Neglected role of fungal community composition in explaining variation in wood decay rates

Ecology

Volumn 96, Issue 1, 2015, Pages 124-133

  Van Der Wal, A ^a   Ottosson, E ^a   De Boer, W ^a,b  

^a NETHERLANDS INSTITUTE OF ECOLOGY NIOO KNAW   (Netherlands)

^b WAGENINGEN UNIVERSITY   (Netherlands)

Author keywords

454 pyrosequencing of ITS; Assembly; Fungal interactions; Local scale; Moisture content; Quercus robur; Saprotrophic fungi; Sapwood; Wood decomposition

Indexed keywords

CARBON CYCLE; CARBON SEQUESTRATION; COEXISTENCE; COMMUNITY COMPOSITION; COMMUNITY DYNAMICS; COMPETITION (ECOLOGY); DECIDUOUS TREE; DECOMPOSITION; ECOLOGICAL MODELING; FOREST ECOSYSTEM; FUNGUS; MOISTURE CONTENT; SAPROTROPHY; WOOD;

ASCOMYCOTA; FUNGI; QUERCUS ROBUR;

FUNGUS; MICROBIAL CONSORTIUM; MICROBIOLOGY; OAK; WOOD;

FUNGI; MICROBIAL CONSORTIA; QUERCUS; SOIL MICROBIOLOGY; WOOD;

EID: 84928890064     PISSN: 00129658     EISSN: None     Source Type: Journal    
DOI: 10.1890/14-0242.1     Document Type: Article

References (44)

