A tale of two hyper-diversities: Diversification dynamics of the two largest families of lichenized fungi

Scientific Reports

Volumn 5, Issue , 2015, Pages

  Kraichak, Ekaphan ^a,b   Divakar, Pradeep K ^c   Crespo, Ana ^c   Leavitt, Steven D ^a   Nelsen, Matthew P ^a,d   Lücking, Robert ^a   Lumbsch, H Thorsten ^a  

^a FIELD MUSEUM OF NATURAL HISTORY   (United States)

^b KASETSART UNIVERSITY   (Thailand)

^c UNIVERSIDAD COMPLUTENSE DE MADRID   (Spain)

^d STANFORD UNIVERSITY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

ASCOMYCETES; BIODIVERSITY; CLIMATE; LICHEN (ORGANISM); PHYLOGENY; PHYSIOLOGY; SPECIES DIFFERENCE;

ASCOMYCOTA; BIODIVERSITY; CLIMATE; LICHENS; PHYLOGENY; SPECIES SPECIFICITY;

EID: 84928978533     PISSN: None     EISSN: 20452322     Source Type: Journal    
DOI: 10.1038/srep10028     Document Type: Article

References (51)

1. Smith, S. A. & Donoghue, M. J. Rates of molecular evolution are linked to life history in flowering plants. Science 322, 86-89 (2008).
2. Smith, S. A. & Beaulieu, J. M. Life history influences rates of climatic niche evolution in flowering plants. Proc. Biol. Sci. 276, 4345-4352 (2009).
3. Zanne, A. E. et al. Three keys to the radiation of angiosperms into freezing environments. Nature 506, 89-92 (2014).
4. Rabosky, D. L. et al. Rates of speciation and morphological evolution are correlated across the largest vertebrate radiation. Nat. Commun. 4, 1958 (2013).
5. Jetz, W., Thomas, G. H., Joy, J. B., Hartmann, K. & Mooers, A. O. The global diversity of birds in space and time. Nature 491, 444-448 (2012).
6. Slater, G. J. & Harmon, L. J. Unifying fossils and phylogenies for comparative analyses of diversification and trait evolution. Methods Ecol. Evol. 4, 699-702 (2013).
7. Kirk, P. M., Cannon, P. F., Minter, D. W. & Stalpers, J. A. Dictionary of the Fungi CABI. Wallingford, UK (2008).
8. Honegger, R. Lichen-Forming Fungi and Their Photobionts. in Plant Relationships 307-333 (Springer, Berlin Heidelberg, 2009).
9. Gray, J. & Boucot, A. J. Early vascular land plants: proof and conjecture. Lethaia 10, 145-174 (1977).
10. Printzen, C. & Lumbsch, H. T. Molecular evidence for the diversification of extant lichens in the late cretaceous and tertiary. Mol. Phylogenet. Evol. 17, 379-387 (2000).
11. Divakar, P. K. et al. Diversification of the newly recognized lichen-forming fungal lineage Montanelia (Parmeliaceae, Ascomycota) and its relation to key geological and climatic events. Am. J. Bot. 99, 2014-2026 (2012).
12. Schoch, C. L. et al. The Ascomycota tree of life: a phylum-wide phylogeny clarifies the origin and evolution of fundamental reproductive and ecological traits. Syst. Biol. 58, 224-239 (2009).
13. Gargas, A., DePriest, P. T., Grube, M. & Tehler, A. Multiple origins of lichen symbioses in fungi suggested by SSU rDNA phylogeny. Science 268, 1492-1495 (1995).
14. Liu, Y. J. & Hall, B. D. Body plan evolution of ascomycetes, as inferred from an RNA polymerase II phylogeny. Proc. Natl. Acad. Sci. U. S. A. 101, 4507-4512 (2004).
15. Gueidan, C. et al. A rock-inhabiting ancestor for mutualistic and pathogen-rich fungal lineages. Stud. Mycol. 61, 111-119 (2008).
16. Arnold, A. E. et al. A phylogenetic estimation of trophic transition networks for ascomycetous fungi: are lichens cradles of symbiotrophic fungal diversification? Syst. Biol. 58, 283-297 (2009).
17. Nelsen, M. P. The origins and diversification of lichen symbioses. Ph.D. Dissertation. U. of Chicago. (2014).
18. Lucking, R. et al. One hundred and sixty five new species of Graphidaceae: closing the gap or a drop in the bucket? Phytotaxa 189, 7-38 (2014).
19. Thell, A., Crespo, A., Divakar, P. K. & Karnefelt, I. A review of the lichen family Parmeliaceae-history, phylogeny and current taxonomy. Nordic Journal of Botany 30, 641-664 (2012).
20. Rabosky, D. L. Automatic detection of key innovations, rate shifts, and diversity-dependence on phylogenetic trees. PloS One 9, e89543 (2014).
21. Armstrong, R. & Bradwell, T. Growth of crustose lichens: a review. Geogr. Ann. Ser. A. Phys. Geogr. 92, 3-17 (2010).
22. Ranius, T., Johansson, P., Berg, N. & Niklasson, M. The influence of tree age and microhabitat quality on the occurrence of crustose lichens associated with old oaks. J. Veg. Sci. 19, 653-662 (2008).
23. Rivas Plata, E., Lucking, R. & Thorsten Lumbsch, H. A new classification for the family Graphidaceae (Ascomycota: Lecanoromycetes: Ostropales). Fungal Diversity 52, 107-121 (2012).
