Molecular phylogenetics and taxonomy of the Calvitimela aglaea complex (Tephromelataceae, Lecanorales)

Literature cited

• ArupUSøchtingUFrödénP. 2013. A new taxonomy of the family Teloschistaceae. Nord J Bot 31:16–83, doi:10.1111/j.1756-1051.2013.00062.x
   Web of Science ®Google Scholar
• BendiksbyMTimdalE. 2013. Molecular phylogenetics and taxonomy of Hypocenomyce sensu lato (Ascomycota, Lecanoromycetes)—extreme polyphyly and morphological/ecological convergence. Taxon 62:940–956, doi:10.12705/625.18
   Web of Science ®Google Scholar
• BrodoIM. 2009. Calvitimela talayana (Ascomycotina, Lecanorales), an interesting disjunction in North America. Opusc Philolichenum 7:1–6.
   Google Scholar
• ChoisyM. 1929. Genres nouveaux pour la lichénologie dans le groupe des Lecanoracées. Bull Soc bot Fr 76:521–527.
   Google Scholar
• CoppinsBJ. 1983. A taxonomic study of the lichen genus Micarea in Europe. Bull Br Mus (Natural History) 11:17–214.
   Google Scholar
• CrespoALumbschHT. 2010. Cryptic species in lichen-forming fungi. IMA Fungus 1:167–170.
   PubMed Web of Science ®Google Scholar
• CrespoALumbschHTMattssonJEBlancoODivakarPKArticusKWiklundEBawinganPAWedinM. 2007. Testing morphology-based hypotheses of phylogenetic relationships in Parmeliaceae (Ascomycota) using three ribosomal markers and the nuclear RPB1 gene. Mol Phylogenet Evol 44:812–824, doi:10.1016/j.ympev.2006.11.029
   PubMed Web of Science ®Google Scholar
• CulbersonCF. 1972. Improved conditions and new data for the identification of lichen products by a standardized thin-layer chromatographic method. J Chromatogr 72:113–125, doi:10.1016/0021-9673(72)80013-X
   PubMed Web of Science ®Google Scholar
• CulbersonCFJohnsonA. 1982. Substitution of methyl tert.-butyl ether for diethyl ether in the standardized thin-layer chromatographic method for lichen products. J Chromatogr 238:483–487, doi:10.1016/S0021-9673(00)81336-9
   Web of Science ®Google Scholar
• DillmanKDAhtiTBjörkCRClercPEkmanSGowardTHafellnerJPérez-OrtegaSPrintzenCSavicSSchultzMSvenssonMThorGTønsbergTVitikainenOWestbergMSpribilleT. 2012. New records, range extensions and nomenclatural innovations for lichens and lichenicolous fungi from Alaska, USA. Herzogia 25:177–210, doi:10.13158/heia.25.2.2010.177
   Google Scholar
• EkmanSAndersenHLWedinM. 2008. The limitations of ancestral state reconstruction and the evolution of the ascus in the Lecanorales (Lichenized Ascomycota). Syst Biol 57:141–156, doi:10.1080/10635150801910451
   PubMed Web of Science ®Google Scholar
• FerencovaZCubasPDivakarPKMolinaMCCrespoA. 2014. Notoparmelia, a new genus of Parmeliaceae (Ascomycota) based on overlooked reproductive anatomical features, phylogeny and distribution pattern. Lichenologist 46:51–67, doi:10.1017/S0024282913000649
   Google Scholar
• FriesTM. 1874. Lichenographia scandinavica 1, 2. Uppsala.
   Google Scholar
• FrydayAM. 2011. New species and combinations in Calvitimela and Tephromela from the southern subpolar region. Lichenologist 43:225–239, doi:10.1017/S0024282911000065
   Google Scholar
• FrydayAMPrintzenCEkmanS. 2014. Bryobilimbia, a new generic name for Lecidea hypnorum and closely related species. Lichenologist 46:25–37, doi:10.1017/S0024282913000625
   Google Scholar
• GoloboffP. 1999. NONA (ver. 1.9). Software published by the author, San Miguel de Tucumán, Argentina. http://www.cladistics.com
   Google Scholar
• GrubeMBalochEArupU. 2004. A phylogenetic study of the Lecanora rupicola group (Lecanoraceae, Ascomycota). Mycol Res 108:506–514, doi:10.1017/S0953756204009888
   Google Scholar
• HafellnerJ, 1984. Studien in Richtung einer natürlicheren Gliederung der Sammelfamilien Lecanoraceae und Lecideaceae. Nova Hedwig Beih 79:241–371.
