Phylogenetic and haplotype analyses of four segregates within Cladonia arbuscula s.l

Botany

Volumn 88, Issue 4, 2010, Pages 397-408

  Piercey Normore, Michele D ^a   Ahti, Teuvo ^b   Goward, Trevor ^c  

^a UNIVERSITY OF MANITOBA   (Canada)

^b UNIVERSITY OF HELSINKI   (Finland)

^c Enlichened Consulting Ltd   (Canada)

Author keywords

tubulin; Cladonia arbuscula subsp. beringiana; Cladonia arbuscula subsp. mitis; Lichens; Reassembly hypothesis; Rna fold

Indexed keywords

ALLELE; GENETIC VARIATION; GENOTYPE; LICHEN; MORPHOLOGY; PHYLOGENETICS; REPRODUCTIVE ISOLATION; SUBSPECIES;

CLADONIA ARBUSCULA; SQUARROSA;

EID: 77952189719     PISSN: 19162804     EISSN: None     Source Type: Journal    
DOI: 10.1139/B10-027     Document Type: Article

References (47)

1. Ahti, T. 1961. Taxonomic studies on reindeer lichens (Cladonia, subgenus Cladina). Ann. Bot. Soc. Zool. Bot. Fenn. 'Vanamo', 32(1): 1-160.
2. Ahti, T. 1964. Macrolichens and their zonal distribution in boreal and arctic Ontario, Canada. Ann. Bot. Fenn. 1: 1-35.
3. Ahti, T. 1984. The status of Cladina as a genus segregated from Cladonia. Beih. Nova Hedwigia, 79: 25-61.
4. Ahti, T. 2000. Cladoniaceae. Flora Neotropica Monograph 78. Organization for Flora Neotropica and New York Botanical Garden, New York Botanical Garden Press, Bronx, N.Y.
5. Anderson, J.B., and Ullrich, R.C. 1979. Biological species of Armillaria mellea in North America. Mycologia, 71(2): 402-414. doi:10.2307/3759160.
6. Beiggi, S., and Piercey-Normore, M.D. 2007. Evolution of ITS ribosomal RNA secondary structures in fungal and algal symbionts of selected species of Cladonia sect. Cladonia (Cladoniaceae, Ascomycotina). J. Mol. Evol. 64(5): 528-542. doi:10.1007/s00239-006-0115-x. PMID:17460809.
7. Clement, M., Posada, D., and Crandall, K.A. 2000. TCS: a computer program to estimate gene genealogies. Mol. Ecol. 9(10): 1657-1659. doi:10.1046/j.1365-294x.2000.01020.x.PMID: 11050560.
8. Coleman, A.W. 2003. ITS2 is a double-edged tool for eukaryote evolutionary comparisons. Trends Genet. 19(7): 370-375. doi:10.1016/S0168-9525(03)00118-5. PMID:12850441.
9. Culberson, C.F., and Armaleo, D. 1992. Induction of a complete secondary-product pathway in a cultured lichen fungus. Exp. Mycol. 16(1): 52-63. doi:10.1016/0147-5975(92)90041-O.
10. Culberson, C.F., Culberson, W.L., and Johnson, A. 1988. Gene flow in lichens. Am. J. Bot. 75(8): 1135-1139. doi:10.2307/2444096.
11. Dai, Y.C., Vainio, E.J., Hantula, J., Niemela, T., and Korhonen, K. 2002. Sexuality and intersterility within the Heterobasidion insulare complex. Mycol. Res. 106(12): 1435-1448. doi:10.1017/S0953756202006950.
12. Felsenstein, J. 1985. Confidence limits on phylogenies: an approach using the bootstrap. Evolution, 39(4): 783-791. doi:10. 2307/2408678.
13. Fontaine, K.M., Ahti, T., and Piercey-Normore, M.D. 2010. Convergent evolution in Cladonia gracilis and allies. Lichenologist, 42: 1-16.
14. Gargas, A., DePriest, P.T., Grube, M., and Tehler, A. 1995. Multiple origins of lichen symbioses in fungi suggested by SSU rDNA phylogeny. Science, 268(5216): 1492-1495. doi:10.1126/science.7770775. PMID:7770775.
