Phylogenetic congruence of lichenised fungi and algae is affected by spatial scale and taxonomic diversity

PeerJ

Volumn 2014, Issue 1, 2014, Pages

  Buckley, Hannah L ^a   Rafat, Arash ^a   Ridden, Johnathon D ^a   Cruickshank, Robert H ^a   Ridgway, Hayley J ^a   Paterson, Adrian M ^a  

^a LINCOLN UNIVERSITY   (New Zealand)

Author keywords

Co diversification; Codivergence; Lichen; Moran's eigenvector mapping; Mycobiont; Photobiont; Scale; Spatial pattern; Symbiosis; Variance partitioning

Indexed keywords

ALGA; ARTICLE; DNA EXTRACTION; DNA SEQUENCE; FUNGUS; GENE MAPPING; GENE REPLICATION; GENETIC VARIABILITY; GEOGRAPHIC DISTRIBUTION; LICHEN (ORGANISM); MICROBIAL COMMUNITY; MICROBIAL DIVERSITY; MOLECULAR DYNAMICS; MOLECULAR ECOLOGY; MOLECULAR EVOLUTION; NONHUMAN; PHYLOGENY; POLYMERASE CHAIN REACTION; SAMPLING; SPATIAL ANALYSIS; SYMBIOSIS; TAXONOMY;

ALGAE; FUNGI;

EID: 84907681151     PISSN: None     EISSN: 21678359     Source Type: Journal    
DOI: 10.7717/peerj.573     Document Type: Article

References (54)

