Lichens,as dual organisms comprising a major mycobiont and a major photobiont,exhibit remarkable survival capabilities in extreme conditions,such as those found in Antarctica.Despite their adaptability,the diversity a...Lichens,as dual organisms comprising a major mycobiont and a major photobiont,exhibit remarkable survival capabilities in extreme conditions,such as those found in Antarctica.Despite their adaptability,the diversity and distribution of lichen photobionts in the ice-free areas of maritime Antarctica remain less understood compared to their mycobiont counterparts.In our study,we investigated the diversity of both lichen mycobionts and photobionts in 56 samples collected from the Fildes Region on King George Island,maritime Antarctica.Through sequencing of the nuclear ribosomal internal transcribed spacer regions and subsequent phylogenetic analysis,we examined the relationships and association patterns between mycobionts and photobionts.Our findings revealed 19 taxa of lichen mycobionts across 13 families and seven orders,along with nine photobiont species within the class Trebouxiophyceae.These photobionts encompassed six Trebouxia species,one Asterochloris species,one Chloroidium species,and one Stichococcus species.In particular,a new Trebouxia lineage(Trebouxia sp.OTU D08)and a new Chloroidium lineage were found.The analysis indicated that many mycobionts could be associated with multiple photobiont species,a pattern also observed among the photobionts.These results contribute significantly to our understanding of the complex diversity of lichen mycobionts and photobionts in the ice-free areas of maritime Antarctica.展开更多
Lichen biota of Pathanamthitta district of Kerala state was thoroughly studied which resulted in 24 lichen species as new to Kerala and one species,Phaeographis nylanderi(Vain.)Zahlbr.as new to India.All the species i...Lichen biota of Pathanamthitta district of Kerala state was thoroughly studied which resulted in 24 lichen species as new to Kerala and one species,Phaeographis nylanderi(Vain.)Zahlbr.as new to India.All the species identified are either crustose or foliose forms belonging to families Graphidaceae and Caliciaceae indicating the dominance of these groups in the study area.List of all the 25 species are provided along with their distribution.展开更多
In our continuous effort to explore the lichens in new and interesting areas FEEDS campus and SBG garden located in Manipur,a north-eastern state of India are surveyed.The study resulted in 47 species in FEEDS campus ...In our continuous effort to explore the lichens in new and interesting areas FEEDS campus and SBG garden located in Manipur,a north-eastern state of India are surveyed.The study resulted in 47 species in FEEDS campus and 80 species in SB garden respectively,while both areas shared 22 species in common.The crustose lichens were more dominant in the area represented by Graphidaceae(16 spp.)and Pyrenulaceae(15 spp.).The species composition in both the sites represented photophilic communities such as graphidaceous,physcioid and parmelioid lichens.FEEDS campus had open areas with cultivated plants where as SBG garden had semi-evergreen forest at its initial stage of succession.The study also added 55 lichen species as new distributional records to Manipur.展开更多
Lichens of Sirumalai hills are reported here for the first time.Lichen biota comprised of 95 species.The genus Japewiella is reported for the first time in India and is represented by J.tavaresiana(H.Magn.)Printzen.Fu...Lichens of Sirumalai hills are reported here for the first time.Lichen biota comprised of 95 species.The genus Japewiella is reported for the first time in India and is represented by J.tavaresiana(H.Magn.)Printzen.Furthermore,the following six taxa including one variety are new to India viz.Arthonia atra(Pers.)A.Schneid.,Graphis brevicarpa M.Nakan.,Kashiw.&K.H.Moon,Micarea erratica(Körb.)Hertel,Rambold&Pietschm.,Pertusaria cicatricosa var.deficiens A.W.Archer,Elix&Streimam,Porina subargillacea Müll Arg.,and Pyxine schmidtii Vain.Brief accounts for all the new records to India are provided to facilitate their identification.Arthonia redingeri Grube and Lepraria caesiella R.C.Harris are reported for the first time from south India.Besides all above,29 species are recorded for the first time from the state of Tamil Nadu.The lichen biota of the area is primarily corticolous in habitats and dominated by crustose form.展开更多