1. Abarenkov, K., et al. 2010. The UNITE database for molecular identification of fungi-recent updates and future perspectives. New Phytologist 186:281-285.
2. Baldrian, P. 2006. Fungal laccases-occurrence and properties. FEMS Microbiology Reviews 30:215-242.
3. Boddy, L. 2001. Fungal community ecology and wood decomposition processes in angiosperms: from standing tree to complete decay of coarse woody debris. Ecological Bulletins 49:43-56.
4. Boddy, L., E. M. Owens, and I. H. Chapela. 1989. Small-scale variation in decay rate within logs one year after felling: effect of fungal community structure and moisture content. FEMS Microbiology Ecology 62:173-184.
5. Brischke, C., and A. Rapp. 2008. Dose-response relationships between wood moisture content, wood temperature and fungal decay determined for 23 European field test sites. Wood Science and Technology 42:507-518.
6. Caporaso, J. G., et al. 2010. QIIME allows analysis of highthroughput community sequencing data. Nature Methods 7: 335-336.
7. Chapela, I. H., L. Boddy, and A. D. M. Rayner. 1988. Structure and development of fungal communities in beech logs four and a half years after felling. FEMS Microbiology Letters 53:59-70.
8. Cornelissen, J. H. C., et al. 2012. Controls on coarse wood decay in temperate tree species: birth of the LOGLIFE experiment. Ambio 41:231-245.
9. Cornwell, W. K., J. H. C. Cornelissen, S. D. Allison, J. Bauhus, P. Eggleton, C. M. Preston, F. Scarff, J. T. Weedon, C. Wirth, and A. E. Zanne. 2009. Plant traits and wood fates across the globe: rotted, burned, or consumed? Global Change Biology 15:2431-2449.
10. Edgar, R. C. 2010. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26:2460-2461.
11. Edgar, R. C., B. J. Haas, J. C. Clemente, C. Quince, and R. Knight. 2011. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27:1-7.
12. Fahey, T. J., et al. 2005. The biogeochemistry of carbon at Hubbard Brook. Biogeochemistry 75:109-176.
13. Fukami, T., I. A. Dickie, J. P. Wilkie, B. C. Paulus, D. Park, A. Roberts, P. K. Buchanan, and R. B. Allen. 2010. Assembly history dictates ecosystem functioning: evidence from wood decomposer communities. Ecology Letters 13:675-684.
14. Fukasawa, Y., T. Osono, and H. Takeda. 2011. Wood decomposing abilities of diverse lignicolous fungi on nondecayed and decayed beech wood. Mycologia 103:474-482.
15. Goecks, J., A. Nekrutenko, and J. Taylor. 2010. Galaxy: a comprehensive approach for supporting accessible, reproducible, and transparent computational research in the life sciences. Genome Biology 11:R86.
16. Gotelli, N. J., and G. L. Entsminger. 2009. EcoSim: null models software for ecology. Version 7. Acquired Intelligence and Kesey-Bear, Jericho, Vermont, USA.
17. Hättenschwiler, S., N. Fromin, and S. Barantal. 2011. Functional diversity of terrestrial microbial decomposers and their substrates. Comptes Rendus Biologies 334:393-402.
18. Heilmann-Clausen, J., and L. Boddy. 2005. Inhibition and stimulation effects in communities of wood decay fungi: Exudates from colonized wood influence growth by other species. Microbial Ecology 49:399-406.
19. Ihrmark, K., et al. 2012. New primers to amplify the fungal ITS2 region-evaluation by 454-sequencing of artificial and natural communities. FEMS Microbiology Ecology 82:666-677.
20. Kubartová, A., E. Ottosson, A. Dahlberg, and J. Stenlid. 2012. Patterns of fungal communities among and within decaying logs, revealed by 454 sequencing. Molecular Ecology 21: 4514-4532.
21. Larkin, M. A., et al. 2007. Clustal W and Clustal X version 2.0. Bioinformatics 23:2947-2948.
22. Lindner, D. L., R. Vasaitis, A. Kubartová, J. Allmér, H. Johannesson, M. T. Banik, and J. Stenlid. 2011. Initial fungal colonizer affects mass loss and fungal community development in Picea abies logs 6 yr after inoculation. Fungal Ecology 4:449-460.
23. Mackensen, J., J. Bauhus, and E. Webber. 2003. Decomposition rates of coarse woody debris-a review with particular emphasis on Australian tree species. Australian Journal of Botany 51:27-37.
24. Niemelä, T., P. Renvall, and R. Penttilä. 1995. Interactions of fungi at late stages of wood decomposition. Annales Botanici Fennici 32:141-152.
25. Osono, T., Y. Fukasawa, and H. Takeda. 2003. Roles of diverse fungi in larch needle-litter decomposition. Mycologia 95: 820-826.
26. Palviainen, M., L. Finer, R. Laiho, E. Shorohova, E. Kapitsa, and I. Vanha-Majamaa. 2010. Carbon and nitrogen release from decomposing Scots pine, Norway spruce and silver birch stumps. Forest Ecology Management 259:390-398.
27. Parfitt, D., J. Hunt, D. Dockrell, H. J. Rogers, and L. Boddy. 2010. Do all trees carry the seeds of their own destruction? PCR reveals numerous wood decay fungi latently present in sapwood of a wide range of angiosperm trees. Fungal Ecology 3:338-346.
28. Payne, C., A. Bruce, and H. Y. Staines. 2000. Yeast and bacteria as biological control agents against fungal discolouration of Pinus sylvestris blocks in laboratory-based tests and the role of antifungal volatiles. Holzforschung 54:563-569.
29. Persson, Y., K. Ihrmark, and J. Stenlid. 2011. Do bark beetles facilitate the establishment of rot fungi in Norway spruce? Fungal Ecology 4:262-269.
30. Radtke, P. J., R. L. Amateis, S. P. Prisley, C. A. Copenheaver, D. C. Chojnacky, J. R. Pittman, and H. E. Burkhart. 2009. Modeling production and decay of coarse woody debris in loblolly pine plantations. Forest Ecology and Management 257:790-799.
31. Rajala, T., M. Peltoniemi, J. Hantula, R. Mäkipää, and T. Pennanen. 2011. RNA reveals a succession of active fungi during the decay of Norway spruce logs. Fungal Ecology 4: 437-448.
32. Rajala, T., M. Peltoniemi, T. Pennanen, and R. Mäkipää. 2012. Fungal community dynamics in relation to substrate quality of decaying Norway spruce (Picea abies [L.] Karst.) logs in boreal forests. FEMS Microbiology Ecology 81:494-505.
33. Rayner, A. D. M., and N. K. Todd. 1979. Population and community structure and dynamics of fungi in decaying wood. Advances in Botanical Research 7:334-420.
34. Schmidt, O. 2006. Wood and tree fungi. Biology, damage, protection, and use. Springer-Verlag, Heidelberg, Germany.
35. Stokland, J. N., J. Siitonen, and B. G. Jonsson. 2012. Biodiversity in dead wood. Cambridge University Press, New York, New York, USA.
36. Tedersoo, L., K. Pärtel, T. Jairus, G. Gates, K. Põldmaa, and H. Tamm. 2009. Ascomycetes associated with ectomycorrhizas: molecular diversity and ecology with particular reference to the Helotiales. Environmental Microbiology 11:3166-3178.
37. ter Braak, C. J. F., and P. Smilauer. 2006. Canoco for Windows, version. 4.55. Biometyris, Plant Research International, Wageningen, The Netherlands.
38. van der Wal, A., W. de Boer, W. Smant, and J. van Veen. 2007. Initial decay of woody fragments in soil is influenced by size, vertical position, nitrogen availability and soil origin. Plant and Soil 301:189-201.
39. van der Wal, A., T. D. Geydan, T.W. Kuyper, and W. de Boer. 2013. A thready affair: linking fungal diversity and community dynamics to terrestrial decomposition processes. FEMS Microbiology Reviews 37:477-494.
40. Wang, Z., M. Binder, C. L. Schoch, P. R. Johnston, J. W. Spatafora, and D. S. Hibbett. 2006. Evolution of helotialean fungi (Leotiomycetes, Pezizomycotina): a nuclear rDNA phylogeny. Molecular Phylogenetics and Evolution 41:295-312.
41. Woodall, C. W. 2010. Carbon flux of down woody materials in forests of the North Central United States. International Journal of Forestry Research 2010:1-9.
42. Woodward, S., and L. Boddy. 2008. Interactions between saprotrophic fungi. Pages 125-141 in L. Boddy, J. C. Frackland, and P. van West, editors. Ecology of saprotrophic Basidiomycetes. British Mycological Society Symposia Series. Academic Press, London, UK.
43. Yin, X. W. 1999. The decay of forest woody debris: numerical modeling and implications based on some 300 data cases from North America. Oecologia 121:81-98.
44. Zell, J., G. Kandler, and M. Hanewinkel. 2009. Predicting constant decay rates of coarse woody debris-a metaanalysis approach with a mixed model. Ecological Modelling 220:904-912.