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FUNGuild: An open annotation tool for parsing fungal community datasets by ecological guild

Nguyen, Nhu H., Song, Zewei, Bates, Scott T., Branco, Sara, Tedersoo, Leho, Menke, Jon, Schilling, Jonathan S., Kennedy, Peter G.·2016·Fungal Ecology
DOI 10.1016/j.funeco.2015.06.006
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Research works printed but not linked: 59

  1. Abarenkov, 2010, The UNITE database for molecular identification of fungi–recent updates and future perspectives, New. Phytol., 186, 281, 10.1111/j.1469-8137.2009.03160.x · DOI · Paper page
  2. Abarenkov, 2010, PlutoF—a web based workbench for ecological and taxonomic research, with an online implementation for fungal ITS sequences, Evol. Bioinform., 6, 189, 10.4137/EBO.S6271 · DOI · Paper page
  3. Agerer, 2001, Exploration types of ectomycorrhizae: a proposal to classify ectomycorrhizal mycelial systems according to their patterns of differentiation and putative ecological importance, Mycorrhiza, 11, 107, 10.1007/s005720100108 · DOI · Paper page
  4. Amend, 2010, Quantifying microbial communities with 454 pyrosequencing: does read abundance count?, Mol. Ecol., 19, 5555, 10.1111/j.1365-294X.2010.04898.x · DOI · Paper page
  5. Baldrian, 2012, Active and total microbial communities in forest soil are largely different and highly stratified during decomposition, ISME J., 6, 248, 10.1038/ismej.2011.95 · DOI · Paper page
  6. Bates, 2013, Global biogeography of highly diverse protistan communities in soil, ISME J., 7, 652, 10.1038/ismej.2012.147 · DOI · Paper page
  7. Bidartondo, 2008, Preserving accuracy in GenBank, Science, 319, 5870, 10.1126/science.319.5870.1616a · DOI · Paper page
  8. Blackwell, 2011, The Fungi: 1, 2, 3… 5.1 million species?, Am. J. Bot., 98, 426, 10.3732/ajb.1000298 · DOI · Paper page
  9. Branco, 2013, Fungi at a small scale: spatial zonation of fungal assemblages around single trees, PLoS One, 8, e78295, 10.1371/journal.pone.0078295 · doi:10.1371/journal.pone.0078295
  10. Brundrett, 2009, Mycorrhizal associations and other means of nutrition of vascular plants: understanding the global diversity of host plants by resolving conflicting information and developing reliable means of diagnosis, Plant Soil, 230, 37, 10.1007/s11104-008-9877-9 · DOI · Paper page
  11. Buée, 2009, 454 pyrosequencing analyses of forest soils reveal an unexpectedly high fungal diversity, New. Phytol., 184, 449, 10.1111/j.1469-8137.2009.03003.x · DOI · Paper page
  12. Caporaso, 2011, Global patterns of 16S rRNA diversity at a depth of millions of sequences per sample, Proc. Natl. Acad. Sci., 108, 4516, 10.1073/pnas.1000080107 · DOI · Paper page
  13. Clemmensen, 2013, Roots and associated fungi drive long-term carbon sequestration in boreal forest, Science, 339, 1615, 10.1126/science.1231923 · DOI · Paper page
  14. Clemmensen, 2015, Carbon sequestration is related to mycorrhizal fungal community shifts during long-term succession in boreal forests, New. Phytol., 205, 1525, 10.1111/nph.13208 · DOI · Paper page
  15. Filiatrault, 2011, Progress in prokaryotic transcriptomics, Curr. Opin. Microbiol., 14, 579, 10.1016/j.mib.2011.07.023 · DOI
  16. Gadgil, 1971, Mycorrhiza and litter decomposition, Nature, 233, 133, 10.1038/233133a0 · DOI
  17. Gotelli, 2004, A taxonomic wish-list for community ecology, Philos. Trans. R. Soc. Lond. B. Biol. Sci., 585, 10.1098/rstb.2003.1443 · DOI · Paper page
  18. Hawkins, 1989, Guilds: the multiple meanings of a concept, Annu. Rev. Entomol., 34, 423, 10.1146/annurev.en.34.010189.002231 · DOI · Paper page
  19. Herr, 2014, Towards the unification of microorganisms, New. Phytol., 205, 27, 10.1111/nph.13180 · DOI
  20. Hibbett, 2013, Toward genome-enabled mycology, Mycologia, 105, 1339, 10.3852/13-196 · DOI