1. Ahmadjian V. 1993. The lichen symbiosis. New York: Wiley.
2. Balbuena JA, Míguez-Lozano R, Blasco-Costa I. 2012. PACo: a novel Procrustes application to cophylogenetic analysis. PLoS ONE 8:e61048 DOI 10.1371/journal.pone.0061048.
3. Beck A. 1999. Photobiont inventory of a lichen community growing on heavy-metal-rich rock. The Lichenologist 31:501-510 DOI 10.1017/S0024282999000651.
4. Beck A, Friedl T, Rambold G. 1998. Selectivity of photobiont choice in a defined lichen community: inferences from cultural and molecular studies. New Phytologist 139:709-720 DOI 10.1046/j.1469-8137.1998.00231.x.
5. Beck A, Kasalicky T, Rambold G. 2002. Myco-photobiontal selection in a Mediterranean cryptogam community with Fulgensia fulgida. New Phytologist 153:317-326 DOI 10.1046/j.0028-646X.2001.00315.x.
6. Bertness MD, Callaway R. 1994. Positive interactions in communities. Trends in Ecology & Evolution 9:191-193 DOI 10.1016/0169-5347(94)90088-4.
7. Borcard D, Gillert R, Legendre P. 2011. Numerical ecology with R. New York: Springer.
8. Buckley HL. 2011. Isolation affects tree-scale epiphytic lichen community structure on New Zealand mountain beech trees. Journal of Vegetation Science 22:1062-1071 DOI 10.1111/j.1654-1103.2011.01315.x.
9. Chase JM, Leibold MA. 2003. Ecological niches: linking classical and contermporary approaches. Chicago: The University of Chicago Press.
10. Cuthill JH, Charleston M. Phylogenetic codivergence supports coevolution of mimetic Heliconius butterflies. PLoS ONE 7:e36464 DOI 10.1371/journal.pone.0036464.
11. Dal Grande F, Widmer I, Wagner HH, Scheidegger C. 2012. Vertical and horizontal photobiont transmission within populations of a lichen symbiosis. Molecular Ecology 21:3159-3172 DOI 10.1111/j.1365-294X.2012.05482.x.
12. del Campo EM, Catala S, Gimeno J, del Hoyo A, Martínez-Alberola F, Casano LM, Grube M, Barreno E. 2013. The genetic structure of the cosmopolitan three-partner lichen Ramalina farinacea evidences the concerted diversification of symbionts. FEMS Microbiology Ecology 83:310-323 DOI 10.1111/j.1574-6941.2012.01474.x.
13. DePriest PT. 2004. Early molecular investigations of lichen-forming symbionts: 1986-2001. Annual Review of Microbiology 58:273-301 DOI 10.1146/annurev.micro.58.030603.123730.
14. du Toit N, Van Vuuren BJ, Matthee S, Matthee CA. 2013. Biogeography and host-related factors trump parasite life history: limited congruence among the genetic structures of specific ectoparasitic lice and their rodent hosts. Molecular Ecology 22:5185-5204 DOI 10.1111/mec.12459.
15. Elias M, Gompert Z, Jiggins C, Willmott K. 2008. Mutualistic interactions drive ecological niche convergence in a diverse butterfly community. PLoS Biology 6:e300 DOI 10.1371/journal.pbio.0060300.
16. Fahselt D. 2008. Individuals and populations of lichens. In: Nash TH, ed. Lichen biology. 2nd edition. Cambridge: Cambridge University Press.
17. Fernández-Mendoza F, Domaschke S, García MA, Jordan P, Martín MP, Printzen C. 2011. Population structure of mycobionts and photobionts of the widespread lichen Cetraria aculeata. Molecular Ecology 20:1208-1232 DOI 10.1111/j.1365-294X.2010.04993.x.
18. Friedl T, Büdel B. 2008. Photobionts. In: Nash TH, ed. Lichen biology. 2nd edition. Cambridge: Cambridge University Press.
19. Gross K. 2008. Positive interactions among competitors can produce species-rich communities. Ecology Letters 11:929-936 DOI 10.1111/j.1461-0248.2008.01204.x.
20. Grube M, Muggia L. 2010. Identifying algal symbionts in lichen symbioses. In: Nimis PL, Vignes Lebbe R, eds. Tools for identifying biodiversity: progress and problems. Trieste: Edizioni Universitá di Trieste, 295-299.
21. Henskens FL, Green TGA, Wilkins A. 2012. Cyanolichens can have both cyanobacteria and green algae in a common layer as major contributors to photosynthesis. Annals of Botany 110:555-563 DOI 10.1093/aob/mcs108.
22. Hollants J, Leliaert F, Verbruggen H, De Clerck O, Willems A. 2013. Host specificity and coevolution of Flavobacteriaceae endosymbionts within the siphonous green seaweed Bryopsis. Molecular Phylogenetics and Evolution 67:608-614 DOI 10.1016/j.ympev.2013.02.025.
23. Honegger R. 1991. Functional aspects of the lichen symbiosis. Annual Review of Plant Physiology and Plant Molecular Biology 42:553-578 DOI 10.1146/annurev.pp.42.060191.003005.
24. Kroken S, Taylor JW. 2000. Phylogenetic species, reproductive mode, and specificity of the green alga trebouxia forming lichens with the fungal genus letharia. The Bryologist 103:645-660 DOI 10.1639/0007-2745(2000)103[0645:PSRMAS]2.0.CO;2.
25. LaJeunesse T. 2002. Diversity and community structure of symbiotic dinoflagellates from Caribbean coral reefs. Marine Biology 141:387-400 DOI 10.1007/s00227-002-0829-2.
26. Lanterbecq D, Rouse GW, Eeckhaut I. 2010. Evidence for cospeciation events in the host-symbiont system involving crinoids (Echinodermata) and their obligate associates, the myzostomids (Myzostomida, Annelida). Molecular Phylogenetics and Evolution 54:357-371 DOI 10.1016/j.ympev.2009.08.011.
27. Light JE, Hafner MS. 2008. Codivergence in heteromyid rodents (Rodentia: Heteromyidae) and their sucking lice of the genus fahrenholzia (Phthiraptera: Anoplura). Systematic Biology 57:449-465 DOI 10.1080/10635150802169610.
28. Löytynoja A, Goldman N. 2005. An algorithm for progressive multiple alignment of sequences with insertions. Proceedings of the National Academy of Sciences of the United States of America 102:10557-10562 DOI 10.1073/pnas.0409137102.
