogene amber forests was relatively humid and most likely temperate.
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Affiliation(s)
- Ulla Kaasalainen
- Department of Geobiology, University of Göttingen, Goldschmidtstraβe 3, 37077 Göttingen, Germany
| | - Alexander R Schmidt
- Department of Geobiology, University of Göttingen, Goldschmidtstraβe 3, 37077 Göttingen, Germany
| | - Jouko Rikkinen
- Finnish Museum of Natural History, University of Helsinki, PO Box 7, FIN-00014 Finland
- Department of Biosciences, University of Helsinki, PO Box 65, FIN-00014 Finland
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10
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Dal Forno M, Bungartz F, Yánez-Ayabaca A, Lücking R, Lawrey JD. High levels of endemism among Galapagos basidiolichens. FUNGAL DIVERS 2017. [DOI: 10.1007/s13225-017-0380-6] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/05/2023]
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11
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Sandoval-Leiva P, Niveiro N, Urbina-Casanova R, Scherson R. Lichenomphalia altoandina, a new species of Hygrophoraceae from the Chilean Altiplano. Mycologia 2017; 109:92-99. [DOI: 10.1080/00275514.2017.1281682] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/19/2022]
Affiliation(s)
- P. Sandoval-Leiva
- Biota Gestión y Consultorías Ambientales, Ltda. Miguel Claro 1224, Providencia, Santiago, Chile
| | - N. Niveiro
- Instituto de Botánica del Nordeste, IBONE (UNNE–CONICET). Sargento Cabral 2131, CC 209 Corrientes Capital, CP 3400, Argentina
| | - R. Urbina-Casanova
- Laboratorio de Sistemática y Evolución de Plantas, Facultad de Ciencias Forestales y Conservación de la Naturaleza, Universidad de Chile. Casilla 9206, Santiago, Chile
| | - R. Scherson
- Laboratorio de Sistemática y Evolución de Plantas, Facultad de Ciencias Forestales y Conservación de la Naturaleza, Universidad de Chile. Casilla 9206, Santiago, Chile
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12
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Dal-Forno M, Lücking R, Bungartz F, Yánez-Ayabaca A, Marcelli MP, Spielmann AA, Coca LF, Chaves JL, Aptroot A, Sipman HJM, Sikaroodi M, Gillevet P, Lawrey JD. From one to six: unrecognized species diversity in the genus Acantholichen (lichenized Basidiomycota: Hygrophoraceae). Mycologia 2017; 108:38-55. [DOI: 10.3852/15-060] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/05/2015] [Accepted: 10/02/2015] [Indexed: 11/10/2022]
Affiliation(s)
- Manuela Dal-Forno
- Department of Environmental Science and Policy, George Mason University, Fairfax, Virginia 22030-4444
| | - Robert Lücking
- Science & Education, The Field Museum, 1400 South Lake Shore Drive, Chicago, Illinois 60605, and Botanischer Garten und Botanisches Museum, Königin-Luise-Straße 6-8, 14195 Berlin, Germany
| | - Frank Bungartz
- Biodiversity Assessment, Charles Darwin Foundation (AISBL), Puerto Ayora, Santa Cruz, Galápagos, Ecuador
| | | | - Marcelo P. Marcelli
- Instituto de Botânica, Núcleo de Pesquisa em Micologia, Av. Miguel Stéfano 3687, São Paulo/SP, CEP 04301-902, Brazil
| | - Adriano A. Spielmann
- Laboratório de Botânica/Liquenologia, Centro de Ciências Biológicas e da Saúde, Universidade Federal de Mato Grosso do Sul, Caixa Postal 549, CEP 79070-900, Campo Grande, Mato Grosso do Sul, Brazil
| | - Luis Fernando Coca
- Herbario Universidad de Caldas, Edificio Bicentenario, Manizales, A.A. 275, Caldas, Colombia
| | - José Luis Chaves
- Laboratorio de Hongos, Instituto Nacional de Biodiversidad, Santo Domingo de Heredia, Costa Rica
| | - Andre Aptroot
- ABL Herbarium, G.v.d. Veenstraat 107, NL-3762 XK Soest, The Netherlands
| | - Harrie J. M. Sipman
- Botanischer Garten und Botanisches Museum, Freie Universität, Königin-Luise-Straße 6-8, D-14195 Berlin, Germany
| | | | - Patrick Gillevet
- Department of Environmental Science and Policy, George Mason University, Fairfax, Virginia 22030-4444
| | - James D. Lawrey
- Department of Biology, George Mason University, Fairfax, Virginia 22030-4444
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13
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Vizzini A, Consiglio G, Setti L, Ercole E. The phylogenetic position of Haasiella (Basidiomycota, Agaricomycetes) and the relationships between H. venustissima and H. splendidissima. Mycologia 2017; 104:777-84. [DOI: 10.3852/11-334] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Alfredo Vizzini
- Dipartimento di Biologia Vegetale, Università degli Studi di Torino, Viale Mattioli 25, I-10125, Torino, Italy
| | | | - Ledo Setti
- Via C. Pavese 1, I-46029 Suzzara (Mantova), Italy
