Phylogeny of the cetrarioid core (Parmeliaceae) based on five genetic markers

Lichenologist

Volumn 41, Issue 5, 2009, Pages 489-511

  Thell, Arne ^a   Högnabba, Filip ^b   Elix, John A ^c   Feuerer, Tassilo ^d   Kärnefelt, Ingvar ^a   Myllys, Leena ^b   Randlane, Tiina ^e   Saag, Andres ^e   Stenroos, Soili ^b   Ahti, Teuvo ^b   Seaward, Mark R D ^f  

^a LUND UNIVERSITY   (Sweden)

^b UNIVERSITY OF HELSINKI   (Finland)

^c AUSTRALIAN NATIONAL UNIVERSITY   (Australia)

^d UNIVERSITY OF HAMBURG   (Germany)

^e UNIVERSITY OF TARTU   (Estonia)

^f UNIVERSITY OF BRADFORD   (United Kingdom)

Author keywords

Cetraria s. lat.; Conidial shape; DNA sequences; Lichen phylogeny; Taxonomy

Indexed keywords

AHTIANA; ALLOCETRARIA; ARCTOCETRARIA; CETRARIA; CETRARIELLA; CETRELIOPSIS; FLAVOCETRARIA; KAERNEFELTIA; MASONHALEA; MINUSCULA; NEPHROMOPSIS; PARMELIACEAE; TUCKERMANELLA; TUCKERMANNOPSIS; VULPICIDA;

EID: 70349304334     PISSN: 00242829     EISSN: 10961135     Source Type: Journal    
DOI: 10.1017/S0024282909990090     Document Type: Article

References (74)