29. Marini L, Nascimbene J, Nimis PL. 2011. Large-scale patterns of epiphytic lichen species richness: photobiont-dependent response to climate and forest structure. Science of the Total Environment 409:4381-4386 DOI 10.1016/j.scitotenv.2011.07.010.
30. Nash TH. 2008. Introduction. In: Nash TH, ed. Lichen biology. 2nd edition. Cambridge: Cambridge University Press.
31. Nelsen MP, Gargas A. 2008. Dissociation and horizontal transmission of codispersing lichen symbionts in the genus Lepraria (Lecanorales: Stereocaulaceae). New Phytologist 177:264-275.
32. Oksanen J, Blanchet FG, Kindt R, Legendre P, Minchin PR, O'Hara RB, Simpson GL, Solymos P, Stevens MHH, Wagner H. 2013. vegan: community ecology package. R package version 2.0-9 ed. Available at http://CRAN.R-project.org/package=vegan.
33. Paradis E. 2006. Analysis of phylogenetics and evolution with R. New York: Springer.
34. Peksa O, Škaloud P. 2011. Do photobionts influence the ecology of lichens? A case study of environmental preferences in symbiotic green alga Asterochloris (Trebouxiophyceae). Molecular Ecology 20:3936-3948 DOI 10.1111/j.1365-294X.2011.05168.x.
35. Peres-Neto PR, Legendre P, Dray S, Borcard D. 2006. Variation partitioning of species data matrices: estimation and comparison of fractions. Ecology 87:2614-2625 DOI 10.1890/0012-9658(2006)87[2614:VPOSDM]2.0.CO;2.
36. Piercey-Normore MD, DePriest PT. 2001. Algal switching among lichen symbioses. American Journal of Botany 88:1490-1498 DOI 10.2307/3558457.
37. Quek S-P, Davies SJ, Itino T, Pierce NE. 2004. Codiversification in ant-plant mutualism: stem texture and the evolution of host use in Crematogaster (Formicidae:Myrmicinae) inhabitants of Macaranga (Euphorbiaceae). Evolution 58:554-570 DOI 10.1111/j.0014-3820.2004.tb01678.x.
38. R Core Team. 2013. R: a language and environment for statistical computing. Vienna: R Foundation for Statistical Computing.
39. Ruprecht U, Brunauer G, Printzen C. 2012. Genetic diversity of photobionts in Antarctic lecideoid lichens from an ecological view point. The Lichenologist 44:661-678 DOI 10.1017/S0024282912000291.
40. Sanders WB. 2005. Observing microscopic phases of lichen life cycles on transparent substrata placed in situ. The Lichenologist 37:373-382 DOI 10.1017/S0024282905015070.
41. Stachowicz JJ. 2001. Mutualism, facilitation, and the structure of ecological communities: positive interactions play a critical, but underappreciated, role in ecological communities by reducing physical or biotic stresses in existing habitats and by creating new habitats on which many species depend. BioScience 51:235-246 DOI 10.1641/0006-3568(2001)051[0235:MFATSO]2.0.CO;2.
42. Subbotin SA, Krall EL, Riley IT, Chizhov VN, Staelens A, De Loose M, Moens M. 2004. Evolution of the gall-forming plant parasitic nematodes (Tylenchida: Anguinidae) and their relationships with hosts as inferred from Internal Transcribed Spacer sequences of nuclear ribosomal DNA. Molecular Phylogenetics and Evolution 30:226-235 DOI 10.1016/S1055-7903(03)00188-X.
43. Tamura K, Nei M. 1993. Estimation of the number of nucleotide substitutions in the control region of mitochondrial DNA in humans and chimpanzees. Molecular Biology and Evolution 10:512-526.
44. Thrall PH, Hochberg ME, Burdon JJ, Bever JD. 2007. Coevolution of symbiotic mutualists and parasites in a community context. Trends in Ecology & Evolution 22:120-126 DOI 10.1016/j.tree.2006.11.007.
45. Tilman D. 1982. Resource competition and community structure. Princeton: Princeton University Press.
46. Vargas Castillo R, Beck A. 2012. Photobiont selectivity and specificity in Caloplaca species in a fog-induced community in the Atacama Desert, northern Chile. Fungal Biology 116:665-676 DOI 10.1016/j.funbio.2012.04.001.
47. Walker DM, Castlebury LA, Rossman AY, Struwe L. 2014. Host conservatism or host specialization? Patterns of fungal diversification are influenced by host plant specificity in Ophiognomonia (Gnomoniaceae: Diaporthales). Biological Journal of the Linnean Society 111:1-16 DOI 10.1111/bij.12189.
48. Walser J-C. 2004. Molecular evidence for limited dispersal of vegetative propagules in the epiphytic lichen Lobaria pulmonaria. American Journal of Botany 91:1273-1276 DOI 10.3732/ajb.91.8.1273.
49. Waterman RJ, Bidartondo MI, Stofberg J, Combs JK, Gebauer G, Savolainen V, Barraclough TG, Anton P. 2011. The effects of above- and belowground mutualisms on orchid speciation and coexistence. The American Naturalist 177:E54-E68 DOI 10.1086/657955.
50. Werth S, Gugerli F, Holderegger R, Wagner HH, Csencsics D, Scheidegger C. 2007. Landscape-level gene flow in Lobaria pulmonaria, an epiphytic lichen. Molecular Ecology 16:2807-2815 DOI 10.1111/j.1365-294X.2007.03344.x.
51. Werth S, Scheidegger C. 2011. Congruent genetic structure in the lichen-forming fungus Lobaria pulmonaria and its green-algal photobiont. Molecular Plant-Microbe Interactions 25:220-230 DOI 10.1094/MPMI-03-11-0081.
52. Widmer I, Dal Grande F, Excoffier L, Holderegger R, Keller C, Mikryukov VS, Scheidegger C. 2012. European phylogeography of the epiphytic lichen fungus Lobaria pulmonaria and its green algal symbiont. Molecular Ecology 21:5827-5844 DOI 10.1111/mec.12051.
53. Yahr R, Vilgalys R, DePriest PT. 2004. Strong fungal specificity and selectivity for algal symbionts in Florida scrub Cladonia lichens. Molecular Ecology 13:3367-3378 DOI 10.1111/j.1365-294X.2004.02350.x.
54. Yahr R, Vilgalys R, DePriest PT. 2006. Geographic variation in algal partners of Cladonia subtenuis (Cladoniaceae) highlights the dynamic nature of a lichen symbiosis. New Phytologist 171:847-860 DOI 10.1111/j.1469-8137.2006.01792.x.