Phylogenetic reassessment of the Teloschistaceae (lichen-forming Ascomycota, Lecanoromycetes)

Mycological Research - Tập 112 - Trang 528-546 - 2008
Ester Gaya1,2, Pere Navarro-Rosinés2, Xavier Llimona2, Néstor Hladun2, François Lutzoni1
1Department of Biology, Duke University, Box 90338, Durham, NC 27708, USA
2Departament de Biologia Vegetal (Unitat Botànica), Universitat de Barcelona, Av. Diagonal 645, 08028 Barcelona, Spain

Tài liệu tham khảo

Alfaro, 2003, Bayes or bootstrap? A simulation study comparing the performance of bayesian markov chain monte carlo sampling and bootstrapping in assessing phylogenetic confidence, Molecular Biology and Evolution, 20, 255, 10.1093/molbev/msg028 Arup, 1992, Caloplaca marina and C. rosei, two difficult species in North America, Bryologist, 95, 148, 10.2307/3243428 Arup, 1994, The genus Caloplaca on seashore rocks in eastern North America, Bryologist, 97, 377, 10.2307/3243903 Arup, 1995, Eight species of Caloplaca in coastal western North America, Bryologist, 98, 92, 10.2307/3243645 Arup U, 1995b. Littoral species of the lichen genus Caloplaca in North America. PhD thesis, University of Lund. Arup, 1997, Caloplaca maritima, a misunderstood species in western Europe, Lichenologist, 29, 503, 10.1017/S0024282997000649 Arup, 2006, A new taxonomy of the Caloplaca citrina group in the Nordic countries, except Iceland, Lichenologist, 38, 1, 10.1017/S0024282905005402 Arup, 1999, Where does Lecanora demissa (Ascomycota, Lecanorales) belong?, Lichenologist, 31, 419, 10.1017/S0024282999000584 Bellemère, 1982, Le développement des asques et des ascospores chez le Caloplaca marina Wedd. et chez quelques lichens de la famille des Teloschistaceae (Caloplaca, Fulgensia, Xanthoria): étude ultrastructurale, Cryptogamie, Bryologie et Lichénologie, 3, 95 Breuss, 1989, Zur Unterscheidung von Caloplaca carphinea und C. scoriophila (Lichenes, Teloschistaceae), Linzer Biologische Beitrage, 21, 583 Breuss, 2001, Über Caloplaca canariensis (Lichenisierte Ascomyceten, Teloschistaceae), Österreichische Zeitschrift für Pilzkunde, 10, 83 Clauzade, 1985, Likenoj de Okcidenta Europo, Bulletin de la Société Botanique du Centre-Ouest, Nouvelle série - Numero Spécial, 7, 1 Dodge, 1948, Lichens and lichen parasites, Report of the British Australia New Zeland Antarctic Research Expeditio, Series B., 7, 1 Dodge, 1971, Some lichens of tropical Africa. V. Lecanoraceae to Physciaceae, Beihefte zur Nova Hedwigia, 38, 1 Dodge, 1938, The second byrd antarctic expedition-Botany. II. Lichens and Lichen parasites., Annals of the Missouri Botanical Garden[query author stl], 25, 515, 10.2307/2394232 Dyer, 2001, Variation in the ribosomal ITS-sequence of the lichens Buellia frigida and Xanthoria elegans from the Vestfold Hills, eastern Antarctica, Lichenologist, 33, 151, 10.1006/lich.2000.0306 Eriksson, 1999, Outline of Ascomycota — 1999, Myconet, 3, 1 Eriksson, 2005, Outline of Ascomycota — 2005, Myconet, 11, 1 Eriksson, 2006, Outline of Ascomycota — 2006, Myconet, 12, 1 Eriksson, 1986, Outline of the ascomycetes, Systema Ascomycetum, 5, 185 Eriksson, 1991, Notes on ascomycete systematics — Nos 1252–1293, Systema Ascomycetum, 10, 135 Eriksson, 2001, Outline of Ascomycota — 2001, Myconet, 7, 1 Eriksson, 2003, Outline of Ascomycota — 2003, Myconet, 9, 1 Eriksson, 2004, Outline of Ascomycota — 2004, Myconet, 10, 1 Felsenstein, 1981, A likelihood approach to character weighting and what it