The delimitation of Antarctic and bipolar species of neuropogonoid Usnea (Ascomycota, Lecanorales): a cohesion approach of species recognition for the Usnea perpusilla complex

Mycological Research

Volumn 112, Issue 4, 2008, Pages 472-484

  Wirtz, Nora ^a,b   Printzen, Christian ^b   Lumbsch, H Thorsten ^a  

^a FIELD MUSEUM OF NATURAL HISTORY   (United States)

^b SENCKENBERG RESEARCH INSTITUTE   (Germany)

Author keywords

Bipolar; Cohesion species concept; Neuropogon; Species complex; Species delimitation; Taxonomy; Usnea

Indexed keywords

FUNGAL DNA;

DATA SET; DISPERSAL; GEOGRAPHICAL DISTRIBUTION; LICHEN; MORPHOLOGY; PHYLOGENETICS; RECOGNITION; SOUTHERN HEMISPHERE; SPECIES COMPLEX; STATISTICAL ANALYSIS; TAXONOMY; VARIANCE ANALYSIS;

ANTARCTICA; ARTICLE; ASCOMYCETES; CHEMISTRY; CLASSIFICATION; CYTOLOGY; GENETICS; PHYLOGENY; SPECIES DIFFERENTIATION; USNEA;

ANTARCTIC REGIONS; ASCOMYCOTA; DNA, FUNGAL; GENETIC SPECIATION; PHYLOGENY; USNEA;

ASCOMYCOTA; ATRA; LECANORALES; NEUROPOGON; USNEA; USNEA PERPUSILLA; USNEA SPHACELATA; USNEA TRACHYCARPA;

EID: 41249087858     PISSN: 09537562     EISSN: 14698102     Source Type: Journal    
DOI: 10.1016/j.mycres.2007.05.006     Document Type: Article

References (56)