Phylogenomic datasets continue to enhance our understanding of evolutionary relationships in many lineages of organisms.However,genome-scale data have not been widely implemented in reconstructing relationships in lic...Phylogenomic datasets continue to enhance our understanding of evolutionary relationships in many lineages of organisms.However,genome-scale data have not been widely implemented in reconstructing relationships in lichenized fungi.Here we generate a data set comprised of 2556 single-copy protein-coding genes to reconstruct previously unresolved rela-tionships in the most diverse family of lichen-forming fungi,Parmeliaceae.Our sampling included 51 taxa,mainly from the subfamily Parmelioideae,and represented six of the seven previously identified major clades within the family.Our results provided strong support for the monophyly of each of these major clades and most backbone relationships in the topology were recovered with high nodal support based on concatenated dataset and species tree analyses.The alectorioid clade was strongly supported as sister-group to all remaining clades,which were divided into two major sister-groups.In the first major clade the anzioid and usneoid clades formed a strongly supported sister-group relationship with the cetrarioid?hypogymnioid group.The sister-group relationship of Evernia with the cetrarioid clade was also strongly supported,whereas that between the anzioid and usneoid clades needs further investigation.In the second major clade Oropogon and Platismatia were sister to the parmelioid group,while the position of Omphalora was not fully resolved.This study demonstrates the power of genome-scale data sets to resolve long-standing,ambiguous phylogenetic rela-tionships of lichen-forming fungi.Furthermore,the topology inferred in this study will provide a valuable framework for better understanding diversification in the most diverse lineage of lichen-forming fungi,Parmeliaceae.展开更多
Although classification at supra-specific ranks is inherently arbitrary,comparable taxonomic ranks within clades can facilitate more consistent classifications and objective comparisons among taxa.Different circumscri...Although classification at supra-specific ranks is inherently arbitrary,comparable taxonomic ranks within clades can facilitate more consistent classifications and objective comparisons among taxa.Different circumscriptions of the hyper-diverse lichen-forming fungal family Parmeliaceae and widely different generic circumscriptions among authors have been proposed.For this study,we use a recently developed temporal approach that uses timecalibrated chronograms to identify temporal bands for specific ranks in Parmeliaceae and allied groups with the overarching goal of establishing a consistent,stable classification.A data set of 330 species,representing 73 genera in the family and 52 species of related families was used to address the circumscription of Parmeliaceae and its genera following the proposed temporal approach.Based on the results of this study,we propose a revised,temporal-based classification for Parmeliaceae,including all clades that share a common ancestor 102.13–112.88 Ma for families and a time window of 29.45–32.55 Ma for genera.Fortyfive of the currently accepted genera in Parmeliaceae were supported in their current circumscription.Two subfamilies are accepted within Parmeliaceae:Protoparmelioideae Divakar et al.subfam.nov.,including Protoparmelia and the resurrected genus Maronina,and Parmelioideae,including the bulk of genera in the family.The new genus Austromelanelixia Divakar et al.is proposed to accommodate a clade of southern Hemisphere species previously included in Melanelixia.Eumitria and tentatively Dolichousnea are resurrected as genera separate from Usnea.The following genera are reduced to synonymy:Allocetraria,Cetrariella,Usnocetraria,and Vulpicida with Cetraria;Arctocetraria,Cetreliopsis,Flavocetraria,Kaernefeltia,Masonhalea,Tuckermanella,and Tuckermannopsis with Nephromopsis;and the lichenicolous genera Nesolechia and Raesaenenia with the lichen-forming genera Punctelia and Protousnea,respectively.A total of 47 new combinations and three new names at the species level are proposed.展开更多
