Arctic root-associated fungal community composition reflects environmental filtering

Molecular Ecology

Volumn 23, Issue 3, 2014, Pages 649-659

  Blaalid, Rakel ^a   Davey, Marie L ^b   Carlsen, Tor ^a   Halvorsen, Rune ^a   Høiland, Klaus ^a   Eidesen, Pernille B ^b  

^a UNIVERSITY OF OSLO   (Norway)

^b UNIVERSITY CENTRE IN SVALBARD   (Norway)

Author keywords

biogeography; Bistorta vivipara; endophyte; latitude; mycorrhiza

Indexed keywords

FUNGAL DNA; RIBOSOMAL SPACER DNA;

ARCTIC; ARTICLE; BIODIVERSITY; BIOGEOGRAPHY; BISTORTA VIVIPARA; DNA SEQUENCE; ENDOPHYTE; GENETICS; LATITUDE; MICROBIAL CONSORTIUM; MICROBIOLOGY; MYCORRHIZA; PLANT ROOT; POLYGONACEAE; SVALBARD AND JAN MAYEN;

BIOGEOGRAPHY; BISTORTA VIVIPARA; ENDOPHYTE; LATITUDE; MYCORRHIZA;

ARCTIC REGIONS; BIODIVERSITY; DNA, FUNGAL; DNA, RIBOSOMAL SPACER; MICROBIAL CONSORTIA; MYCORRHIZAE; PLANT ROOTS; POLYGONACEAE; SEQUENCE ANALYSIS, DNA; SOIL MICROBIOLOGY; SVALBARD;

EID: 84892970104     PISSN: 09621083     EISSN: 1365294X     Source Type: Journal    
DOI: 10.1111/mec.12622     Document Type: Article

References (71)