  21. Högberg, 2003, Contrasting effects of nitrogen availability on plant carbon supply to mycorrhizal fungi and saprotrophs – a hypothesis based on field observations in boreal forest, New. Phytol., 160, 225, 10.1046/j.1469-8137.2003.00867.x · DOI
  22. Kerekes, 2013, Nutrient enrichment increased species richness of leaf litter fungal assemblages in a tropical forest, Mol. Ecol., 22, 2827, 10.1111/mec.12259 · DOI
  23. Koele, 2014, Ecological significance of mineral weathering in ectomycorrhizal and arbuscular mycorrhizal ecosystems from a field-based comparison, Soil Biol. Biochem., 69, 63, 10.1016/j.soilbio.2013.10.041 · doi:10.1016/j.soilbio.2013.10.041
  24. Kõljalg, 2013, Towards a unified paradigm for sequence-based identification of fungi, Mol. Ecol., 22, 5271, 10.1111/mec.12481 · DOI · Paper page
  25. Kubartová, 2012, Patterns of fungal communities among and within decaying logs, revealed by 454 sequencing, Mol. Ecol., 21, 4514, 10.1111/j.1365-294X.2012.05723.x · DOI · Paper page
  26. Kuo, 2014, Secret lifestyles of Neurospora crassa, Sci. Rep., 4, 5135, 10.1038/srep05135 · DOI
  27. Lambert, 1981, Biogeography of the Colorado herpetofauna, Am. Midl. Nat., 106, 145, 10.2307/2425144 · doi:10.2307/2425144
  28. Lekberg, 2014, Will different OTU delineation methods change interpretation of arbuscular mycorrhizal fungal community patterns?, New. Phytol., 202, 1101, 10.1111/nph.12758 · doi:10.1111/nph.12758
  29. Lindahl, 1999, Translocation of 32P between interacting mycelia of a wood-decomposing fungus and ectomycorrhizal fungi in microcosm systems, New. Phytol., 144, 183, 10.1046/j.1469-8137.1999.00502.x · doi:10.1046/j.1469-8137.1999.00502.x
  30. Münzenberger, 2012, Morphology, anatomy, and molecular studies of the ectomycorrhiza formed axenically by the fungus Sistotrema sp. (Basidiomycota), Mycol. Prog., 11, 817, 10.1007/s11557-011-0797-3 · doi:10.1007/s11557-011-0797-3
  31. Nguyen, 2015, Parsing ecological signal from noise in next generation amplicon sequencing, New. Phytol., 205, 1389, 10.1111/nph.12923 · DOI · Paper page
  32. Nilsson, 2008, Intraspecific ITS variability in the kingdom fungi as expressed in the international sequence databases and its implications for molecular species Identification, Evol. Bioinform., 4, 193, 10.4137/EBO.S653 · DOI · Paper page
  33. Nilsson, 2006, Taxonomic reliability of DNA sequences in public sequence databases: a fungal perspective, PLoS One, 1, e59, 10.1371/journal.pone.0000059 · DOI · Paper page
  34. Ottosson, 2014, Species associations during the succession of wood-inhabiting fungal communities, Fungal Ecol., 11, 17, 10.1016/j.funeco.2014.03.003 · DOI
  35. Parfitt, 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 Ecol., 3, 338, 10.1016/j.funeco.2010.02.001 · DOI · Paper page
  36. Peay, 2014, Back to the future: natural history and the way forward in modern fungal ecology, Fungal Ecol., 2, 4, 10.1016/j.funeco.2014.06.001 · DOI
  37. Peay, 2013, Strong coupling of plant and fungal community structure across western Amazonian rainforests, ISME J., 7, 1852, 10.1038/ismej.2013.66 · DOI · Paper page
  38. Peay, 2012, Measuring ectomycorrhizal fungal dispersal: macroecological patterns driven by microscopic propagules, Mol. Ecol., 21, 4122, 10.1111/j.1365-294X.2012.05666.x · DOI · Paper page
  39. Prober, 2015, Plant diversity predicts beta but not alpha diversity of soil microbes across grasslands worldwide, Ecol. Lett., 18, 85, 10.1111/ele.12381 · DOI · Paper page
  40. Riley, 2014, Extensive sampling of basidiomycete genomes demonstrates inadequacy of the white-rot/brown-rot paradigm for wood decay fungi, Proc. Natl. Acad. Sci., 111, 10.1073/pnas.1400592111 · DOI · Paper page
  41. Root, 1967, The niche exploitation pattern of the blue-gray gnatcatcher, Ecol. Monogr., 37, 317, 10.2307/1942327 · DOI · Paper page
  42. Rosling, 2011, Archaeorhizomycetes: unearthing an ancient class of ubiquitous soil fungi, Science, 333, 876, 10.1126/science.1206958 · DOI · Paper page