1. Arup, U., Ekman, S., Grube, M., Mattsson, J.-E. & Wedin, M. (2007) The sister group relation of Parmeliaceae (Lecanorales, Ascomycota). Mycologia 99: 42-49. (Pubitemid 46953972)
2. Blanco, O., Crespo, A., Divakar, P. K., Elix, J. A., Hawksworth, D. L. & Lumbsch, H. T. (2004a) A molecular phylogeny and a new classification of parmelioid lichens containing Xanthoparmelia-type lichenan (Ascomycota: Lecanorales). Taxon 53: 959-975.
3. Blanco, O., Crespo, A., Divakar, P. K., Esslinger, T. L., Hawksworth, D. L. & Lumbsch, H. T. (2004b) Melanelixia and Melanohalea, two new genera segregated from Melanelia (Parmeliaceae) based on molecular data. Mycological Research 108: 873-884. (Pubitemid 39218800)
4. Blanco, O., Crespo, A., Divakar, P. K., Elix, J. A. & Lumbsch, H. T. (2005) Molecular phylogeny of parmotremoid lichens (Ascomycota, Parmeliaceae). Mycologia 97: 150-159. (Pubitemid 40722073)
5. Blanco, O., Crespo, A., Ree, R. H. & Lumbsch, H. T. (2006) Major clades of parmelioid lichens (Parmeliaceae, Ascomycota) and the evolution of their morphological and chemical diversity. Molecular Phylogenetics and Evolution 39: 52-69.
6. Crespo, A., Lumbsch, H. T., Mattsson, J.-E., Blanco, O., Divakar, P. K., Articus, K., Wiklund, E., Bawingan, P. A. & Wedin, M. (2007) Testing morphology-based hypotheses of phylogenetic relationships in Parmeliaceae (Ascomycota) using three ribosomal markers and the nuclear RPB1 gene. Molecular Phylogenetics and Evolution 44: 812-824. (Pubitemid 47053993)
7. Divakar, P. K., Crespo, A., Blanco, O. & Lumbsch, H. T. (2006) Phylogenetic significance of morphological characters in the tropical Hypotrachyna clade of parmelioid lichens (Parmeliaceae, Ascomycota). Molecular Phylogenetics and Evolution 40: 448-458. (Pubitemid 44038597)
8. Divakar, P. K., Molina, M. C., Lumbsch, H. T. & Crespo, A. (2005) Parmelia barrenoae, a new lichen species related to Parmelia sulcata (Parmeliaceae) based on molecular and morphological data. Lichenologist 37: 37-46. (Pubitemid 40199105)
9. Egan, R. S. (1987) A fifth checklist of the lichenforming, lichenicolous and allied fungi of the continental United States and Canada. Bryologist 90: 77-173.
10. Ekman, S. (2001) Molecular phylogeny of the Bacidiaceae (Lecanorales, lichenized Ascomycota). Mycological Research 105: 783-797. (Pubitemid 32778869)
11. Elix, J. A. (1993) Progress in the generic delimitation of Parmelia sensu lato lichens (Ascomycotina: Parmeliaceae). Bryologist 96: 359-383.
12. Elix, J. A., TÃ̧nsberg, T. & Wardlaw, J. H. (2004) The structure of friesiic acid, a novel lichen substance from Hypocenomyce friesii. Bibliotheca Lichenologica 88: 103-109.
13. Esslinger, T. L. (2003) Tuckermanella, a new cetrarioid genus in western North America. Mycotaxon 85: 135-141. (Pubitemid 36562278) (Pubitemid 36562278)
14. Gardes, M. & Bruns, T. D. (1993) ITS primers with enhanced specificity for basidiomycetes. Application to the identification mycorrhizae and rusts. Molecular Ecology 2: 113-118.
15. Goward, T. (1985) Ahtiana, a new lichen genus in the Parmeliaceae. Bryologist 88: 367 371.
16. Hafellner, J. (1984) Studien in Richtung einer naturlicheren Gliederung der Sammelfamilien Lecanoraceae und Lecideaceae. Nova Hedwigia 79: 241-371.Vaduz: J. Cramer.
17. Henssen, A. & Jahns, H. M. (1974) Lichenes. Stuttgart: G. Thieme.
18. KÃrnefelt, I. (1977a) Masonhalea, a new lichen genus in the Parmeliaceae. Botaniska Notiser 130: 101-107.
19. KÃrnefelt, I. (1977b) Three new species of brown fruticose Cetraria. Botaniska Notiser 130: 125-129.
20. KÃrnefelt, I. (1979) The brown fruticose species of Cetraria. Opera Botanica 46: 1-150.
21. KÃrnefelt, I. (1986) The genera Bryocaulon, Coelocaulon and Cornicularia and formerly associated taxa.
22. KÃrnefelt, I., Mattsson, J.-E. & Thell, A. (1993) The lichen genera Arctocetraria, Cetraria and Cetrariella (Parmeliaceae) and their presumed evolutionary affinities. Bryologist 96: 394-404.
23. KÃrnefelt, I. & Thell, A. (1992) The evaluation of characters in lichenized families, exemplified with the alectorioid and some parmelioid genera. Plant Systematics and Evolution 180: 181-204.
24. KÃrnefelt, I. & Thell, A. (1993) Chemical evolution in cetrarioid lichens. Bibliotheca Lichenologica 53: 115-127.
25. KÃrnefelt, I. & Thell, A. (1994) Sexual reproductive characters vs. morphological characters in lichen genera. Journal of the Hattori Botanical Laboratory 76: 207-219.
26. KÃrnefelt, I. & Thell, A. (1996) A new classification for the Dactylina/Dufourea complex. Nova Hedwigia 62: 487-511. (Pubitemid 126589183)