tells us about parsimony and compatibility, Biological Journal of the Linnean Society, 16, 183, 10.1111/j.1095-8312.1981.tb01847.x Felsenstein, 1985, Confidence limits on phylogenies: an approach using the bootstrap, Evolution, 39, 783, 10.2307/2408678 Fink, 1910, The lichens of Minnesota, Contributions from the United States National Herbarium, 14, 1 Franc, 1998, Phylogeny of Xanthoria calcicola and X. parietina, based on ITS sequences, Graphis Scripta, 9, 49 Fries T, 1871. Lichenographia Scandinavica sive dispositio lichenum in Dania, Suecia, Norvegia, Fennia, Lapponia Rossica hactus collectorum. Vol. I Archilichenes discocarpos continens. Pars. I. Uppsala. Frödén, 2004, Typification and emendation of Seirophora Poelt to include species segregated from Teloschistes Norman, Lichenologist, 36, 289, 10.1017/S002428290401432X Gardes, 1993, ITS primers with enhanced specificity for basidiomycetes. Application to the identification of mycorrhizae and rusts, Molecular Ecology, 2, 113, 10.1111/j.1365-294X.1993.tb00005.x Gaya, 2003, Phylogenetic study of Fulgensia and allied Caloplaca and Xanthoria species (Teloschistaceae, lichen-forming Ascomycota), American Journal of Botany, 90, 1095, 10.3732/ajb.90.7.1095 Gaya E, 2008. Taxonomical revision on the Caloplaca saxicola group (Teloschistaceae, lichen-forming Ascomycota). Bibliotheca Lichenologica, in press. Giralt, 1992, Studien über den Formenkreis von Caloplaca flavorubescens in Europa, Cryptogamie, Bryologie–Lichénologie, 13, 261 Grube, 2002, Progress in understanding the evolution and classification of lichenized ascomycetes, Mycologist, 16, 67, 10.1017/S0269915X02002069 Hafellner, 1981, Monographie der Flechtengattung Letrouitia (Lecanorales, Teloschistineae), Nova Hedwigia, 35, 645 Hafellner, 1984, Studien in Richtung einer natürlicheren Gliederung der Sammelfamilien Lecanoraceae und Lecideaceae, Beihefte zur Nova Hedwigia, 79, 241 Hafellner, 1988, Principles of classification and main taxonomic groups, 41 Hafellner, 1981, Elektronenoptische Untersuchungen an Arten der Flechtengattung Letrouitia gen. nov, Nova Hedwigia, 35, 263 Hafellner, 1981, Elektronenoptische Untersuchungen an Arten der Flechtengattung Bombyliospora und die taxonomischen Konsequenzen, Nova Hedwigia, 35, 207 Hafellner, 1994, Discussion 4: Lecanorales, 379 Hansen, 1987, Die Flechtengattung Caloplaca in Grönland, Meddelelser om Grönland. Bioscience, 25, 1 Hawksworth, 1986, The names of accepted orders of ascomycetes, Systema Ascomycetum, 5, 175 Hawksworth, 1995 Helms, 2003, Phylogenetic relationships of the Physciaceae inferred from rDNA sequence data and selected phenotypic characters, Mycologia, 95, 1078, 10.2307/3761914 Henssen, 1973 Hibbett, 2007, A higher-level phylogenetic classification of the Fungi, Mycological Research, 111, 509, 10.1016/j.mycres.2007.03.004 Honegger, 1978, The ascus apex in lichenized fungi I. The Lecanora-, Peltigera- and Teloschistes-types, Lichenologist, 10, 47, 10.1017/S0024282978000079 Huelsenbeck, 1997, Phylogeny estimation and hypothesis testing using maximum likelihood, Annual Review of Ecology and Systematics, 28, 437, 10.1146/annurev.ecolsys.28.1.437 Huelsenbeck, 2001, MrBayes: Bayesian inference of phylogenetic trees, Bioinformatics. Applications Note, 17, 754, 10.1093/bioinformatics/17.8.754 Kärnefelt, 1989, Morphology and phylogeny in the Teloschistales, Cryptogamic Botany, 1, 147 Kärnefelt, 1994, Caliciales, Graphidales, and