Here,we show that Lichinodium(Lichinaceae,Lichinomycetes,Ascomycota)constitutes a formerly unrecognized lineage within the Leotiomycetes,thus being the first lichenized lineage recognized in the superclass Sordariomyc...Here,we show that Lichinodium(Lichinaceae,Lichinomycetes,Ascomycota)constitutes a formerly unrecognized lineage within the Leotiomycetes,thus being the first lichenized lineage recognized in the superclass Sordariomyceta(Leotiomycetes,Laboulbeniomycetes and Sordariomycetes).To infer the position of Lichinodium,we constructed two multilocus phylogenies based on six and five gene regions(nuLSU rDNA,nuSSU rDNA,mtSSU rDNA,RPB1,RPB2 and MCM7)including main Pezizomycotina groups in the first analysis and focusing secondly on a comprehensive selection of Sordariomyceta.The results show that Lichinodium is sister to Leotiaceae.We discuss the morphological and ecological similarities between Lichinodium and other Leotiomycetes,and describe the new order Lichinodiales and family Lichinodiaceae.The sister relationship between Sordariomycetes and Laboulbeniomycetes is here supported as it is the relationship between this clade and the Leotiomycetes.The results also support the polyphyly of Helotiales,the recognition of the Leotiales in a strict sense or the inclusion of the Triblidiales in Leotiomycetes.The photobionts of Lichinodium were sequenced for two genetic markers(rbcLX and 16S rDNA)and identified as Rhizonema,a recently described genus of filamentous cyanobacteria belonging to Nostocaceae.TEM studies revealed that the mycobiont-cyanobiont interface in Lichinodium does not produce haustoria,thus differing from a typical Lichinomycete(e.g.Ephebe).展开更多
The phylogeny of the Acarosporaceae(Lecanoromycetes,Acarosporomycetidae,Acarosporales)is investigated using data from three molecular markers;nuclear ITS-LSU rDNA,mitochondrial SSU andβ-tubulin.Acarosporaceae is show...The phylogeny of the Acarosporaceae(Lecanoromycetes,Acarosporomycetidae,Acarosporales)is investigated using data from three molecular markers;nuclear ITS-LSU rDNA,mitochondrial SSU andβ-tubulin.Acarosporaceae is shown to be constituted by six main clades;Myriospora,Timdalia,Pleopsidium,a clade composed by BAcarospora^rhizobola and BA.^terricola,the poorly supported Sarcogyne clade(including several Polysporina and Acarospora species)and the Acarospora clade(including the type of Polysporina,P.simplex,and several other Polysporina species).The common ancestor of the Acarosporaceae did not produce strongly black pigmented(carbonized or melanized)ascomata,but this trait has arisen secondarily and independently numerous times in the evolution of the group.The number of changes in character states of both carbonized epihymenium and carbonized exciple are considerably more than the minimum number.The genera Sarcogyne and Polysporina—largely circumscribed based on the presence of black pigmented ascomata—are shown to be distinctly non-monophyletic.The presence of green algae in the ascoma margin(lecanorine or lecideine ascomata)may vary even within single species.展开更多
Abstract The phylogenetic relationship of lecanoroid lichens is studied using two data sets:1)a 2-locus data set including 251 OTUs representing 150 species,and 2)a 6-locus data set with 82 OTUs representing 53 specie...Abstract The phylogenetic relationship of lecanoroid lichens is studied using two data sets:1)a 2-locus data set including 251 OTUs representing 150 species,and 2)a 6-locus data set with 82 OTUs representing 53 species.The genus Lecanora as currently circumscribed is shown to be highly polyphyletic and several genera,including Adelolecia,Arctopeltis,Bryonora,Carbonea,Frutidella,Lecidella,Miriquidica,Palicella,Protoparmeliopsis,Pyrrhospora,and Rhizoplaca are nested within Lecanora sensu lato.A core group of Lecanora is supported as monophyletic and includes species of the L.carpinea,L.rupicola,and L.subcarnea groups,and a core group of the L.subfusca group.Three monophyletic clades that are well supported in our analyses and well characterized