  43. Schadt, 2003, Seasonal dynamics of previously unknown fungal lineages in tundra soils, Science, 301, 1359, 10.1126/science.1086940 · DOI · Paper page
  44. Schilling, 2015, Signature wood modifications reveal decomposer community history, PLOS One, 10, e0120679, 10.1371/journal.pone.0120679 · DOI
  45. Shokralla, 2012, Next-generation sequencing technologies for environmental DNA research, Mol. Ecol., 21, 1794, 10.1111/j.1365-294X.2012.05538.x · DOI · Paper page
  46. Sieber, 2007, Endophytic fungi in forest trees: are they mutualists?, Fungal Biol. Rev., 21, 75, 10.1016/j.fbr.2007.05.004 · DOI · Paper page
  47. Simberloff, 1991, The guild concept and the structure of ecological communities, Annu. Rev. Ecol. Syst., 22, 115, 10.1146/annurev.es.22.110191.000555 · DOI · Paper page
  48. Smith, 2014, Sequence depth, not PCR replication, improves ecological inference from next generation DNA sequencing, PLoS One, 9, e90234, 10.1371/journal.pone.0090234 · DOI · Paper page
  49. Štursová, 2014, When the forest dies: the response of forest soil fungi to a bark beetle-induced tree dieback, ISME J., 8, 1920, 10.1038/ismej.2014.37 · doi:10.1038/ismej.2014.37
  50. Talbot, 2014, Endemism and functional convergence across the North American soil mycobiome, Proc. Natl. Acad. Sci. U. S. A., 111, 6341, 10.1073/pnas.1402584111 · DOI · Paper page
  51. Taylor, 2014, A first comprehensive census of fungi in soil reveals both hyperdiversity and fine-scale niche partitioning, Ecol. Monogr., 84, 3, 10.1890/12-1693.1 · DOI · Paper page
  52. Tedersoo, 2015, Shotgun metagenomes and multiple primer pair-barcode combinations of amplicons reveal biases in metabarcoding analyses of fungi, MycoKeys, 10, 1, 10.3897/mycokeys.10.4852 · DOI · Paper page
  53. Tedersoo, 2014, Global diversity and geography of soil fungi, Science, 80
  54. Tedersoo, 2013, Lineages of ectomycorrhizal fungi revisited: foraging strategies and novel lineages revealed by sequences from belowground, Fungal Biol. Rev., 27, 83, 10.1016/j.fbr.2013.09.001 · DOI · Paper page
  55. Tewksbury, 2014, Natural history's place in science and society, Biosci., 64, 300, 10.1093/biosci/biu032 · DOI · Paper page
  56. Walter, 1989, Species, guilds, and functional groups: taxonomy and behavior in nematophagous arthropods, J. Nematol., 21, 315
  57. Wang, 2007, Naïve Bayesian classifier for rapid assignment of rRNA sequences into the new bacterial taxonomy, Appl. Environ. Microbiol., 73, 5261, 10.1128/AEM.00062-07 · DOI · Paper page
  58. Wilson, 1999, Guilds, functional types and ecological groups, Oikos, 86, 507, 10.2307/3546655 · DOI · Paper page
  59. Worrall, 1997, Comparison of wood decay among diverse lignicolous fungi, Mycologia, 89, 199, 10.1080/00275514.1997.12026772 · DOI · Paper page

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Metadata

Authors
Nguyen, N. H., Song, Z., Bates, S. T., Branco, S., Tedersoo, L., Menke, J., Schilling, J. S., & Kennedy, P. G.
Venue
Fungal Ecology
Publisher
Elsevier BV
Published
2016-04
Volume
20
Pages
241-248
ISSN
1754-5048 (ISSN-L)
DOI
10.1016/j.funeco.2015.06.006
OpenAlex
W1005007408
Cited by
4,530
References
3
FWCI
111.50
Type
journal article
Language
en
Open access
closed
Licence
www.elsevier.com/tdm/userlicense/1.0/ (tdm)

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CoChat. (2026). Citation check: FUNGuild: An open annotation tool for parsing fungal community datasets by ecological guild. https://app.cochat.ai/papers/10.1016/j.funeco.2015.06.006
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Nguyen, N. H., Song, Z., Bates, S. T., Branco, S., Tedersoo, L., Menke, J., Schilling, J. S., & Kennedy, P. G. (2016). FUNGuild: An open annotation tool for parsing fungal community datasets by ecological guild. Fungal Ecology. https://doi.org/10.1016/j.funeco.2015.06.006

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