Teloschistales, 393 Kasalicky, 2000, A comparison of ITS and LSU nrDNA phylogenies of Fulgensia (Teloschistaceae, Lecanorales), a genus of lichenised ascomycetes, Canadian Journal of Botany, 78, 1580, 10.1139/b00-126 Kauff, 2003 Khodosovtsev, 2004 Kirk, 2001 Kondratyuk, 1997, Two new Asian Xanthoria species (Teloschistaceae, lichenized Ascomycotina), Lichenologist, 29, 173, 10.1006/lich.1996.0069 Kondratyuk, 2002, New lichens and lichenicolous fungi from Israel and the near east, Ukranian Botanic Journal, 59, 598 Kondratyuk, 2003, Revision of three natural groups of xanthorioid lichens (Teloschistaceae, Ascomycota), Ukranian Botanic Journal, 60, 427 Lindblom, 1997, The genus Xanthoria (Fr.) Th. Fr. in North America, Journal of the Hattori Botanical Laboratory, 83, 75 Lindblom, 2005, Molecular evidence supports the distinction between Xanthoria parietina and X. aureola (Teloschistaceae, lichenized Ascomycota), Mycological Research, 109, 187, 10.1017/S0953756204001790 Llimona, 1975, Quelques lichens nouveau ou interessants de la Sierra de Gata (Almeria, SE de l'Espagne), Acta Phytotaxonomica Barcinonensia, 16, 1 Lumbsch, 2004, Supraordinal phylogenetic relationships of Lecanoromycetes based on a Bayesian analysis of combined nuclear and mitochondrial sequences, Molecular Phylogenetics and Evolution, 31, 822, 10.1016/j.ympev.2003.11.001 Lutzoni, 2000, Integrating ambiguously aligned regions of DNA sequences in phylogenetic analyses without violating positional homology, Systematic Biology, 49, 628, 10.1080/106351500750049743 Lutzoni, 2004, Assembling the fungal tree of life: progress, classification and evolution of subcellular traits, American Journal of Botany, 91, 1446, 10.3732/ajb.91.10.1446 Maddison, 2001 Magnusson, 1946, Lichens from Lycksele Lappmark and adjacent part of Norway, Arkiv för Botanik utgivet av. K. Svenska vetenskapsakademien, 33, 1 Malme, 1926, Lichenes blasteniospori Herbarii Regnelliani, Arkiv för Botanik utgivet av. K. Svenska vetenskapsakedemien, 20, 1 Massalongo, 1852, Synopsis lichenum blasteniosporum, Flora, 35, 561 Massalongo A, 1853. Monografia dei Licheni blasteniospori. Atti dell'I.R. Istituto Veneto di Scienze, Lettere ed Arti, III: 5–131. Mattick, 1951, Wuchs- und Lebensformen, Bestand- und Gesellschaftsbildung der Flechten, Botanischen Jahresvericht, 75, 378 Miadlikowska, 2003, New approach to an old problem: Incorporating signal from gap-rich regions of ITS and rDNA large subunit into phylogenetic analyses to resolve the Peltigera canina species complex, Mycologia, 95, 1181, 10.2307/3761919 Miadlikowska, 2004, Phylogenetic classification of peltigeralean fungi (Peltigerales, Ascomycota) based on ribosomal RNA small and large subunits, American Journal of Botany, 91, 449, 10.3732/ajb.91.3.449 Miadlikowska, 2007, 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, 10.3852/mycologia.98.6.1088 Muggia, 2008, A combined molecular and morphological approach to species delimitation in black-fruited, endolithic Caloplaca: high genetic and low morphological diversity, Mycological Research, 112, 36, 10.1016/j.mycres.2007.02.001 Murtagh, 2002, Molecular and physiological diversity in the bipolar lichen-forming fungus Xanthoria elegans, Mycological Research, 106, 1277, 10.1017/S0953756202006615 Navarro-Rosinés, 1996, Las especies saxícolo-calcícolas del grupo de Caloplaca lactea (Teloschistaceae, líquenes) en las regiones mediterránea y medioeuropea, Bulletin