by phenotypical characters are accepted here:1)Myriolecis to accommodate the Lecanora dispersa group and Arctopeltis;2)Protoparmeliopsis for the L.muralis group;and 3)Rhizoplaca is emended to include three placodioid taxa previously classified in Lecanora(L.novomexicana.L.opiniconensis,L.phaedrophthalma),whereas R.aspidophora and R.peltata are excluded from Rhizoplaca.The latter is transferred into Protoparmeliopsis.Lecidella is strongly supported as a monophyletic group.Our studies indicate the presence of additional clades of species currently placed in Lecanora sensu lato that warrant taxonomic recognition but additional data will be necessary before the circumscription of these entities is fully understood.37 new combinations are proposed into the genera Myriolecis(30),Protoparmeliopsis(2),and Rhizoplaca(5).展开更多
A two-locus phylogenetic hypothesis of the family Roccellaceae is presented based on data from the nuclear ribosomal large subunit(nucLSU)and the second largest subunit of RNA polymerase II(RPB2).This analysis include...A two-locus phylogenetic hypothesis of the family Roccellaceae is presented based on data from the nuclear ribosomal large subunit(nucLSU)and the second largest subunit of RNA polymerase II(RPB2).This analysis includes 341 sequences(166 newly generated)and 180 specimens representing about 114 species.The genera Lecanactis,Roccellina,Schismatomma and Sigridea were found to be paraphyletic/polyphyletic.In order to make these groups monophyletic,the new genera Crocellina,Diromma,Gyrographa,Gyronactis,Ocellomma,Pseudoschismatomma,Psoronactis and Vigneronia are described.The genus Sagenidium is placed in synonymy with Lecanactis.The new species Enterographa incognita,Gyronactis asiatica and Lecanactis submollis are described.Several species of Opegrapha are transferred to the Roccellaceae.Sorediate morphs are recorded for the first time in the genus Syncesia.展开更多
Rapid radiations in Fungi are only beginning to be studied with phylogenomic data.The evolutionary history of the lichenized fungal order Peltigerales has not been well resolved,particularly for the Collematineae.Here...Rapid radiations in Fungi are only beginning to be studied with phylogenomic data.The evolutionary history of the lichenized fungal order Peltigerales has not been well resolved,particularly for the Collematineae.Here,we used concatenation and coalescent-based species tree methods to reconstruct the phylogeny of the Peltigerales based on sequences of 125 nuclear single-copy exon sequences among 60 samples,representing 58 species.Despite uneven,lineage-specific missing data and significant topological incongruence of individual exon trees,the resulting phylogenies were concordant and successfully resolved the phylogenetic relationships of the Peltigerales.Relationships in the Collematineae were defined by short branches and lower nodal support than in other parts of the tree,due in part to conflicting signal in exon trees,suggesting rapid diversification events in the early evolution of the suborder.Using tree distance measures,we were able to identify a minimum subset of exons that could reconstruct phylogenetic relationships in Peltigerales with higher support than the 125-exon dataset.Comparisons between the minimum and complete datasets in species tree inferences,bipartition analyses,and divergence time estimations displayed similar results,although the minimum dataset was characterized by higher levels of error in estimations of divergence times.Contrasting our inferences from the complete and minimum datasets to those derived from few nuclear and mitochondrial loci reveal that our topology is concordant with topologies reconstructed using the nuclear large subunit and mitochondrial small subunit ribosomal DNA markers,but the target capture datasets had much higher support values.We demonstrated how target capture approaches can effectively decipher ancient rapid radiations in cases where well resolved individual exon trees are sufficiently sampled and how to identify subsets of loci that are appropriate for fungal order-level phylogenetics.展开更多
基金supported by CAMS Innovation Fund for Medical Sciences(Grant no.2021-I2M-1-055)National Microbial Resource Center(Grant no.NMRC-2023-3).