1. Amend AS, Seifert KA, Bruns TD, (2010) Quantifying microbial communities with 454 pyrosequencing: does read abundance count? Molecular Ecology, 19, 5555-5565.
2. Arnold AE, Lutzoni F, (2007) Diversity and host range of foliar fungal endophytes: are tropical leaves biodiversity hotspots? Ecology, 88, 541-549.
3. Berry D, Ben Mahfoudh K, Wagner M, Loy A, (2011) Barcoded primers used in multiplex amplicon pyrosequencing bias amplification. Applied and Environmental Microbiology, 77, 7846-7849.
4. Bjorbækmo MFM, Carlsen T, Brysting A, et al,. (2010) High diversity of root associated fungi in both alpine and arctic Dryas octopetala. BMC Plant Biology, 10, 244.
5. Blaalid R, Carlsen T, Kumar S, et al,. (2012) Changes in the root-associated fungal communities along a primary succession gradient analysed by 454 pyrosequencing. Molecular Ecology, 21, 1897-1908.
6. Blaalid R, Kumar S, Nilsson RH, Abarenkov K, Kirks PM, Kauserud H, (2013) ITS1 versus ITS2 as DNA metabarcodes for fungi. Molecular Ecology Resources, 13, 218-224.
7. Blaschke H, (1991) Multiple mycorrhizal association of individual calcicole host plants in the alpine grass-heath zone. Mycorrhiza, 1, 31-34.
8. Bledsoe C, Klein P, Bliss LC, (1990) A survey of mycorrhizal plants on Truelove Lowland, Devon Island, N.W.T., Canada. Canadian Journal of Botany, 68, 1848-1856.
9. Caporaso JG, Kuczynski J, Stombaugh J, et al,. (2010) QIIME allows analysis of high-throughput community sequencing data. Nature Methods, 7, 335-336.
10. Carlsen T, Aas AB, Lindner D, Vrålstad T, Schumacher T, Kauserud H, (2012) Don't make a mista(g)ke: is tag switching an overlooked source of error in amplicon pyrosequencing studies? Fungal Ecology, 5, 747-749.
11. Clemmensen KE, Michelsen A, (2006) Integrated long-term responses of an arctic-alpine willow and associated ectomycorrhizal fungi to an altered environment. Canadian Journal of Botany, 84, 831-843.
12. Colwell RK, (2009) EstimateS: Statistical Estimation of Species Richness and Shared Species from Samples. Version 8.2. User's Guide and application published at: http://purl.oclc.org/estimates.
13. Crawley MJ, (2007) The R Book. Wiley, Chichester, UK.
14. Currah RS, van Dyk M, (1986) A survey of some perennial vascular plant species native to Alberta for occurrence of mycorrhizal fungi. The Canadian Field Naturalist, 100, 330-342.
15. Deslippe JR, Simard SW, (2011) Below-ground carbon transfer among Betula nana may increase with warming in Arctic tundra. New Phytologist, 192, 689-698.
16. Edgar RC, (2010) Search and clustering orders of magnitude faster than BLAST. Bioinformatics, 26, 2460-2461.
17. Elvebakk A, (1999) Bioclimate delimitation and subdivisions of the Arctic. In: The Species Concept in the High North-A Panarctic Flora Initiative (eds, Nordal I, Razzhivin VY,), pp. 81-112. The Norwegian Academy of Science and Letters, Oslo, Norway.
18. Fujimura KE, Egger KN, (2012) Host plant and environment influence community assembly of High Arctic root-associated fungal communities. Fungal Ecology, 5, 409-418.
19. Fujimura KE, Egger KN, Henry GHR, (2008) The effect of experimental warming on the root-associated fungal community of Salix arctica. ISME Journal, 2, 105-114.
20. Gardes M, Bruns TD, (1993) ITS primers with enhanced specificity for basidiomycetes-application to the identification of mycorrhizae and rusts. Molecular Ecology, 2, 113-118.
21. Gardes M, Dahlberg A, (1996) Mycorrhizal diversity in arctic and alpine tundra: an open question. New Phytologist, 133, 147-157.
22. Geml J, Timling I, Robinson CH, et al,. (2012) An Arctic community of symbiotic fungi assembled by long-distance dispersers: phylogenetic diversity of ectomycorrhizal basidiomycetes in Svalbard based on soil and sporocarp DNA. Journal of Biogeography, 39, 74-88.
23. Gillevet P, Sikaroodi M, Keshavarzian S, Mutlu EA, (2010) Quantitative assessment of the human gut microbiome using multitag pyrosequencing. Chemistry & Biodiversity, 7, 1065-1075.
24. Gulden G, Torkelsen AE, (1996) Fungi I. Basidiomycota: Agaricales, Aphyllophorales, Exobasdiales, Dacrymycetales and Tremellales. In: A Catalogue of Svalbard Plants, Fungi, Algae and Cyanobacteria (eds, Elvebakk A, Prestrud P,), pp 173-206. Norsk Polarinstitutt Skrifter 198, Oslo, Norway.
25. Hesselmann H, (1900) Om mycorrhizabildingar hos artiska växter. Bihang till Kongliga Svenska Vetenskaps-Akademiens Handlingar, 26, 1-46.
26. Hill MO, (1979) DECORANA-A FORTRAN Program for Detrended Correspondence Analysis and Reciprocal Averaging. Cornell University, New York, USA.
27. Hill MO, Gauch HG Jr, (1980) Detrended correspondence analysis: an improved ordination technique. Vegetatio, 42, 47-58.
28. Hobbie JE, Hobbie EA, (2006) 15N in symbiotic fungi and plants estimates nitrogen and carbon flux rates in Arctic tundra. Ecology, 87, 816-822.