27. KÃrnefelt, I. & Thell, A. (2001) Delimitation of the genus Tuckermannopsis Gyeln. (Ascomycotina, Parmeliaceae) based on morphology and DNA sequences. Bibliotheca Lichenologica 78: 193-209.
28. KÃrnefelt, I., Thell, A., Randlane, T. & Saag, A. (1994) The genus Flavocetraria KÃrnefelt & Thell (Parmeliaceae, Ascomycotina) and its affinities. Acta Botanica Fennica 150: 79-86.
29. Kurokawa, S. & Lai, M. J. (1991) Allocetraria, a new lichen genus in the Parmeliaceae. Bulletin of the National Science Museum (Tokyo), Series B (Botany) 17: 59-65.
30. Lai, M. J. 1980. Studies on the cetrarioid lichens in Parmeliaceae of East Asia (I). Quarterly Journal of the Taiwan Museum 33: 215-229.
31. Lai, M. J. & Elix, J. A. (2002) A new species of Cetreliopsis (Ascomycotina, Parmeliaceae) from Thailand. Mycotaxon 84: 355-360. (Pubitemid 36137281)
32. Lai, M. J., Qian, Z. G. & Xu, L. (2007) Synopsis of the cetrarioid lichen genera and species (Parmeliaceae, lichenized Ascomycotina) in China. Journal of the National Taiwan Museum 60: 45-61.
33. Larget, B. & Simon, D. L. (1999) Markov chain Monte Carlo algorithms for the Bayesian analysis of Phylogenetic trees. Molecular Biology and Evolution 16: 750-759. (Pubitemid 29260829)
34. Lumbsch, H. T., Schmitt, I., Mangold, A. & Wedin,M. (2007) Ascus types are phylogenetically misleading in Trapeliaceae and Agyriaceae (Ostropomycetidae, Ascomycota). Mycological Research 111: 1133-1141. (Pubitemid 350101166)
35. Mattsson, J.-E. (1993) A monograph of the genus Vulpicida (Parmeliaceae, Ascomycetes). Opera Botanica 119: 1-61.
36. Mattsson, J.-E. & Lai, M. J. (1993) Vulpicida, a new genus in Parmeliaceae (lichenized ascomycetes). Mycotaxon 46: 425-428.
37. Myllys, L., Lohtander, K. & Tehler, A. (2001) -tubulin, ITS and group I intron sequences challenge the species pair Physcia aipolia and P. caesia. Mycologia 93: 335-343.
38. Myllys, L., Stenroos, S. & Thell, A. (2002) New genes for phylogenetic studies of lichenized fungi: glyceraldehyde-3-phosphate dehydrogenase and -tubulin genes. Lichenologist 34: 237-246. (Pubitemid 38271962)
39. Obermayer, W. (2008) Fotografische Dokumentation einer ungewöhnlich reich fruchtenden Aufsammlung von Cetraria islandica (L.) Ach. [mit einem historischen Abriss zur Darstellung fertiler Thalli, Anmerkungen zur Gestalt der Pycnosporen und einigen Notizen zum Gebrauch des â€?Kramperltees’]. Mitteilungen des naturwissenschaftlichen Vereins fÃr Steiermark 138: 113-158.
40. Ohmura, Y. (2002) Phylogenetic evaluation of infrageneric groups of the genus Usnea based on ITS regions in rDNA. Journal of the Hattori Botanical Laboratory 92: 231-243. (Pubitemid 135691255)
41. Ohmura, Y. & Kanda, H. (2004) Taxonomic status of section Neuropogon in the genus Usnea elucidated by morphological comparison and ITS rDNA sequences. Lichenologist 36: 217-225. (Pubitemid 39027109)
42. Oxner, A. N. (1933) Species Lichenum novae ex Asia. Journal du Cycle Botanique de l’Academie des Sciences d’ Ukraine 2: 167-172.
43. Prado, R. del, Ferencová, Z., Armas-Crespo, V., Amo de Paz, G., Cubas, P. & Crespo, A. (2007) The arachiform vacuolar body, an overlooked shared character in the ascospores of a large monophyletic group within Parmeliaceae (Xanthoparmelia clade, Lecanorales). Mycological Research 91: 455-467. (Pubitemid 47077630)
44. Randlane, T. & Saag, A. (1998) Synopsis of the genus Nephromopsis (fam. Parmeliaceae, lichenized Ascomycota). Cryptogamie, Bryologie- Lichénologie 19: 175-191. (Pubitemid 28453666)
45. Randlane, T. & Saag, A. (2000) Revision of the second updated world list of cetrarioid lichens. January 17, 2002. http://www.ut.ee/lichens/cetraria. html
46. Randlane, T. & Saag, A. (2003) Taxonomic notes on some cetrarioid lichens. Mycotaxon 87: 479-487. (Pubitemid 37181702)
47. Randlane, T. & Saag, A. (2004) Distribution patterns of some primary and secondary cetrarioid species. Acta Universitatis Upsaliensis Symbolae Botanicae Upsalienses 34: 359-376.
48. Randlane, T. & Saag, A. (2005) Distribution patterns of primary and secondary species in the genus Vulpicida. Folia Cryptogamica Estonica 41: 89-96.
49. Randlane, T., Saag, A. & Obermayer, W. (2001) Cetrarioid lichens containing usnic acid from the Tibetan area. Mycotaxon 80: 389-425. (Pubitemid 33391190)
50. Randlane, T., Saag, A. & Thell, A. (1997) A second updated world list of cetrarioid lichens. Bryologist 100: 109-122. (Pubitemid 27207028)
51. Randlane, T., Thell, A. & Saag, A. (1995) New data about the genera Cetrariopsis, Cetreliopsis and Nephromopsis (fam. Parmeliaceae, lichenized Ascomycotina). Cryptogamie, Bryologie-Lichénologie 16: 35-60.