文摘Lichens,as dual organisms comprising a major mycobiont and a major photobiont,exhibit remarkable survival capabilities in extreme conditions,such as those found in Antarctica.Despite their adaptability,the diversity and distribution of lichen photobionts in the ice-free areas of maritime Antarctica remain less understood compared to their mycobiont counterparts.In our study,we investigated the diversity of both lichen mycobionts and photobionts in 56 samples collected from the Fildes Region on King George Island,maritime Antarctica.Through sequencing of the nuclear ribosomal internal transcribed spacer regions and subsequent phylogenetic analysis,we examined the relationships and association patterns between mycobionts and photobionts.Our findings revealed 19 taxa of lichen mycobionts across 13 families and seven orders,along with nine photobiont species within the class Trebouxiophyceae.These photobionts encompassed six Trebouxia species,one Asterochloris species,one Chloroidium species,and one Stichococcus species.In particular,a new Trebouxia lineage(Trebouxia sp.OTU D08)and a new Chloroidium lineage were found.The analysis indicated that many mycobionts could be associated with multiple photobiont species,a pattern also observed among the photobionts.These results contribute significantly to our understanding of the complex diversity of lichen mycobionts and photobionts in the ice-free areas of maritime Antarctica.
文摘Lichen biota of Pathanamthitta district of Kerala state was thoroughly studied which resulted in 24 lichen species as new to Kerala and one species,Phaeographis nylanderi(Vain.)Zahlbr.as new to India.All the species identified are either crustose or foliose forms belonging to families Graphidaceae and Caliciaceae indicating the dominance of these groups in the study area.List of all the 25 species are provided along with their distribution.
基金support and facilities for conducting surveyScience and Engineering Board(SERB),New Delhi for financial assistance under project no.EMR/2016/006604 to SN and NPDF Fellowship no.PDF/2016/002054 to SJ.The author(SJ)is also thankful to DST,New Delhi for the financial assistance under INSPIRE Faculty scheme(IFA18-LSPA 124).(Manuscript number:CSIR-NBRI_MS/2020/05/11).
文摘In our continuous effort to explore the lichens in new and interesting areas FEEDS campus and SBG garden located in Manipur,a north-eastern state of India are surveyed.The study resulted in 47 species in FEEDS campus and 80 species in SB garden respectively,while both areas shared 22 species in common.The crustose lichens were more dominant in the area represented by Graphidaceae(16 spp.)and Pyrenulaceae(15 spp.).The species composition in both the sites represented photophilic communities such as graphidaceous,physcioid and parmelioid lichens.FEEDS campus had open areas with cultivated plants where as SBG garden had semi-evergreen forest at its initial stage of succession.The study also added 55 lichen species as new distributional records to Manipur.
基金The authors are thankful to the Director of CSIR-NBRI for providing laboratory facilities and to the Principal of Kamaraj College of Engineering and Technology,Head of Biotechnology Department and members of the organizing committee for the LBB2017 workshop.One of the authors(SJ)is thankful to DST,New Delhi for the financial assistance under INSPIRE Faculty scheme(IFA18-LSPA 124)The authors are also grateful to Sirumalai Reserve Forest authorities for their permission to study the lichens of the area.(CSIR-NBRI manuscript numberCSIR-NBRI_MS/2019/12/04).
文摘Lichens of Sirumalai hills are reported here for the first time.Lichen biota comprised of 95 species.The genus Japewiella is reported for the first time in India and is represented by J.tavaresiana(H.Magn.)Printzen.Furthermore,the following six taxa including one variety are new to India viz.Arthonia atra(Pers.)A.Schneid.,Graphis brevicarpa M.Nakan.,Kashiw.&K.H.Moon,Micarea erratica(Körb.)Hertel,Rambold&Pietschm.,Pertusaria cicatricosa var.deficiens A.W.Archer,Elix&Streimam,Porina subargillacea Müll Arg.,and Pyxine schmidtii Vain.Brief accounts for all the new records to India are provided to facilitate their identification.Arthonia redingeri Grube and Lepraria caesiella R.C.Harris are reported for the first time from south India.Besides all above,29 species are recorded for the first time from the state of Tamil Nadu.The lichen biota of the area is primarily corticolous in habitats and dominated by crustose form.