| | - Enrico Ercole
- Dipartimento di Biologia Vegetale, Università degli Studi di Torino, Viale Mattioli 25, I-10125, Torino, Italy
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14
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Seitzman BH, Ouimette A, Mixon RL, Hobbie EA, Hibbett DS. Conservation of biotrophy in Hygrophoraceae inferred from combined stable isotope and phylogenetic analyses. Mycologia 2017; 103:280-90. [DOI: 10.3852/10-195] [Citation(s) in RCA: 38] [Impact Index Per Article: 5.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/10/2022]
Affiliation(s)
- Brian H. Seitzman
- Department of Biology, 950 Main Street, Clark University, Worcester, Massachusetts 01610
| | | | | | - Erik A. Hobbie
- Complex Systems Research Center, University of New Hampshire, Durham, New Hampshire 03824
| | - David S. Hibbett
- Department of Biology, 950 Main Street, Clark University, Worcester, Massachusetts 01610
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Turbo-taxonomy to assemble a megadiverse lichen genus: seventy new species of Cora (Basidiomycota: Agaricales: Hygrophoraceae), honouring David Leslie Hawksworth’s seventieth birthday. FUNGAL DIVERS 2016. [DOI: 10.1007/s13225-016-0374-9] [Citation(s) in RCA: 20] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/20/2022]
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16
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17
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Abstract
The number of Fungi is estimated at between 1.5 and 3 million. Lichenized species are thought to make up a comparatively small portion of this figure, with unrecognized species richness hidden among little-studied, tropical microlichens. Recent findings, however, suggest that some macrolichens contain a large number of unrecognized taxa, increasing known species richness by an order of magnitude or more. Here we report the existence of at least 126 species in what until recently was believed to be a single taxon: the basidiolichen fungus Dictyonema glabratum, also known as Cora pavonia. Notably, these species are not cryptic but morphologically distinct. A predictive model suggests an even larger number, with more than 400 species. These results call into question species concepts in presumably well-known macrolichens and demonstrate the need for accurately documenting such species richness, given the importance of these lichens in endangered ecosystems such as paramos and the alarming potential for species losses throughout the tropics.
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18
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Multiple ITS Haplotypes in the Genome of the Lichenized Basidiomycete Cora inversa (Hygrophoraceae): Fact or Artifact? J Mol Evol 2013; 78:148-62. [DOI: 10.1007/s00239-013-9603-y] [Citation(s) in RCA: 27] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/05/2013] [Accepted: 11/20/2013] [Indexed: 11/25/2022]
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19
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Hodkinson BP, Moncada B, Lücking R. Lepidostromatales, a new order of lichenized fungi (Basidiomycota, Agaricomycetes), with two new genera, Ertzia and Sulzbacheromyces, and one new species, Lepidostroma winklerianum. FUNGAL DIVERS 2013. [DOI: 10.1007/s13225-013-0267-0] [Citation(s) in RCA: 26] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
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20
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Lodge DJ, Padamsee M, Matheny PB, Aime MC, Cantrell SA, Boertmann D, Kovalenko A, Vizzini A, Dentinger BTM, Kirk PM, Ainsworth AM, Moncalvo JM, Vilgalys R, Larsson E, Lücking R, Griffith GW, Smith ME, Norvell LL, Desjardin DE, Redhead SA, Ovrebo CL, Lickey EB, Ercole E, Hughes KW, Courtecuisse R, Young A, Binder M, Minnis AM, Lindner DL, Ortiz-Santana B, Haight J, Læssøe T, Baroni TJ, Geml J, Hattori T. Molecular phylogeny, morphology, pigment chemistry and ecology in Hygrophoraceae (Agaricales). FUNGAL DIVERS 2013. [DOI: 10.1007/s13225-013-0259-0] [Citation(s) in RCA: 50] [Impact Index Per Article: 4.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/26/2022]
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21
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Dal-Forno M, Lawrey JD, Sikaroodi M, Bhattarai S, Gillevet PM, Sulzbacher M, Lücking R. Starting from scratch: Evolution of the lichen thallus in the basidiolichen Dictyonema (Agaricales: Hygrophoraceae). Fungal Biol 2013; 117:584-98. [DOI: 10.1016/j.funbio.2013.05.006] [Citation(s) in RCA: 36] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/28/2013] [Accepted: 05/31/2013] [Indexed: 11/28/2022]
