Phylogenetic diversity and structure of sebacinoid fungi associated with plant communities along an altitudinal gradient

FEMS Microbiology Ecology

Volumn 83, Issue 2, 2013, Pages 265-278

  Garnica, Sigisfredo ^a   Riess, Kai ^a   Bauer, Robert ^a   Oberwinkler, Franz ^a   Weiß, Michael ^a  

^a UNIVERSITY OF TÜBINGEN   (Germany)

Author keywords

Anthropogenic disturbance; Environmental forces; Molecular detection; Phylogenetic community structure; Plant soil (below ground) interactions; Sebacinales

Indexed keywords

ALTITUDE; ANTHROPOGENIC EFFECT; COMMUNITY STRUCTURE; ENVIRONMENTAL DISTURBANCE; ENVIRONMENTAL EFFECT; FUNGUS; GENETIC ANALYSIS; GRASSLAND; HUMUS; MOLECULAR ANALYSIS; ORDINATION; PHYLOGENETICS; PLANT COMMUNITY; POLYMERASE CHAIN REACTION; SOIL-VEGETATION INTERACTION; SPECIES DIVERSITY;

ALTITUDE; ARTICLE; BASIDIOMYCETES; CHEMISTRY; CLASSIFICATION; ECOSYSTEM; GENETICS; GERMANY; HOST RANGE; ISOLATION AND PURIFICATION; MICROBIOLOGY; MYCORRHIZA; PHYLOGENY; PLANT; PLANT ROOT; SOIL;

ALTITUDE; BASIDIOMYCOTA; ECOSYSTEM; GERMANY; HOST SPECIFICITY; MYCORRHIZAE; PHYLOGENY; PLANT ROOTS; PLANTS; SOIL;

ALPS; BAVARIAN ALPS; CENTRAL ALPS; GERMANY;

FUNGI; SEBACINALES;

EID: 84871951190     PISSN: 01686496     EISSN: 15746941     Source Type: Journal    
DOI: 10.1111/j.1574-6941.2012.01473.x     Document Type: Article

References (63)