基金financially supported by the Spanish Ministerio de Ciencia,Innovacion y Universidades(CGL2013-42498-P)the Swedish Research Council(VR 2016-03589)the Negaunee Foundation(‘The greatest radiation in the fungal kingdom’).
文摘Phylogenomic datasets continue to enhance our understanding of evolutionary relationships in many lineages of organisms.However,genome-scale data have not been widely implemented in reconstructing relationships in lichenized fungi.Here we generate a data set comprised of 2556 single-copy protein-coding genes to reconstruct previously unresolved rela-tionships in the most diverse family of lichen-forming fungi,Parmeliaceae.Our sampling included 51 taxa,mainly from the subfamily Parmelioideae,and represented six of the seven previously identified major clades within the family.Our results provided strong support for the monophyly of each of these major clades and most backbone relationships in the topology were recovered with high nodal support based on concatenated dataset and species tree analyses.The alectorioid clade was strongly supported as sister-group to all remaining clades,which were divided into two major sister-groups.In the first major clade the anzioid and usneoid clades formed a strongly supported sister-group relationship with the cetrarioid?hypogymnioid group.The sister-group relationship of Evernia with the cetrarioid clade was also strongly supported,whereas that between the anzioid and usneoid clades needs further investigation.In the second major clade Oropogon and Platismatia were sister to the parmelioid group,while the position of Omphalora was not fully resolved.This study demonstrates the power of genome-scale data sets to resolve long-standing,ambiguous phylogenetic rela-tionships of lichen-forming fungi.Furthermore,the topology inferred in this study will provide a valuable framework for better understanding diversification in the most diverse lineage of lichen-forming fungi,Parmeliaceae.
基金The project was financially supported by the Spanish Ministerio de Ciencia e Innovacion(CGL2013-42498-P)the Negaunee Foundation(‘The greatest radiation in the fungal kingdom’)GS was supported by a fellowship from the German Academic Exchange Service(DAAD)and EK by a visiting scholarship from The Field Museum.
文摘Although classification at supra-specific ranks is inherently arbitrary,comparable taxonomic ranks within clades can facilitate more consistent classifications and objective comparisons among taxa.Different circumscriptions of the hyper-diverse lichen-forming fungal family Parmeliaceae and widely different generic circumscriptions among authors have been proposed.For this study,we use a recently developed temporal approach that uses timecalibrated chronograms to identify temporal bands for specific ranks in Parmeliaceae and allied groups with the overarching goal of establishing a consistent,stable classification.A data set of 330 species,representing 73 genera in the family and 52 species of related families was used to address the circumscription of Parmeliaceae and its genera following the proposed temporal approach.Based on the results of this study,we propose a revised,temporal-based classification for Parmeliaceae,including all clades that share a common ancestor 102.13–112.88 Ma for families and a time window of 29.45–32.55 Ma for genera.Fortyfive of the currently accepted genera in Parmeliaceae were supported in their current circumscription.Two subfamilies are accepted within Parmeliaceae:Protoparmelioideae Divakar et al.subfam.nov.,including Protoparmelia and the resurrected genus Maronina,and Parmelioideae,including the bulk of genera in the family.The new genus Austromelanelixia Divakar et al.is proposed to accommodate a clade of southern Hemisphere species previously included in Melanelixia.Eumitria and tentatively Dolichousnea are resurrected as genera separate from Usnea.The following genera are reduced to synonymy:Allocetraria,Cetrariella,Usnocetraria,and Vulpicida with Cetraria;Arctocetraria,Cetreliopsis,Flavocetraria,Kaernefeltia,Masonhalea,Tuckermanella,and Tuckermannopsis with Nephromopsis;and the lichenicolous genera Nesolechia and Raesaenenia with the lichen-forming genera Punctelia and Protousnea,respectively.A total of 47 new combinations and three new names at the species level are proposed.