de la Société Linnéenne de Provence, 47, 139 Navarro-Rosinés, 2000, Caloplaca cancarixiticola, a new species from south-east Spain growing on ultrapotassic rocks, Lichenologist, 32, 129, 10.1006/lich.1999.0252 Nordin A, 1972. Caloplaca sect. Gasparrinia i Nordeuropa. Taxonomiska och Ekologiska Studier. Skriv Service AB, Uppsala. Oxner, 1993 Ozenda P, Clauzade G, 1970. Les Lichens. Etude Biologique et Flore Illustree. Masson & Cie, Paris. Peršoh, 2004, The distribution of ascus types and photobiontal selection in Lecanoromycetes (Ascomycota) against the background of a revised SSU nrDNA phylogeny, Mycological Progress, 3, 103, 10.1007/s11557-006-0081-0 Poelt, 1954, Die Gelappten arten der flechtengattung Caloplaca in Europa, Mitteilungen der Botanischen Staatssammlung München, 11, 11 Poelt, 1963, Flechtenflora und Eiszeit in Europa, Phyton, Annales Rei Botanicae, 10, 206 Poelt, 1965, Über einige Artengruppen der Flechtengattungen Caloplaca und Fulgensia, Mitteilungen der Botanischen Staatssammlung München, 5, 571 Poelt, 1969 Poelt, 1970, Das Konzept der Artenpaare bei den Flechten, Vorträge aus dem Gesamtgebiet der Botanik, N.F., 4, 187 Poelt, 1972, Die taxonomische Behandlung von Artenpaaren bei den Flechten, Botaniska Notiser, 125, 77 Poelt, 1974, Classification. Appendix A, 599 Poelt, 1977, Die Lagerstrukturen placodialer Kusten- und Inlandsflechten. Ein Beitrag zur ökologischen Anatomie der Flechten, 141 Poelt, 1977, Bestimmungsschlüssel europäischer Flechten. Ergänzungsheft I, Bibliotheca Lichenologica, 9, 1 Poelt, 1980, Apatoplaca - genus novum Teloschistacearum (Lichenes), Mitteilungen der Botanischen Staatssammlung München, 16, 503 Poelt, 1992, Xanthoria candelaria und ähnliche Arten in Europa, Herzogia, 9, 103, 10.1127/herzogia/9/1992/103 Poelt, 1992, Beiträge zur Kenntnis der Flechtenflora des Himalaya IV. Die Gattungen Xanthoria und Teloschistes zugleich Versuch einer Revision der Xanthoria candelaria-Gruppe, Nova Hedwigia, 54, 1 Poelt, 1993, Beiträge zur Kenntnis der Flechtenflora des Himalaya VII. Die Gattungen Caloplaca, Fulgensia und Ioplaca (mit englischem Bestimmungsschlüssel), Bibliotheca Lichenologica, 50, 1 Posada, 1998, Modeltest: testing the model of DNA substitution, Bioinformatics. Applications Note, 14, 817, 10.1093/bioinformatics/14.9.817 Rambold, 1992, The inter-lecanoralean associations, Bibliotheca Lichenologica, 48, 1 Rambold, 1991, Die grosssystematischen Einheiten der Ordnung Lecanorales (Ascomycetes) und ihre ökologischen Präferenzen, Mitteilungen der Botanischen Staatssammlung München, 30, 385 Räsänen, 1943, Das System der Flechten, Acta Botanica Fennica, 33, 1 Reeb, 2004, Contribution of RPB2 to multilocus phylogenetic studies of the euascomycetes (Pezizomycotina, Fungi) with special emphasis on the lichen-forming Acarosporaceae and evolution of polyspory, Molecular Phylogenetics and Evolution, 32, 1036, 10.1016/j.ympev.2004.04.012 Rudolph, 1955 Santesson, 1970, Neuere Probleme der Flechtenchemie., Vorträge aus dem Gesamtgebiet der Botanik, N.F., 4, 5 Santesson, 1970, Anthraquinones in Caloplaca, Phytochemistry, 9, 2149, 10.1016/S0031-9422(00)85380-7 Santesson R, 1984. The Lichens of Sweden and Norway. Swedish Museum of Natural History, Stockholm. Sipman, 2002, An inventory of the lichen flora of Kalimnos and parts of Kos (Dodecanisos, Greece), Willdenowia, 32, 351, 10.3372/wi.32.32216 Søchting, 1997, Two major anthraquinone chemosyndromes