   Google Scholar
• HafellnerJTürkR. 2001. Die lichenisierten Pilze Österreichs— eine Checkliste der bisher nachgewiesenen Arten mit Verbreitungsangaben. Stapfia 76:3–167.
   Google Scholar
• HallTA. 1999. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symp Ser 41:95–98, doi:10.1021/bk-1999-0734.ch008
   Google Scholar
• HauganRTimdalE. 1994. Tephromela perlata and T. talayana, with notes on the T. aglaea-complex. Graph Scr 6:17–26.
   Google Scholar
• HertelH. 1967. Revision einiger calciphiler Formenkreise der Flechtengattung Lecidea. Nova Hedwig Beih 24:1–155.
   Google Scholar
• HertelH. 1969. Die Flechtengattung Trapelia Choisy. Herzogia 1:111–130.
   Google Scholar
• HertelHLeuckertC. 1969. Über Flechtenstoffe und Systematik einiger Arten der Gattungen Lecidea, Placopsis und Trapelia mit C+ rot reagierendem Thallus. Willdenowia 5:369–383.
   Google Scholar
• HertelHRamboldG. 1985. Lecidea sect. Armeniacae: lecideoide Arten der Flechtengattungen Lecanora und Tephromela (Lecanorales). Botanische Jahrbücher fur Systematik, Pflanzengeschichte und Pflanzengeographie 107:469–501.
   Google Scholar
• HuelsenbeckJPRonquistF. 2001. MrBayes: bayesian inference of phylogenetic trees.
   Google Scholar
• JørgensenPMNordinA. 2009. Lichens in Scandinavia known mainly from Norwegian type specimens. Graph Scr 21:1–20.
   Google Scholar
• KalbKStaigerBElixJALangeULumbschHT. 2008. A new circumscription of the genus Ramboldia (Lecanoraceae, Ascomycota) based on morphological and molecular evidence. Nova Hedwigia 86:23–42, doi:10.1127/0029-5035/2008/0086-0023
   Google Scholar
• LanfearRCalcottBHoSYWGuindonS. 2012. Partition-Finder: combined selection of partitioning schemes and substitution models for phylogenetic analyses. Mol Biol Evol 29:1695–1701, doi:10.1093/molbev/mss020
   PubMed Web of Science ®Google Scholar
• LeavittSDEsslingerTLDivakarPKLumbschHT. 2012. Miocene divergence, phenotypically cryptic lineages and contrasting distribution patterns in common lichen-forming fungi (Ascomycota: Parmeliaceae). Biol J Linn Soc 107:920–937, doi:10.1111/j.1095-8312.2012.01978.x
   Google Scholar
• LückingRDal-FornoMSikaroodiMGillevetPMBungartzFMoncadaBYánez-AyabacaALuis ChavesJFernando CocaLLawreyJD. 2014. A single macrolichen constitutes hundreds of unrecognized species. Proc Nat Acad Sci USA 111:11091–11096, doi:10.1073/pnas.1403517111
   Web of Science ®Google Scholar
• LumbshHTAhtiTAltermannSAmoDePazGAptrootAArupUBárcenas PeñaABawinganPABenattiMNBetancourtLBjörkCRBoonpragobKBrandMBungartzFCáceresMESCandanMChavesJLClercPCommonRCoppinsBJCrespoADal-FornoMDivakarPKDuyaMVElixJAElvebakkAFankhauserJDFarkasEItatí FerraroLFischerEGallowayDJGayaEGiraltMGowardTGrubeMHafellnerJHernándezMHerreraJECamposMAKalbKKärnefeltIKantvilasGKillmannDKirikaPKnudsenKKomposchHKondratyukSLawreyJDMangoldAMarcelliMPMccuneBInes MessutiMMichligAMiran da GonzálezRNaikatiniANelsenMPØvstedalDOPaliceZPapongKParnmenSPérez-OrtegaSPrintzenCRicoVJRivas PlataERobayoJRosabalDRuprechtUSalazar AllenNSanchoLSantosDeJesusLSantos VieiraTSchultzMSeawardMRDSérusiauxESchmittISipmanHJMSohrabiMSøchtingUZeuthen SøgaardMSparriusLBSpielmannASpribilleTSutjaritturakanJThammathawornAThellAThorGThüsHTimdalETruongCTürkRUmaña TenorioLUpretiDKVan Den BoomPVivas RebueltaMWedinMWill-WolfSWirthVWirtzNYahrRYeshitelaKZiemmeckFWheelerTLückingR. 2011. One hundred new species of lichenized fungi: a signature of undiscovered global diversity. Phytotaxa 18:1–127.