基金Grants 148/2012,144/2013 and 71/2015“Lichinomycetes i Sverige”from the Swedish Taxonomy Initiative(Svenska artprojektet)administered by the Swedish Species Information Center(ArtDatabanken)Grant 2016-03589 from the Swedish Research Council(VR).
文摘Here,we show that Lichinodium(Lichinaceae,Lichinomycetes,Ascomycota)constitutes a formerly unrecognized lineage within the Leotiomycetes,thus being the first lichenized lineage recognized in the superclass Sordariomyceta(Leotiomycetes,Laboulbeniomycetes and Sordariomycetes).To infer the position of Lichinodium,we constructed two multilocus phylogenies based on six and five gene regions(nuLSU rDNA,nuSSU rDNA,mtSSU rDNA,RPB1,RPB2 and MCM7)including main Pezizomycotina groups in the first analysis and focusing secondly on a comprehensive selection of Sordariomyceta.The results show that Lichinodium is sister to Leotiaceae.We discuss the morphological and ecological similarities between Lichinodium and other Leotiomycetes,and describe the new order Lichinodiales and family Lichinodiaceae.The sister relationship between Sordariomycetes and Laboulbeniomycetes is here supported as it is the relationship between this clade and the Leotiomycetes.The results also support the polyphyly of Helotiales,the recognition of the Leotiales in a strict sense or the inclusion of the Triblidiales in Leotiomycetes.The photobionts of Lichinodium were sequenced for two genetic markers(rbcLX and 16S rDNA)and identified as Rhizonema,a recently described genus of filamentous cyanobacteria belonging to Nostocaceae.TEM studies revealed that the mycobiont-cyanobiont interface in Lichinodium does not produce haustoria,thus differing from a typical Lichinomycete(e.g.Ephebe).
基金This study was funded by grants to Martin Westberg by The Swedish Taxonomy Initiative(Svenska Artprojektet,administered by the Swedish Species Information Centre/ArtDatabanken)and was further supported by grants to Mats Wedin from the Swedish Research Council(VR 621-2009-5372,VR 621-2012-3990).The work of Kerry Knudsen was financially supported by the grant "Environmental aspects of sustainable development of society"42900/1312/3166 from the Faculty of Environmental Sciences,Czech University of Life Sciences Prague.We are grateful to the staff at the Molecular Systematics Laboratory at the Swedish Museum of Natural History for laboratory assistance,in particular Jan Ohlson and Bodil Cronholm.Valerie Reeb kindly shared unpublished details from on her work on Acarosporaceae.The first author would finally like to thank Ulf Arup(LD),Philippe Clerc(G),Leif Tibell(UPS),Toni Berglund(Karlskoga)and members of the Swedish Lichen Society for assistance during field work.
文摘The phylogeny of the Acarosporaceae(Lecanoromycetes,Acarosporomycetidae,Acarosporales)is investigated using data from three molecular markers;nuclear ITS-LSU rDNA,mitochondrial SSU andβ-tubulin.Acarosporaceae is shown to be constituted by six main clades;Myriospora,Timdalia,Pleopsidium,a clade composed by BAcarospora^rhizobola and BA.^terricola,the poorly supported Sarcogyne clade(including several Polysporina and Acarospora species)and the Acarospora clade(including the type of Polysporina,P.simplex,and several other Polysporina species).The common ancestor of the Acarosporaceae did not produce strongly black pigmented(carbonized or melanized)ascomata,but this trait has arisen secondarily and independently numerous times in the evolution of the group.The number of changes in character states of both carbonized epihymenium and carbonized exciple are considerably more than the minimum number.The genera Sarcogyne and Polysporina—largely circumscribed based on the presence of black pigmented ascomata—are shown to be distinctly non-monophyletic.The presence of green algae in the ascoma margin(lecanorine or lecideine ascomata)may vary even within single species.
基金supported by the National Natural Science Foundation of China(31170187,31570017)supported by grant CTM2012-38222-C02-02 from the Spanish Ministry of Economy and Competitiveness.