15. Goward, T. 2009. Twelve readings on the lichen thallus VI - Reassembly. Evansia, 25: 91-97.
16. Grube, M., and Kroken, S. 2000. Molecular approaches and the concept of species and species complexes in lichenized fungi. Mycol. Res. 104(11): 1284-1294. doi:10.1017/S0953756200003476.
17. Grube, M., DePriest, P.T., Gargas, A., and Hafellner, J. 1995. DNA isolation from lichen ascomata. Mycol. Res. 99(11): 1321-1324. doi:10.1016/S0953-7562(09)81215-X.
18. Hawksworth, D.L. 1976. Ecological factors and species delimitation in the lichens. In Taxonomy and ecology. Edited by V.H. Heywood. Academic Press, New York, N.Y.
19. Huelsenbeck, J.P., Ronquist, F., Nielsen, R., and Bollback, J.P. 2001. Bayesian inference of phylogeny and its impact on evolutionary biology. Science, 294(5550): 2310-2314. doi:10.1126/science.1065889. PMID:11743192.
20. Hugall, A., Stanton, J., and Moritz, C. 1999. Reticulate evolution and the origins of ribosomal internal transcribed spacer diversity in apomictic Meloidogyne. Mol. Biol. Evol. 16(2): 157-164. PMID:10028283.
21. Kauserud, H., and Schumacher, T. 2003. Ribosomal DNA variation, recombination and inheritance in the basidiomycete Trichaptum abietinum: implications for reticulate evolution. Heredity, 91(2): 163-172. doi:10.1038/sj.hdy.6800294. PMID: 12886283.
22. Korhonen, K. 1978. Interfertility and clonal size in the Armillaria mellea complex. Karstenia, 18: 31-42.
23. Kotelko, R., and Piercey-Normore, M.D. 2010. Cladonia pyxidata and C. pocillum; genetic evidence to regard them as conspecific. Mycologia, In press.
24. Leuckert, C., Ahmadjian, V., Culberson, C.F., and Johnson, A. 1990. Xanthones and depsidones of the lichen Lecanora dispersa in nature and of its mycobiont in culture. Mycologia, 82(3): 370-378. doi:10.2307/3759909.
25. Muller, T., Philippi, N., Dandekar, T., Schultz, J., and Wolf, M. 2007. Distinguishing species. RNA, 13(9): 1469-1472. doi:10. 1261/rna.617107. PMID:17652131.
26. Myllys, L., Lohtander, K., and Tehler, A. 2001. Beta-tubulin, ITS and group I intron sequences challenge the species pair concept in Physcia aipolia and P. caesia. Mycologia, 93(2): 335-343. doi:10.2307/3761655.
27. Myllys, L., Stenroos, S., Thell, A., and Ahti, T. 2003. Phylogeny of bipolar Cladonia arbuscula and Cladonia mitis (Lecanorales, Euascomycetes). Mol. Phylogenet. Evol. 27(1): 58-69. doi:10. 1016/S1055-7903(02)00398-6. PMID:12679071.
28. O'Donnell, K., Cigelnik, E., and Nirenberg, H.I. 1998. Molecular systematics and phylogeography of the Gibberella fujikuroi species complex. Mycologia, 90(3): 465-493. doi:10.2307/3761407.
29. Piercey-Normore, M.D. 2004. Selection of algal genotypes by three species of lichen fungi in the genus Cladonia. Can. J. Bot. 82: 947-961. doi:10.1139/b04-084.
30. Piercey-Normore, M.D. 2009. Vegetatively reproducing fungi in three genera of the Parmeliaceae share divergent algal partners. Bryologist, 112(4): 773-785. doi:10.1639/0007-2745-112.4.773.