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22
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Lücking R, Tehler A, Bungartz F, Rivas Plata E, Lumbsch HT. Journey from the West: did tropical Graphidaceae (lichenized Ascomycota: Ostropales) evolve from a saxicolous ancestor along the American Pacific coast? AMERICAN JOURNAL OF BOTANY 2013; 100:844-856. [PMID: 23594913 DOI: 10.3732/ajb.1200548] [Citation(s) in RCA: 10] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 06/02/2023]
Abstract
PREMISE OF THE STUDY This study elucidates the phylogenetic position of a unique taxon of Graphidaceae occurring on rock in coastal desert areas, assessing its importance for our understanding of the evolution of the largest family of tropical lichenized fungi. • METHODS We used maximum likelihood and Bayesian approaches to reconstruct a three-gene phylogeny of Graphidaceae and a Bayesian molecular clock approach to estimate divergence dates for major clades, as well as Bayesian ancestral ecogeography state analysis. • KEY RESULTS The new genus Redonographa represents a new subfamily, Redonographoideae, sister to subfamily Graphidoideae. Redonographa is exclusively saxicolous and restricted to the American Pacific coast from California to central Chile, including Galapagos. It contains four species: Redonographa chilensis comb. nov., R. saxiseda comb. nov., R. saxorum comb. nov., and R. galapagoensis sp. nov. The genus Gymnographopsis, with a similar ecogeography but differing in excipular carbonization and chemistry, is also included in Redonographoideae, with the species G. chilena from Chile and G. latispora from South Africa. Molecular clock analysis indicates that Redonographoideae diverged from Graphidoideae about 132 million years ago (Ma) in the Early Cretaceous. • CONCLUSIONS The divergence date for subfamilies Redonographoideae and Graphidoideae coincides with the early breakup of Gondwana and ancient origin of the Atacama Desert. However, the common ancestor of Redonographoideae plus Graphidoideae was reconstructed to be tropical-epiphytic. Thus, even if Redonographoideae is subtropical-saxicolous, the hypothesis that Graphidoideae evolved from a subtropical-saxicolous ancestor is not supported.
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Affiliation(s)
- Robert Lücking
- Department of Botany, The Field Museum, 1400 South Lake Shore Drive, Chicago, IL 60605 USA.
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23
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Frequent circumarctic and rare transequatorial dispersals in the lichenised agaric genus Lichenomphalia (Hygrophoraceae, Basidiomycota). Fungal Biol 2012; 116:388-400. [DOI: 10.1016/j.funbio.2011.12.009] [Citation(s) in RCA: 32] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/29/2011] [Revised: 12/05/2011] [Accepted: 12/19/2011] [Indexed: 11/19/2022]
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24
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Parallel evolution and phenotypic divergence in lichenized fungi: A case study in the lichen-forming fungal family Graphidaceae (Ascomycota: Lecanoromycetes: Ostropales). Mol Phylogenet Evol 2011; 61:45-63. [DOI: 10.1016/j.ympev.2011.04.025] [Citation(s) in RCA: 51] [Impact Index Per Article: 3.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/12/2010] [Revised: 03/14/2011] [Accepted: 04/30/2011] [Indexed: 11/20/2022]
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25
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Yánez A, Dal-Forno M, Bungartz F, Lücking R, Lawrey JD. A first assessment of Galapagos basidiolichens. FUNGAL DIVERS 2011. [DOI: 10.1007/s13225-011-0133-x] [Citation(s) in RCA: 13] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/17/2022]
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26
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Lücking R, Hodkinson BP, Stamatakis A, Cartwright RA. PICS-Ord: unlimited coding of ambiguous regions by pairwise identity and cost scores ordination. BMC Bioinformatics 2011; 12:10. [PMID: 21214904 PMCID: PMC3024941 DOI: 10.1186/1471-2105-12-10] [Citation(s) in RCA: 14] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/20/2010] [Accepted: 01/07/2011] [Indexed: 11/10/2022] Open
Abstract