文摘Abstract The phylogenetic relationship of lecanoroid lichens is studied using two data sets:1)a 2-locus data set including 251 OTUs representing 150 species,and 2)a 6-locus data set with 82 OTUs representing 53 species.The genus Lecanora as currently circumscribed is shown to be highly polyphyletic and several genera,including Adelolecia,Arctopeltis,Bryonora,Carbonea,Frutidella,Lecidella,Miriquidica,Palicella,Protoparmeliopsis,Pyrrhospora,and Rhizoplaca are nested within Lecanora sensu lato.A core group of Lecanora is supported as monophyletic and includes species of the L.carpinea,L.rupicola,and L.subcarnea groups,and a core group of the L.subfusca group.Three monophyletic clades that are well supported in our analyses and well characterized by phenotypical characters are accepted here:1)Myriolecis to accommodate the Lecanora dispersa group and Arctopeltis;2)Protoparmeliopsis for the L.muralis group;and 3)Rhizoplaca is emended to include three placodioid taxa previously classified in Lecanora(L.novomexicana.L.opiniconensis,L.phaedrophthalma),whereas R.aspidophora and R.peltata are excluded from Rhizoplaca.The latter is transferred into Protoparmeliopsis.Lecidella is strongly supported as a monophyletic group.Our studies indicate the presence of additional clades of species currently placed in Lecanora sensu lato that warrant taxonomic recognition but additional data will be necessary before the circumscription of these entities is fully understood.37 new combinations are proposed into the genera Myriolecis(30),Protoparmeliopsis(2),and Rhizoplaca(5).
文摘A two-locus phylogenetic hypothesis of the family Roccellaceae is presented based on data from the nuclear ribosomal large subunit(nucLSU)and the second largest subunit of RNA polymerase II(RPB2).This analysis includes 341 sequences(166 newly generated)and 180 specimens representing about 114 species.The genera Lecanactis,Roccellina,Schismatomma and Sigridea were found to be paraphyletic/polyphyletic.In order to make these groups monophyletic,the new genera Crocellina,Diromma,Gyrographa,Gyronactis,Ocellomma,Pseudoschismatomma,Psoronactis and Vigneronia are described.The genus Sagenidium is placed in synonymy with Lecanactis.The new species Enterographa incognita,Gyronactis asiatica and Lecanactis submollis are described.Several species of Opegrapha are transferred to the Roccellaceae.Sorediate morphs are recorded for the first time in the genus Syncesia.
文摘Rapid radiations in Fungi are only beginning to be studied with phylogenomic data.The evolutionary history of the lichenized fungal order Peltigerales has not been well resolved,particularly for the Collematineae.Here,we used concatenation and coalescent-based species tree methods to reconstruct the phylogeny of the Peltigerales based on sequences of 125 nuclear single-copy exon sequences among 60 samples,representing 58 species.Despite uneven,lineage-specific missing data and significant topological incongruence of individual exon trees,the resulting phylogenies were concordant and successfully resolved the phylogenetic relationships of the Peltigerales.Relationships in the Collematineae were defined by short branches and lower nodal support than in other parts of the tree,due in part to conflicting signal in exon trees,suggesting rapid diversification events in the early evolution of the suborder.Using tree distance measures,we were able to identify a minimum subset of exons that could reconstruct phylogenetic relationships in Peltigerales with higher support than the 125-exon dataset.Comparisons between the minimum and complete datasets in species tree inferences,bipartition analyses,and divergence time estimations displayed similar results,although the minimum dataset was characterized by higher levels of error in estimations of divergence times.Contrasting our inferences from the complete and minimum datasets to those derived from few nuclear and mitochondrial loci reveal that our topology is concordant with topologies reconstructed using the nuclear large subunit and mitochondrial small subunit ribosomal DNA markers,but the target capture datasets had much higher support values.We demonstrated how target capture approaches can effectively decipher ancient rapid radiations in cases where well resolved individual exon trees are sufficiently sampled and how to identify subsets of loci that are appropriate for fungal order-level phylogenetics.