   Google Scholar
• LumbeshHTLeavittSD. 2011. Goodbye morphology? A paradigm shift in the delimitation of species in lichenized fungi. Fungal Divers 50:59–72, doi:10.1007/s13225-011-0123-z
   Google Scholar
• MagnussonAH. 1931. Studien über einige Arten der Lecidea armeniaca- und elata-Gruppe. Acta Horti Gothoburg 6:93–144.
   Google Scholar
• MenloveJE. 1974. Thin-layer chromatography for the identification of lichen substances. Bull Br Lichen Soc 34:3–5.
   Google Scholar
• MiądłikowskaJKauffFHofstetterVFrakerEGrubeMHafellnerJReebVHodkinsonBPKukwaMLückingRHestmarkGOtaloraMGRauhutABüdelBScheideggerCTimdalEStenroosSBrodoIPerlmutterGBErtzDDiederichPLendemerJCMayPSchochCLArnoldAEGueidanCTrippEYahrRRobertsonCLutzoniF. 2006. New insights into classification and evolution of the Lecanoromycetes (Pezizomycotina, Ascomycota) from phylogenetic analyses of three ribosomal RNA- and two protein-coding genes. Mycologia 98:1088–1103, doi:10.3852/mycologia.98.6.1088
   PubMed Web of Science ®Google Scholar
• MiądłikowskaJKauffFHögnabbaFOliverJCMolnárKFrakerEGayaEHafellnerJHofstetterVGueidanCOtáloraMAHodkinsonBKukwaMLückingRBjörkCSipmanHJ0BurgazARThellAPassoAMyllysLGowardTFernández-BrimeSHestmarkGLendemerJLumbschHTSchmullMSchochCLSérusiauxEMaddisonDR0ArnoldAELutzoniFStenroosS. 2014. A multigene phylogenetic synthesis for the class Lecanoromycetes (Ascomycota): 1307 fungi representing 1139 infrageneric taxa, 317 genera and 66 families. Mol Phylogenet Evol 79:132–168, doi:10.1016/j.ympev.2014.04.003
   PubMed Web of Science ®Google Scholar
• MolinaMCCrespoABlancoOLumbschHTHawksworthDL. 2004. Phylogenetic relationships and species concepts in Parmelia s. str. (Parmeliaceae) inferred from nuclear ITS rDNA and β-tubulin sequences. Lichenologist 36:37–54, doi:10.1017/S0024282904013933
   Google Scholar
• MuggiaLGrubeMTretiachM. 2008. Genetic diversity and photobiont associations in selected taxa of the Tephromela atra group (Lecanorales, lichenized Ascomycota). Mycol Prog 7:147–160, doi:10.1007/s11557-008-0560-6
   Web of Science ®Google Scholar
• MuggiaLPérez-OrtegaSFrydayASpribilleTGrubeM. 2014. Global assessment of genetic variation and phenotypic plasticity in the lichen-forming species Tephromela atra. Fungal Divers 64:233–251, doi:10.1007/s13225-013-0271-4
   Web of Science ®Google Scholar
• NixonKC. 1999. WINCLADA (Beta) 0.9.9. Ithaca, New York: Software published by the author. http://www.cladistics.com
   Google Scholar
• ReslPSchneiderKWestbergMPrintzenCPaliceZThorGFrydayAMayrhoferHSpribilleT. 2015. Diagnostics for a troubled backbone: testing topological hypotheses of trapelioid fungi in a large-scale phylogeny of Ostropomycetidae (Lecanoromycetes). Fungal Divers 73: 239–258, doi:10.1007/s13225-015-0332-y
   PubMed Web of Science ®Google Scholar
• Rivas PlataELückingRLumbschHT. 2012. Molecular phylogeny and systematics of the Ocellularia clade (Ascomycota: Ostropales: Graphidaceae). Taxon 61:1161–1179.