BACKGROUND We present a novel method to encode ambiguously aligned regions in fixed multiple sequence alignments by 'Pairwise Identity and Cost Scores Ordination' (PICS-Ord). The method works via ordination of sequence identity or cost scores matrices by means of Principal Coordinates Analysis (PCoA). After identification of ambiguous regions, the method computes pairwise distances as sequence identities or cost scores, ordinates the resulting distance matrix by means of PCoA, and encodes the principal coordinates as ordered integers. Three biological and 100 simulated datasets were used to assess the performance of the new method. RESULTS Including ambiguous regions coded by means of PICS-Ord increased topological accuracy, resolution, and bootstrap support in real biological and simulated datasets compared to the alternative of excluding such regions from the analysis a priori. In terms of accuracy, PICS-Ord performs equal to or better than previously available methods of ambiguous region coding (e.g., INAASE), with the advantage of a practically unlimited alignment size and increased analytical speed and the possibility of PICS-Ord scores to be analyzed together with DNA data in a partitioned maximum likelihood model. CONCLUSIONS Advantages of PICS-Ord over step matrix-based ambiguous region coding with INAASE include a practically unlimited number of OTUs and seamless integration of PICS-Ord codes into phylogenetic datasets, as well as the increased speed of phylogenetic analysis. Contrary to word- and frequency-based methods, PICS-Ord maintains the advantage of pairwise sequence alignment to derive distances, and the method is flexible with respect to the calculation of distance scores. In addition to distance and maximum parsimony, PICS-Ord codes can be analyzed in a Bayesian or maximum likelihood framework. RAxML (version 7.2.6 or higher that was developed for this study) allows up to 32-state ordered or unordered characters. A GTR, MK, or ORDERED model can be applied to analyse the PICS-Ord codes partition, with GTR performing slightly better than MK and ORDERED. AVAILABILITY An implementation of the PICS-Ord algorithm is available from http://scit.us/projects/ngila/wiki/PICS-Ord. It requires both the statistical software, R http://www.r-project.org and the alignment software Ngila http://scit.us/projects/ngila.
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Affiliation(s)
- Robert Lücking
- Department of Botany, The Field Museum, 1400 South Lake Shore Drive, Chicago, IL 60605-2496, USA.
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27
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Justo A, Vizzini A, Minnis AM, Menolli N, Capelari M, Rodríguez O, Malysheva E, Contu M, Ghignone S, Hibbett DS. Phylogeny of the Pluteaceae (Agaricales, Basidiomycota): taxonomy and character evolution. Fungal Biol 2010; 115:1-20. [PMID: 21215950 DOI: 10.1016/j.funbio.2010.09.012] [Citation(s) in RCA: 40] [Impact Index Per Article: 2.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/17/2010] [Revised: 09/16/2010] [Accepted: 09/26/2010] [Indexed: 11/27/2022]
Abstract
The phylogeny of the genera traditionally classified in the family Pluteaceae (Agaricales, Basidiomycota) was investigated using molecular data from nuclear ribosomal genes (nSSU, ITS, nLSU) and consequences for taxonomy and character evolution were evaluated. The genus Volvariella is polyphyletic, as most of its representatives fall outside the Pluteoid clade and shows affinities to some hygrophoroid genera (Camarophyllus, Cantharocybe). Volvariella gloiocephala and allies are placed in a different clade, which represents the sister group of Pluteus, and a new generic name, Volvopluteus, is proposed to accommodate these taxa. Characters such as basidiospore size and pileipellis structure can be used to separate Pluteus, Volvariella and Volvopluteus. The genus Pluteus is monophyletic and includes species with partial veil traditionally classified in the genus Chamaeota. The evolution of morphological features used in the infrageneric taxonomy of the genus, such as metuloid cystidia and pileipellis structure, was analyzed. Agreement between the molecular phylogeny and morphological subdivision of Pluteus is, generally speaking, good, though some rearrangements are necessary: (i) species with non-metuloid pleurocystidia and pileipellis as a cutis are placed either in sect. Celluloderma, together with the species characterized by a hymenidermal pipeipellis, or in sect. Pluteus, with the metuloid bearing species; (ii) subdivision of sect. Celluloderma according to the presence/absence of cystidioid elements in the pileipellis is not supported by molecular data.
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Affiliation(s)
- Alfredo Justo
- Biology Department, Clark University, 950 Main St., Worcester, MA 01610, USA.
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