52. Rico, V. J., van den Boom, P. P. G. & Barrasa, J. M. (2005) Morphology, chemistry and distribution of Melanelia sorediella (Parmeliaceae) and similar species in the Iberian Peninsula. Lichenologist 37: 199-215.
53. Saag, A., Randlane, T., Thell, A. & Obermayer, W. (2002) Phylogenetic analysis of cetrarioid lichens with globose ascospores. Proceedings of the Estonian Academy of Sciences, Biology, Ecology 51: 103-123.
54. Swofford, D. L. (1998) PAUP: Phylogenetic Analysis Using Parsimony, Version 4.0b. Sunderland, Mass.: Sinauer Associates.
55. Thell, A. (1995a) A new position of the Cetraria commixta group in Melanelia (Ascomycotina, Parmeliaceae). Nova Hedwigia 60: 407-422.
56. Thell, A. (1995b) Pycnoconidial types and their presence in cetrarioid lichens (Ascomycotina, Parmeliaceae). Cryptogamie, Bryologie- Lichénologie 16: 247-256.
57. Thell, A. (1998) Phylogenetic relationships of some cetrarioid species in British Columbia with notes on Tuckermannopsis. Folia Cryptogamica Estonica 32: 113-122.
58. Thell, A. (1999) Group I intron versus ITS sequences in phylogeny of cetrarioid lichens. Lichenologist 31: 441-449. (Pubitemid 29532216)
59. Thell, A., Feuerer, T., Elix, J. A. & KÃrnefelt, I. (2006) A contribution to the phylogeny and taxonomy of Xanthoparmelia (Ascomycota, Parmeliaceae). Journal of the Hattori Botanical Laboratory 100: 797-807. (Pubitemid 44884643)
60. Thell, A., Feuerer, T., KÃrnefelt, I., Myllys, L. & Stenroos, S. (2004) Monophyletic groups within the Parmeliaceae identified by ITS rDNA, betatubulin and GAPDH sequences. Mycological Progress 3: 297-314.
61. Thell, A. & Goward, T. (1996) The new cetrarioid genus Kaernefeltia and related groups in the Parmeliaceae (lichenized Ascomycotina). Bryologist 99: 125-136. (Pubitemid 26391614)
62. Thell, A., Goward, T., Randlane, T., KÃrnefelt, I. & Saag, A. (1995a) A revision of the North American lichen genus Ahtiana (Parmeliaceae). Bryologist 98: 596-605. (Pubitemid 3018802)
63. Thell, A., Mattsson, J.-E. & KÃrnefelt, I. (1995c) Lecanoralean ascus types in the lichenized families Alectoriaceae and Parmeliaceae. Cryptogamic Botany 5: 120-127.
64. Thell, A. & Miao, V. (1998) Phylogenetic analysis of ITS and group I intron sequences from European and North American samples of cetrarioid lichens. Annales Botanici Fennici 35: 275-286. (Pubitemid 29081427)
65. Thell, A., Randlane, T., KÃrnefelt, I., Gao, X.-Q. & Saag, A. (1995b) The lichen genus Allocetraria (Ascomycotina, Parmeliaceae). In Flechten Follmann. Contributions to Lichenology in Honour of Gerhard Follmann (J. A. Daniels, M. Schulz & J. Peine, eds): 353-370. Cologne: University of Cologne.
66. Thell, A., Randlane, T., Saag, A. & KÃrnefelt, I. (2005) A new circumscription of the lichen genus Nephromopsis (Parmeliaceae, lichenized Ascomycetes). Mycological Progress 4: 303-316.
67. Thell, A., SÃ̧chting, U., KÃrnefelt, I., Elix, J. A. & Sancho, L. G. (2007) Phylogeny of Himantormia - an Antarctic genus in the Parmeliaceae (lichenized ascomycetes). Bibliotheca Lichenologica 95: 95-541.
68. Thell, A., Stenroos, S., Feuerer, T., KÃrnefelt, I., Myllys, L. & Hyvönen, J. (2002) Phylogeny of cetrarioid lichens (Parmeliaceae) inferred from ITS and -tubulin sequences, morphology, anatomy and secondary chemistry. Mycological Progress 1: 335-354.
69. Thell, A., Stenroos, S. & Myllys, L. (2000) A DNAstudy of the Cetraria aculeata and C. islandica groups. Folia Cryptogamica Estonica 36: 95-106.
70. van den Boom, P. P. G. & Sipman, H. J. M. (1994) Cetraria obtusata comb. et stat nov., an overlooked lichen species from the central Alps. Lichenologist 26: 105-112.
71. White, T. J., Burns, T., Lee, S. & Taylor, J. W. (1991) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In PCR Protocols: a Guide to Methods and Applications (M. A. Innis, D. H. Gelfand, J. J. Sninsky & T. J. White, eds): 315-322. San Diego: Academic Press.
72. Wirtz, N., Printzen, C., Sancho, L. G. & Lumbsch, H. T. (2006) The phylogeny and classification of Neuropogon and Usnea (Parmeliaceae, Ascomycota) revisited. Taxon 55: 367-376. (Pubitemid 44030923)
73. Zhurbenko, M. P., Laursen, G. A. & Walker, D. A. (2005) New and rare lichenicolous fungi and lichens from the North American Arctic. Mycotaxon 92: 201-212.
74. Zoller, S., Scheidegger, C. & Sperisen, C. (1999) PCRprimers for the amplification ofmitochondrial small subunit ribosomal DNA of lichen-forming ascomycetes. Lichenologist 31: 511-516. (Pubitemid 29532221)