31. Piercey-Normore, M.D., and DePriest, P.T. 2001. Algal switching among lichen symbionts. Am. J. Bot. 88(8): 1490-1498. doi:10. 2307/3558457.
32. Poelt, J. 1994. Different species types in lichenized ascomycetes. In Ascomycete systematics: problems and perspectives in the nineties. Edited by D.L. Hawksworth. Plenum Press, New York, N.Y. pp. 273-278.
33. Posada, D., and Crandall, K.A. 1998. MODELTEST: testing the model of DNA substitution. Bioinformatics, 14(9): 817-818. doi:10.1093/bioinformatics/14.9.817. PMID:9918953.
34. Rambaut, A. 2001. Se-Al: Sequence alignment editor version 2.0. University of Oxford, Oxford, UK.
35. Rayner, A. 1997. Degrees of freedom: living in dynamic boundaries. Imperial College Press, London, UK.
36. Rikkinen, J. 1997. Habitat shifts and morphological variation of Pseudevernia furfuracea along a topographical gradient. Symb. Bot. Ups. 32: 223-245.
37. Robertson, J., and Piercey-Normore, M.D. 2007. Gene flow in symbionts of Cladonia arbuscula. Lichenologist, 39(01): 69-82. doi:10.1017/S0024282906005809.
38. Ronquist, F., and Huelsenbeck, J.P. 2003. MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics, 19(12): 1572-1574. doi:10.1093/bioinformatics/btg180. PMID: 12912839.
39. Ruoss, E. 1987. Chemotaxonomische und morphologische Untersuchungen an den Rentierflechten Cladonia arbuscula und C. mitis. Bot. Helv. 97: 239-263.
40. Ruoss, E., and Ahti, T. 1989. Systematics of some reindeer lichens (Cladonia subg. Cladina) in the Southern Hemisphere. Lichenologist, 21(01): 29-44. doi:10.1017/S0024282989000058.
41. Stenroos, S.K., and DePriest, P.T. 1998. SSU rDNA phylogeny of cladoniiform lichens. Am. J. Bot. 85(11): 1548-1559. doi:10. 2307/2446481.
42. Stenroos, S., Hyvonen, J., Myllys, L., Thell, A., and Ahti, T. 2002. Phylogeny of the genus Cladonia s.lat. (Cladoniaceae, Ascomycetes) inferred from molecular, morphological, and chemical data. Cladistics, 18(3): 237-278. doi:10.1111/j.1096-0031.2002. tb00151.x.
43. Swofford, D.L. 2003. PAUP*: Phylogenetic analysis using parsimony (* and other methods). Version 4.0. Sinauer Associates, Sunderland, Mass., USA.
44. Taylor, J.W., Jacobson, D.J., Kroken, S., Kasuga, T., Geiser, D.M., Hibbett, D.S., and Fisher, M.C. 2000. Phylogenetic species recognition and species concepts in fungi. Fungal Genet. Biol. 31(1): 21-32. doi:10.1006/fgbi.2000.1228. PMID:11118132.
45. Tsai, H.F., Liu, J.S., Staben, C., Christensen, M.J., Latch, G.C.M., Siegel, M.R., and Schardl, C.L. 1994. Evolutionary diversification of fungal endophytes of tall fescue grass by hybridization with Epichloe species. Proc. Natl. Acad. Sci. U.S.A. 91(7): 2542-2546. doi:10.1073/pnas.91.7.2542. PMID:8172623.
46. White, T.J., Bruns, T., Lee, S., and Taylor, J. 1990. Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In PCR protocols: a guide to methods and applications. Edited by M.A. Innis, D.H. Gelfand, J.J. Sninsky, and T.J. White. Academic Press, Inc., New York, N.Y. pp. 315-322.
47. Zuker, M. 2003. Mfold web server for nucleic acid folding and hybridization prediction. Nucleic Acids Res. 31(13): 3406-3415. doi:10.1093/nar/gkg595. PMID:12824337.