in Teloschistaceae, Bibliotheca Lichenologica, 68, 135 Søchting, 2001, Chemosyndromes with chlorinated anthraquinones in the lichen genus Caloplaca, Bibliotheca Lichenologica, 78, 395 Søchting, 2002, Phylogenetic position of the Caloplaca aurantia group, 231 Søchting, 2002, Chemosyndromes in the lichen genus Teloschistes (Teloschistaceae, Lecanorales), Mycological Progress, 1, 257, 10.1007/s11557-006-0023-x Søchting, 2002, Revision of Xanthomendoza (Teloschistaceae, Lecanorales) based on morphology, anatomy, secondary metabolites and molecular data, Mitteilungen aus dem Institut fü Allgemeine Botanik, Hamburg, 30-32, 225 Søchting, 2003, Molecular phylogenetic study at the generic boundary between the lichen-forming fungi Caloplaca and Xanthoria (Ascomycota, Teloschistaceae), Mycological Research, 107, 1266, 10.1017/S0953756203008529 Steiner, 1982, Caloplaca sect. Xanthoriella, sect. nov.: Untersuchungen über die Xanthoria lobulata-Gruppe, Plant Systematics and Evolution, 140, 151, 10.1007/BF02407295 Stenroos, 1998, SSU rDNA phylogeny of cladoniiform lichens, American Journal of Botany, 85, 1548, 10.2307/2446481 Swofford, 2002 Tamura, 1993, Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees, Molecular Biology and Evolution, 10, 512 Tehler, 1996, Systematics, phylogeny and classification, 217 Tornabene, 1849, Lichenographia Sicula. Catanae, Atti dell'Accademia Gioenia di Scienze Naturali di Catania, 2, 1 Verseghy, 1970, Hazai Gasparrinia fajok. I, Botanikar Kozlemények, 57, 23 Verseghy, 1971, Hazai Gasparrinia fajok. II. Rendszertani resz, Botanikar Kozlemények, 58, 21 Verseghy, 1972, Hazai Gasparrinia fajok. III. Rendszertani resz. (befejezes), Botanikar Kozlemények, 59, 13 Vilgalys, 1990, Rapid identification and mapping of enzymatically amplified ribosomal DNA from several Cryptococcus species, Journal of Bacteriology, 172, 4238, 10.1128/jb.172.8.4238-4246.1990 Wade, 1965, The genus Caloplaca Th. Fr. in the British Isles, Lichenologist, 3, 1, 10.1017/S0024282965000038 Weddell, 1876, Notice monographique sur les Amphiloma de la flore française, Bulletin de la Societé Botanique de France, 23, 83 Westberg, 1998, The genus Fulgensia A. Massal. & De Not., a diverse group in the Teloschistaceae, Lichenologist, 30, 515 Wetmore, 1994, The lichen genus Caloplaca in North and Central America with brown or black apothecia, Mycologia, 86, 813, 10.2307/3760596 Wetmore, 1998, The lobate and subfruticose species of Caloplaca in North and Central America, Bryologist, 101, 230, 10.1639/0007-2745(1998)101[230:TLASSO]2.0.CO;2 Wheeler, 1990, Combinatorial weights in phylogenetic analysis: a statistical parsimony procedure, Cladistics, 6, 269, 10.1111/j.1096-0031.1990.tb00543.x White, 1990, Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics, 315 Wiklund, 2003, The phylogenetic relationships of the cyanobacterial lichens in the Lecanorales suborder Peltigerineae, Cladistics, 19, 419, 10.1111/j.1096-0031.2003.tb00312.x Zahlbruckner A, 1898. Flechten (Lichenes). B. Spezieller Teil. In: Engler A (ed), Syllabus der Pflanzenfamilien 2. Berlin, p. 45. Zahlbruckner A, 1926. Lichenes (Flechten). B. Spezieller Teil. In: Engler A, Prantl K (eds), Die natürlichen Pflanzenfamilien 8, Aufl. 2, Engelmann, Leipzig, pp. 61–270. Zahlbruckner A, 1931. Catalogus Lichenum Universalis 7. Gebrüder Borntraeger, Leipzig. Zahlbruckner A, 1940. Catalogus Lichenum Universalis 10. Gebrüder Borntraeger, Leipzig.