24. Rabosky, D. L., Donnellan, S. C., Grundler, M. & Lovette, I. J. Analysis and visualization of complex macroevolutionary dynamics: an example from Australian scincid lizards. Syst. Biol. 63, 610-627 (2014).
25. Lumbsch, H. T., Parnmen, S., Kraichak, E., Papong, K. B. & Lucking, R. High frequency of character transformations is phylogenetically structured within the lichenized fungal family Graphidaceae (Ascomycota: Ostropales). System. Biodivers. 12, 271-291 (2014).
26. Wallace, A. R. Natural selection and tropical nature: Essays on descriptive and theoretical biology (Macmillan, 1891).
27. Rivas Plata, E. Historical biogeography, ecology, and systematics of the family Graphidaceae (Ascomycota: Ostropales). Ph.D. Dissertation, University of Illionois-Chicago (2011).
28. Soltis, P. S. & Soltis, D. E. The origin and diversification of angiosperms. Am. J. Bot. 91, 1614-1626 (2004).
29. Boyce, C. K., Lee, J.-E., Feild, T. S., Brodribb, T. J. & Zwieniecki, M. A. Angiosperms Helped Put the Rain in the Rainforests: The Impact of Plant Physiological Evolution on Tropical Biodiversity. Ann. Mo. Bot. Gard. 97, 527-540 (2010).
30. Kraichak, E., Lucking, R. & Lumbsch, H. T. A unique trait associated with increased diversification in a hyper-diverse family of tropical lichen-forming fungi. Int. J. Plant Sci. In Press, (2015).
31. Lawrey, J. D. Biology of lichenized fungi. (Praeger, 1984).
32. Armstrong, R. A. & Welch, A. R. Competition in lichen communities. Symbiosis 43, 1-12 (2007).
33. McEvoy, M., Solhaug, K. A. & Gauslaa, Y. Solar radiation screening in usnic acid-containing cortices of the lichen Nephroma arcticum. Symbiosis 43, 143-150 (2007).
34. Jimenez-Moreno, G. Progressive substitution of a subtropical forest for a temperate one during the middle Miocene climate cooling in Central Europe according to palynological data from cores Tengelic-2 and Hidas-53 (Pannonian Basin, Hungary). Rev. Palaeobot. Palynol. 142, 1-14 (2006).
35. Crespo, A. et al. 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 (2007).
36. Hale, M. E. A synopsis of the lichen genus Xanthoparmelia (Vainio) Hale (Ascomycotina, Parmeliaceae). Smithson. Contrib. Bot. 74, 1-250 (1990).
37. Rosentreter, R. Vagrant Lichens in North America. Bryologist 96, 333-338 (1993).
38. Leavitt, S. D. & Clair, L. L. S. Lichens of the Boulder Mountain Plateau, Wayne County, Utah, USA. Evansia 25, 85-89 (2008).
39. Lumbsch, H. T., Hipp, A. L., Divakar, P. K., Blanco, O. & Crespo, A. Accelerated evolutionary rates in tropical and oceanic parmelioid lichens (Ascomycota). BMC. Evol. Biol. 8, 257 (2008).
40. Divakar, P. K., Kauff, F., Crespo, A., Leavitt, S. D. & Lumbsch, H. T. Understanding phenotypical character evolution in parmelioid lichenized fungi (Parmeliaceae, Ascomycota). PloS One 8, e83115 (2013).
41. Amo de Paz, G., Cubas, P., Divakar, P. K., Lumbsch, H. T. & Crespo, A. Origin and diversification of major clades in parmelioid lichens (Parmeliaceae, Ascomycota) during the Paleogene inferred by Bayesian analysis. PloS One 6, e28161 (2011).
42. De Paz, G. A. et al. HPLC isolation of antioxidant constituents from Xanthoparmelia spp. J. Pharm. Biomed. Anal. 53, 165-171 (2010).
43. Kong, F. X., Hu, W., Chao, S. Y., Sang, W. L. & Wang, L. S. Physiological responses of the lichen Xanthoparmelia mexicana to oxidative stress of SO2. Environ. Exp. Bot. 42, 201-209 (1999).
44. Demmig-Adams, B. & Adams, W. W. Photoprotection in an ecological context: the remarkable complexity of thermal energy dissipation. New. Phytol. 172, 11-21 (2006).
45. Rivas Plata, E. et al. A molecular phylogeny of Graphidaceae (Ascomycota, Lecanoromycetes, Ostropales) including 428 species. MycoKeys 6, 55 (2013).
46. Divakar, P. K. et al. Evolution of complex symbiotic relationships in a morphologically derived family of lichen-forming fungi. Proceedings of the Royal Society B In Review, (2014).
47. Drummond, A. J. & Rambaut, A. BEAST: Bayesian evolutionary analysis by sampling trees. BMC. Evol. Biol. 7, 214 (2007).
48. Alfaro, M. E. et al. Nine exceptional radiations plus high turnover explain species diversity in jawed vertebrates. Proceedings of the National Academy of Sciences 106, 13410-13414 (2009).
49. Kraichak, E. et al. Revisiting the phylogeny of Ocellularieae, the second largest tribe within Graphidaceae (lichenized Ascomycota: Ostropales). Phytotaxa 189, 52-81 (2014).
50. Royer, D. L., Berner, R. A., Montanez, I. P. & Tabor, N. J. CO2 as a primary driver of Phanerozoic climate. GSA Today (2004).
51. Zachos, J. C., Dickens, G. R. & Zeebe, R. E. An early Cenozoic perspective on greenhouse warming and carbon-cycle dynamics. Nature 451, 279-283 (2008).