1. Ad-hoc-Arbeitsgruppe Boden (1994) Bodenkundliche Kartieranleitung. Schweizerbart'sche Verlangsbuchhandlung, Stuttgart.
2. Altschul SF, Madden TL, Schäffer AA, Zhang J, Zhang Z, Miller W & Lipman DJ (1997) Gapped BLAST and PSI-BLAST: a new generation of protein database search programs. Nucleic Acids Res 25: 3389-3402.
3. Bauer R, Begerow D, Sampaio JP, Weiß M & Oberwinkler F (2006) The simple-septate basidiomycetes: a synopsis. Mycol Prog 5: 41-66.
4. Bidartondo MI & Duckett JG (2010) Conservative ecological and evolutionary patterns in liverwort-fungal symbioses. P R Soc B 277: 485-492.
5. Bjorbaekmo MF, Carlsen T, Brysting A, Vralstad T, Høiland K, Ugland KI, Geml J, Schumacher T & Kauserud H (2010) High diversity of root associated fungi in both alpine and arctic Dryas octopetala. BMC Plant Biol 10: 244. doi:10.1186/1471-2229-10-244.
6. Bruns TD, Bidartondo MI & Taylor DL (2002) Host specificity in ectomycorrhizal communities: what do the exceptions tell us? Integr Comp Biol 42: 352-359.
7. Buol SW, Hole FD, McCracken RJ & Soutard RJ (1997) Soil Genesis and Classification. Iowa State University Press, Ames.
8. Capella-Gutiérrez S, Silla-Martínez JM & Gabaldón T (2009) trimAl: a tool for automated alignment trimming in large-scale phylogenetic analyses. Bioinformatics 25: 972-1973.
9. Colwell RK (2009) EstimateS: statistical estimation of species richness and shared species from samples. Version 8.2. http://purl.oclc.org/estimates.
10. DeBellis T, Kernaghan G, Brandely R & Widden P (2006) Relationships between stand composition and ectomycorrhizal community structure in boreal mixed-wood forests. Microb Ecol 52: 114-126.
11. Dinnage R (2009) Disturbance alters the phylogenetic composition and structure of plant communities in an old field system. PLoS ONE 4: e17071. doi:10.1371/journal.pone.0007071.
12. Edgar R (2010) Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26: 2460-2461.
13. Ellenberg H, Weber HE, Düll R, Wirth V & Werner W (1992) Zeigerwerte von Pflanzen in Mitteleuropa. Verlag Erich Goltze, Göttingen.
14. Faith DP (1992) Conservation evaluation and phylogenetic diversity. Biol Conserv 61: 1-10.
15. Faith DP & Baker AM (2006) Phylogenetic diversity (PD) and biodiversity conservation: some bioinformatics challenges. Evol Bioinform Online 2: 70-77.
16. Fattorini M & Halle S (2004) The dynamic environmental filter model: how do filtering effects change in assembling communities after disturbance? Assembly Rules and Restoration Ecology (Temperton VW, Hobbs R, Nuttle T & Halle S, eds), pp. 96-114. Society for Ecological Restoration International, Island Press, Washington, DC.
17. Freudenberger W & Schwerd K (1996) Erläuterungen zur Geologischen Karte von Bayern 1: 500 000. Bayerisches Geologisches Landesamt, Munich.
18. Göker M, Grimm GW, Auch AF, Aurahs R & Kucera M (2010) A clustering optimization strategy for molecular taxonomy applied to planktonic Foraminifera SSU rDNA. Evol Bioinform Online 6: 97-112.
19. Gotelli NJ & Rohde K (2002) Co-occurrence of ectoparasites of marine fishes: a null model analysis. Ecol Lett 5: 86-94.
20. Haselwandter K (1979) Mycorrhizal status of ericaceous plants in alpine and subalpine areas. New Phytol 83: 427-431.
21. Haselwandter K & Read DJ (1980) Fungal associations of roots of dominant and sub-dominant plants in high-alpine vegetation systems with special reference to mycorrhiza. Oecologia 45: 57-62.
22. Johnson D, Ijdo M, Genney DR, Anderson IC & Alexander IJ (2005) How do plants regulate the function, community structure, and diversity of mycorrhizal fungi? J Exp Bot 56: 1751-1760.
23. Jumpponen A (2003) Soil fungal community assembly in a primary successional glacier forefront ecosystem as inferred from rDNA sequence analysis. New Phytol 158: 569-578.
24. Katoh K, Kuma K, Toh H & Miyata T (2005) MAFFT version 5: improvement in accuracy of multiple sequence alignment. Nucleic Acids Res 33: 511-518.
25. Kembel SW & Hubbell SP (2006) The phylogenetic structure of a neotropical forest tree community. Ecology 87: 86-99.
26. Lee C, Grasso C & Sharlow M (2002) Multiple sequence alignment using partial order graphs. Bioinformatics 18: 452-464.
27. Legendre P & Lapointe FJ (2004) Assessing the congruence among distance matrices: single malt Scotch whiskies revisited. Aust NZ J Stat 46: 615-629.
28. Lekberg Y, Schnoor T, Kjøller R, Gibbons SM, Hansen LH, Al-Soud WA, Sørensen SJ & Rosendahl S (2012) 454-sequencing reveals stochastic local reassembly and high disturbance within arbuscular mycorrhizal fungal communities. J Ecol 100: 151-160.
29. Molina R, Massicote H & Trappe JM (1992) Specificity phenomena in mycorrhizal symbiosis: community-ecological consequences and practical implications. Mycorrhiza Functioning: An Integrative Plant-Fungal Process (Allen MF, ed.), pp. 357-423. Wiley, New York, NY.
30. Mühlmann O, Bacher M & Peintner U (2008) Polygonum viviparum mycobionts on an alpine primary successional glacier forefront. Mycorrhiza 18: 87-95.
31. Nantel P & Neumann P (1992) Ecology of ectomycorrhizal basidiomycete communities on a local vegetation gradient. Ecology 73: 99-117.
32. Newsham KK & Bridge PD (2010) Sebacinales are associates of the leafy liverwort Lophozia excisa in the southern maritime Antarctic. Mycorrhiza 20: 307-313.