   Web of Science ®Google Scholar
• RonquistFHuelsenbeckJP. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19:1572–1574, doi:10.1093/bioinformatics/btg180
   PubMed Web of Science ®Google Scholar
• SpribilleTGoffinetBKlugBMuggiaLObermayerWMayrhoferH. 2011a. Molecular support for the recognition of the Mycoblastus fucatus group as the new genus Violella (Tephromelataceae, Lecanorales). Lichenologist 43:445–466, doi:10.1017/S0024282911000478
   Google Scholar
• SpribilleTKlugBMayrhoferH. 2011b. A phylogenetic analysis of the boreal lichen Mycoblastus sanguinarius (Mycoblastaceae, lichenized Ascomycota) reveals cryptic clades correlated with fatty acid profiles. Mol Phylogenet Evol 59:603–614, doi:10.1016/j.ympev.2011.03.021
   Web of Science ®Google Scholar
• SpribilleTPérez-OrtegaSTønsbergTSchirokauerD. 2010. Lichens and lichenicolous fungi of the Klondike Gold Rush National Historic Park, Alaska, in a global biodiversity context. Bryologist 113:439–515, doi:10.1639/0007-2745-113.3.439
   Web of Science ®Google Scholar
• StamatakisA. 2006. RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22:2688–2690, doi:10.1093/bioinformatics/btl446
   PubMed Web of Science ®Google Scholar
• SteinovaJStenroosSGrubeMŠkaloudP. 2013. Genetic diversity and species delimitation of the zeorin-containing red-fruited Cladonia species (lichenized Ascomycota) assessed with ITS rDNA and beta-tubulin data. Lichenologist 45:665–684, doi:10.1017/S0024282913000297
   Google Scholar
• StenroosSHuhtinenSLesonenAPaliceZPrintzenC. 2009. Puttea, gen. nov., erected for the enigmatic lichen Lecidea margaritella. Bryologist 112:544–557, doi:10.1639/0007-2745-112.3.544
   Google Scholar
• TruongCDivakarPKYahrRCrespoAClercP. 2013. Testing the use of ITS rDNA and protein-coding genes in the generic and species delimitation of the lichen genus Usnea (Parmeliaceae, Ascomycota). Mol Phylogenet Evol 68:357–372, doi:10.1016/j.ympev.2013.04.005
   PubMed Web of Science ®Google Scholar
• UrbanavichusG. 2010. Spisok likhenoflory Rossii (A checklist of the lichen flora of Russia). St Petersburg: Nauka. [In Russian with English abstract and introduction]
   Google Scholar
• VobisG. 1980. Bau und Entwicklung der Flechten-Pycnidien und ihrer Conidien. Bibl Lichenol 14:1–141.
   Google Scholar
• WhiteTJBrunsTLeeSTaylorJW. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: InnisMAGelfandDHSninskyJJWhiteTJ, eds. PCR protocols: a guide to methods and applications. New York: Academic Press. p 315–322.
   Google Scholar
• ZahlbrucknerA. 1924–1925. Catalogus Lichenum Universalis, Band III. Leipzig: Borntraeger.
   Google Scholar
• ZahlbrucknerA. 1938–1940. Catalogus Lichenum Universalis. Berlin: Ergänzungsband X. Borntraeger.
   Google Scholar
• ZollerSScheideggerCSperisenC. 1999. PCR primers for the amplification of mitochondrial small subunit ribosomal DNA of lichen-forming ascomycetes. Lichenologist 31:511–516, doi:10.1006/lich.1999.0220
   Web of Science ®Google Scholar