1. Altschul S.F., Gish W., Miller W., Myers E.W., and Lipman D.J. Basic local alignment search tool. Journal of Molecular Biology 215 (1990) 404-410
2. Articus K. Neuropogon and the phylogeny of Usnea s.l. (Parmeliaceae, lichenized ascomycetes). Taxon 53 (2004) 925-934
3. Blanco O., Crespo A., Elix J.A., Hawksworth D.L., and Lumbsch H.T. A molecular phylogeny and a new classification of parmelioid lichens containing Xanthoparmelia-type lichenan (Ascomycota: Lecanorales). Taxon 53 (2004) 959-975
4. Blanco O., Crespo A., Ree R.H., and Lumbsch H.T. Major clades of parmelioid lichens (Parmeliaceae, Ascomycota) and the evolution of their morphological and chemical diversity. Molecular Phylogenetics and Evolution 39 (2006) 52-69
5. Buckley T.R., Arensburger P., Simon C., and Chambers G.K. Combined data, Bayesian phylogenetics, and the origin of the New Zealand cicada genera. Systematic Biology 51 (2002) 4-18
6. Clement M., Posada D., and Crandall K.A. TCS: a computer program to estimate gene genealogies. Molecular Ecology 9 (2000) 1657-1660
7. Clerc P. Species concepts in the genus Usnea (lichenized ascomycetes). Lichenologist 30 (1998) 321-340
8. Clerc P. Contribution à la revision de la systématique des usneés (Ascomycotina, Usnea) d'Europe. I.-Usnea florida (L.) Wigg. emend. Clerc. Cryptogamie Bryologie Lichenologie 5 (1984) 333-360
9. Coyne J.A., and Orr H.A. Speciation (2004), Sinauer Associates, Sunderland, MA
10. Cracraft J. Species concepts and speciation analysis. Current Ornithology 1 (1983) 159-187
11. Crespo A., Molina M.C., Blanco O., Schroeter B., Sancho L.G., and Hawksworth D.L. rDNA ITS and β-tubulin gene sequences analyses reveal two monophyletic groups within the cosmopolitan lichen Parmelia saxatilis. Mycological Research 106 (2002) 788-795
12. Crespo A., Lumbsch H.T., Mattsson J.-E., Blanco O., Divakar P.K., Articus K., Wiklund E., Bawingan P.A., and Wedin M. Testing morphology-based hypotheses of phylogenetic relationships in Parmeliaceae (Ascomycota) using three ribosomal markers and the nuclear RPB1 gene. Molecular Phylogenetics and Evolution 42 (2007) 812-824
13. Divakar P.K., Crespo A., Blanco O., and Lumbsch H.T. Phylogenetic significance of morphological characters in the tropical Hypotrachyna clade of parmelioid lichens (Parmeliaceae, Ascomycota). Molecular Phylogenetics and Evolution 40 (2006) 448-458
14. Elix JA, Wirtz N, Lumbsch HT, 2007. The chemistry of some Usnea species of the Neuropogon group (Lecanorales, Ascomycota). Nova Hedwigia, in press.
15. Galloway D.J., and Aptroot A. Bipolar lichens: a review. Cryptogamic Botany 5 (1995) 184-191
16. Gardes M., and Bruns T.D. ITS primers with enhanced specificity for basidiomycetes - application to the identification of mycorrhizae and rusts. Molecular Ecology 2 (1993) 113-118
17. Hall T.A. BioEdit: a user-friendly biological sequence alignment editor and analysis program for Windows 95/98/NT. Nucleic Acids Symposium Series 41 (1999) 95-98
18. Hudson R.R., and Kaplan N.L. Statistical properties in the number of recombination events in the history of a sample of DNA sequences. Genetics 111 (1985) 147-164
19. Huelsenbeck J.P., and Ronquist F. MrBayes: Bayesian inference of phylogenetic trees. Bioinformatics 17 (2001) 754-755
20. Huelsenbeck J.P., Ronquist F., Nielsen R., and Bollback J.P. Bayesian inference of phylogeny and its impact on evolutionary biology. Science 294 (2001) 2310-2314
21. Imshaug H.A. A new species of Neuropogon from the United States. Rhodora 56 (1954) 154-157
22. Kauserud H., Stensrud Ø., Decock C., Shalchian-Tabrizi K., and Schumacher T. Multiple gene genealogies and AFLPs suggest cryptic speciation and long-distance dispersal in the basidiomycete Serpula himantioides (Boletales). Molecular Ecology 15 (2006) 421-431
23. Klopfstein S., Currat M., and Excoffier L. The fate of mutations surfing on the wave of a range expansion. Molecular Biology and Evolution 23 (2006) 482-490
24. Krog H. Lethariella and Protousnea, two new lichen genera in Parmeliaceae. Norwegian Journal of Botany 23 (1976) 83-106
25. Krog H. Evolutionary trends in foliose and fruticose lichens of the Parmeliaceae. Journal of the Hattori Botanical Laboratory 52 (1982) 303-311
26. Lamb I.M. A review of the genus Neuropogon (Nees & Flot.) Nyl., with special reference to the Antarctic species. Journal of the Linnaean Society (Botany) 52 (1939) 199-237
27. Lamb I.M. Further data on the genus Neuropogon. Lilloa 14 (1948) 139-168
28. Lamb I.M. Antarctic lichens 1. The genera Usnea, Ramalina, Himantormia, Alectoria, Cornicularia. British Antarctic Survey Scientific Reports 38 (1964) 1-34
29. Larget B., and Simon D.L. Markov chain Monte Carlo algorithms for the Bayesian analysis of phylogenetic trees. Molecular Biology and Evolution 16 (1999) 750-759