33. Rambaut A (2009) FigTree. Tree figure drawing tool version 1.3.1. Institute of Evolutionary Biology, University of Edinburgh. http://tree.bio.ed.ac.uk.
34. Richard F, Millot S, Gardes M & Selosse M-A (2005) Diversity and specificity of ectomycorrhizal fungi retrieved from an old-growth Mediterranean forest dominated by Quercus ilex. New Phytol 166: 1011-1023.
35. Ronquist F & Huelsenbeck JP (2003) MrBayes 3: Bayesian phylogenetic inference under mixed models. Bioinformatics 19: 1572-1574.
36. Ryberg M, Larsson E & Molau U (2009) Ectomycorrhizal diversity in Dryas octopetala and Salix reticulata in an Alpine cliff ecosystem. Arct Antarct Alp Res 41: 506-514.
37. Schlichting E, Blume HP & Stahr K (1995) Bodenkundliches Praktikum. Blackwell Wissenschafts-Verlag, Berlin.
38. Schubert R, Hilbig W & Klotz S (2001) Bestimmungsbuch der Pflanzengesellschaften Deutschlands. Spektrum Akademischer Verlag, Heidelberg.
39. Selosse M-A, Bauer R & Moyersoen B (2002a) Basal hymenomycetes belonging to the Sebacinaceae are ectomycorrhizal on temperate deciduous trees. New Phytol 155: 183-195.
40. Selosse M-A, Weiß M, Jany J-L & Tillier A (2002b) Communities and populations of sebacinoid basidiomycetes associated with the achlorophyllous orchid Neottia nidus-avis (L.) L.C.M. Rich and neighbouring tree ectomycorrhizae. Mol Ecol 11: 1831-1844.
41. Selosse M-A, Setaro S, Glatard F, Richard F, Urcelay C & Weiß M (2007) Sebacinales are common mycorrhizal associates of Ericaceae. New Phytol 174: 864-878.
42. Selosse M-A, Dubois MP & Alvarez N (2009) Do Sebacinales commonly associate with plant roots as endophytes? Mycol Res 113: 1062-1069.
43. Setaro SD & Kron KA (2011) Neotropical and North American Vaccinioideae (Ericaceae) share their mycorrhizal Sebacinales - an indication for concerted migration? PLoS Curr. 3: 3. doi:10.1371/currents.RRN1227.
44. Setaro S, Weiß M, Oberwinkler F & Kottke I (2006) Sebacinales form ectendomycorrhizas with Cavendishia nobilis, a member of the Andean clade of Ericaceae, in the mountain rain forest of southern Ecuador. New Phytol 169: 355-365.
45. Simpson EH (1949) Measurement of diversity. Nature 163: 688.
46. Stamatakis A (2006) RAxML-VI-HPC: maximum likelihood-based phylogenetic analyses with thousands of taxa and mixed models. Bioinformatics 22: 2688-2690.
47. Stamatakis A, Hoover P & Rougemont J (2008) A rapid bootstrap algorithm for the RAxML web servers. Syst Biol 57: 758-771.
48. Suárez JP, Weiß M, Abele A, Oberwinkler F & Kottke I (2008) Members of Sebacinales subgroup B form mycorrhizae with epiphytic orchids in a neotropical mountain rain forest. Mycol Prog 7: 75-85.
49. Swofford DL (2002) PAUP*. Phylogenetic Analysis Using Parsimony (*and Other Methods). Version 4. Sinauer Associates, Sunderland, MA.
50. Taylor DL & Bruns TD (1997) Independent, specialized innovations of ectomycorrhizal mutualism by two nonphotosynthetic orchids. P Natl Acad Sci USA 94: 4510-4515.
51. Tedersoo L, Kõljalg U, Hallenberg N & Larsson K-H (2003) Fine scale distribution of ectomycorrhizal fungi and roots across substrate layers including coarse woody debris in a mixed forest. New Phytol 159: 153-165.
52. ter Braak CJF & Smilauer P (2002) CANOCO Reference Manual and CanoDraw for Windows User's Guide: Software for Canonical Community Ordination (version 4.5). Microcomputer Power, Ithaca, NY.
53. Tilman D & Pacala SW (1993) The maintenance of species richness in plant communities. Species Diversity in Ecological Communities (Rickleffs R & Schluter D, eds), pp 13-25. University Press, Chicago, IL.
54. Toljander JF, Eberhardt U, Toljander YK, Paul LR & Taylor AFS (2006) Species composition of an ectomycorrhizal fungal community along a local nutrient gradient in a boreal forest. New Phytol 170: 873-883.
55. Vamosi SM, Heard SB, Vamosi C & Webb CO (2009) Emerging patterns in the comparative analysis of phylogenetic community structure. Mol Ecol 18: 572-592.
56. Väre H, Vestberg M & Eurola S (1992) Mycorrhiza and root-associated fungi in Spitsbergen. Mycorrhiza 1: 93-104.
57. Vincenot L, Tedersoo L, Richard F, Horcine H, Kõljalg U & Selosse M-A (2008) Fungal associates of Pyrola rotundifolia, a mixotrophic Ericaceae, from two Estonian boreal forests. Mycorrhiza 19: 15-25.
58. Webb CO (2000) Exploring the phylogenetic structure of ecological communities: an example for rain forest trees. Am Nat 156: 145-155.
59. Webb CO, Ackerly DD, McPeek MA & Donoghue MJ (2002) Phylogenies and community ecology. Annu Rev Ecol Syst 33: 475-505.
60. Webb CO, Ackerly DD & Kembel AW (2008) Phylocom: software for the analysis of phylogenetic community structure and trait evolution. Bioinformatics 24: 2098-2100.
61. Webb C, Ackerly D & Kembel S (2009) Phylocom: software for the analysis of phylogenetic community structure and character evolution (with Phylomatic and Evolve). Version 4.1. www.phylodiversity.net/phylocom.
62. Weiß M, Selosse M-A, Rexer K-H, Urban A & Oberwinkler F (2004) Sebacinales: a hitherto overlooked cosm of heterobasidiomycetes with a broad mycorrhizal potential. Mycol Res 108: 1003-1010.
63. Weiß M, Sýkorová Z, Garnica S, Riess K, Martos F, Krause C, Oberwinkler F, Bauer R & Redecker D (2011) Sebacinales everywhere: previously overlooked ubiquitous fungal endophytes. PLoS ONE 6: e16793. doi:10.1371/journal.pone.0016793.