30. Lumbsch H.T. Analysis of phenolic products in lichens for identification and taxonomy. In: Kramer J., Beckett R.P., and Varma A.K. (Eds). Protocols in Lichenology (2002), Springer Verlag, Berlin 281-295
31. Matheny P.B., Liu Y.J., Ammirati J.F., and Hall B.D. Using RPB1 and RPB2 nucleotide sequences (Inocybe; Agaricales). Molecular Phylogenetics and Evolution 35 (2002) 1-20
32. Myllys L., Stenroos S., Thell A., and Ahti T. Phylogeny of bipolar Cladonia arbuscula and Cladonia mitis (Lecanorales, Euascomycetes). Molecular Phylogenetics and Evolution 27 (2003) 58-69
33. Ohmura Y. Taxonomic study of the genus Usnea (lichenized ascomycetes) in Japan and Taiwan. Journal of the Hattori Botanical Laboratory 90 (2001) 1-96
34. Page R.D.M. Treeview: an application to display phylogenetic trees on personal computers. Computer Application in the Biosciences 12 (1996) 357-358
35. Poelt J. Flechtenflora und Eiszeit in Europa. Phyton-Annales Rei Botanicae 10 (1963) 206-215
36. Poelt J. Das Konzept der Artenpaare bei den Flechten. Vorträge aus dem Gesamtgebiet der Botanik, Neue Folge 4 (1970) 187-198
37. Posada D. Evaluation of methods for detecting recombination from DNA sequences: empirical data. Molecular Biology and Evolution 19 (2002) 708-717
38. Printzen C., and Ekman S. Genetic variability and its geographical distribution in the widely disjunct Cavernularia hultenii. Lichenologist 34 (2002) 101-111
39. Rodríguez F., Oliver J.L., Marín A., and Medina J.R. The general stochastic model of nucleotide substitution. Journal of Theoretical Biology 142 (1990) 485-501
40. Rozas J., Sánchez-DelBarrio J.C., Messeguer X., and Rozas R. DnaSP, DNA polymorphism analyses by the coalescent and other methods. Bioinformatics 19 (2003) 2496-2497
41. Sawyer S. Statistical tests for detecting gene conversion. Molecular Biology and Evolution 6 (1989) 526-538
42. Sawyer S.A. GENECONV: A Computer Package for the Statistical Detection of Gene Conversion (1999), Distributed by the author, Department of Mathematics, Washington University, St Louis
43. Seymour F.A., Crittenden P.D., Wirtz N., Øvstedal D.O., Dyer P.S., and Lumbsch H.T. Phylogenetic and morphological analysis of Antarctic lichen-forming Usnea species in the group Neuropogon. Antarctic Science 19 (2007) 71-82
44. Stiller J.W., and Hall B.D. The origin of red algae: implications for plastid evolution. Proceedings of the National Academy of Sciences USA 94 (1997) 4520-4525
45. Templeton A.R. The meaning of species and speciation: a genetic perspective. In: Otte D., and Endler J.A. (Eds). Speciation and its Consequences (1989), Sinauer Associates, Sunderland, MA 3-27
46. Templeton A.R. Using phylogeographic analyses of gene trees to test species status and processes. Molecular Ecology 10 (2001) 779-791
47. Templeton A.R., and Sing C.F. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping. IV. Nested analyses with cladogram uncertainty and recombination. Genetics 134 (1993) 659-669
48. Templeton A.R., Boerwinkle E., and Sing C.F. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. I. Basic theory and an analysis of alcohol dehydrogenase activity in Drosophila. Genetics 117 (1987) 343-351
49. Templeton A.R., Crandall K.A., and Sing C.F. A cladistic analysis of phenotypic associations with haplotypes inferred from restriction endonuclease mapping and DNA sequence data. III. Cladogram estimation. Genetics 132 (1992) 619-633
50. Thompson J.D., Higgins D.G., and Gibson T.J. Clustal W: improving the sensitivity of progressive multiple alignment through sequences weighting, position specific gap penalties and weight matrix choice. Nucleic Acids Research 22 (1994) 4673-4680
51. Tuffley C., and Steel M. Modeling the covarion hypothesis of nucleotide substitution. Mathematical Biosciences 147 (1998) 63-91
52. Van Zanten B.O., and Pócs T. Distribution and dispersal of bryophytes. Advances In Bryology 1 (1981) 479-562
53. Walker F.J. The lichen genus Usnea subgenus Neuropogon. Bulletin of the British Museum (Natural History), Botany 13 (1985) 1-130
54. White T.J., Bruns T., Lee S., and Taylor J. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: Innis M.A., Gelfand D.H., Sninsky J.J., and White T.J. (Eds). PCR Protocols: a Guide to Methods and Applications (1990), Academic Press, San Diego 315-322
55. Wiens J.J., and Penkrot T.A. Delimiting species using DNA and morphological variation and discordant species limits in spiny lizards (Sceloporus). Systematic Biology 51 (2002) 69-91
56. Wirtz N., Printzen C., Sancho L.G., and Lumbsch H.T. The phylogeny and classification of Neuropogon and Usnea (Parmeliaceae, Ascomycota) revisited. Taxon 55 (2006) 367-376