29. Kauserud H, Kumar S, Brysting A, Nordén J, Carlsen T, (2012) High consistency between replicate 454 pyrosequencing analyses of ectomycorrhizal plant root samples. Mycorrhiza, 22, 309-315.
30. Kirk PM, Cannon PF, Minter DW, Stalpers JA, (2008) Dictionary of the Fungi, 10th edn. CABI, Wallingford.
31. Kóljalg U, (1996) Tomentella (Basidiomycota) and related genera in the temperate Eurasia. Synopsis Fungorum, 9, 1-213.
32. Kruskal JB, (1964a) Multidimensional scaling optimizing goodness of fit to a nonmetric hypothesis. Psychometrika, 29, 1-27.
33. Kruskal JB, (1964b) Nonmetric multidimensional scaling: a numerical method. Psychometrika, 29, 115-129.
34. Kuyper TW, (1986) A revision of the genus Inocybe in Europe. I. Subgenus Inosperma and the smooth-spored species of subgenus Inocybe. Persoonia supplement volume, 3, 1-247.
35. Lilleskov EA, Bruns TD, Horton TR, Taylor DL, Grogan P, (2004) Detection of forest stand-level spatial structure in ectomycorrhizal fungal communities. FEMS Microbiology Ecology, 49, 3193-3332.
36. Liu HY, Økland T, Halvorsen R, Gao JX, Liu QR, Eilertsen O, (2008) Gradient analyses of forests ground vegetation and its relationships to environmental variables in five subtropical forest areas, S and SW China. Sommerfeltia, 32, 1-196.
37. Ludley KE, Robinson CH, (2007) 'Decomposer' basidiomycota in Arctic and Antarctic ecosystems. Soil Biology & Biochemistry, 40, 11-29.
38. Martin KJ, Rygiewicz PT, (2005) Fungal-specific PCR primers developed for analysis of the ITS region of environmental DNA extracts. BMC Microbiology, 5, 28.
39. Massicotte HB, Melville LH, Peterson RL, Luoma DL, (1998) Anatomical aspects of field ectomycorrhizas on Polygonum viviparum (Polygonaceae) and Kobresia bellardii (Cyperaceae). Mycorrhiza, 7, 287-292.
40. Minchin PR, (1987) An evaluation of the relative robustness of techniques for ecological ordination. Vegetatio, 69, 89-107.
41. Mühlmann O, Bacher M, Peintner U, (2008) Polygonum viviparum mycobionts on an alpine primary successional glacier forefront. Mycorrhiza, 18, 87-95.
42. Murray MG, Thompson WF, (1980) Rapid isolation of high weight plant DNA. Nucleic Acids Research, 8, 4321-4325.
43. Nespiak A, (1953) Mycotrophy of the alpine vegetation of the Tatra mountains. Acta Sococietatis Botanicorum Poloniae, 22, 97-125.
44. Newsham KK, (2011) A meta-analysis of plant responses to dark septate root endophytes. New Phytologist, 190, 783-793.
45. Økland RH, (1990) Vegetation ecology: theory, methods and applications with reference to Fennoscandia. Sommerfeltia, S1, S1-S233.
46. Økland RH, (1996a) Are ordination and constrained ordination alternative or complementary strategies in general ecological studies? Journal of Vegetation Science, 7, 289-292.
47. Økland T, (1996b) Vegetation-environment relationships of boreal spruce forest in ten monitoring reference areas in Norway. Sommerfeltia, 22, 1-349.
48. Økland RH, Eilertsen O, (1993) Vegetation-environment relationships of boreal coniferous forests in the Solhomfjell area, Gjerstad, S Norway. Sommerfeltia, 16, 1-254.
49. Oksanen J, Blanchet FG, Kindt R, Legendre P, Minchin PR, O'Hara RB, (2011) vegan: Community Ecology Package. R package version 2.0-0. http://CRAN.R-project.org/package=vegan
50. Pickles BJ, Genney DR, Potts JM, Lennon JJ, Anderson IC, Alexander IJ, (2010) Spatial and temporal ecology of Scots pine ectomycorrhizas. New Phytologist, 186, 755-768.
51. Pólme S, Bahram M, Yamanaka T, et al,. (2013) Biogeography of ectomycorrhizal fungi associated with alders (Alnus spp.) in relation to biotic and abiotic variables at the global scale. New Phytologist, 198, 1239-1249.
52. R Development Core Team (2013) R: A Language and Environment for Statistical Computing. R Foundation for Statistical Computing, Vienna.
53. Raja HA, Schmit JP, Shearer CA, (2009) Longitudinal, habitat, and substrate distribution patterns of freshwater ascomycetes in the Florida peninsula. Biodiversity and Conservation, 18, 419-455.
54. Read DJ, Haselwandter K, (1981) Observations on the mycorrhizal status of some alpine plant communities. New Phytologist, 88, 341-352.
55. Reeder J, Knight R, (2010) Rapid denoising of pyrosequencing amplicon data: exploiting the rank-abundance distribution. Nature Methods, 7, 668-669.
56. Richardson MJ, (2001) Diversity and occurrence of coprophilous fungi. Mycological Research, 105, 387-402.
57. Roe AD, James PMA, Rice AV, Cooke JE, Sperling FA, (2011) Spatial community structure of mountain pine beetle fungal symbionts across a latitudinal gradient. Microbial Ecology, 62, 347-360.
58. Schloss PD, Westcott SL, Ryabin T, et al,. (2009) Introducing mothur: open/source, platform-independent, community-supported software for describing and comparing microbial communities. Applied and Environmental Microbiology, 75, 7537-7541.
59. Stockinger H, Krüger M, Schüßler A, (2010) DNA barcoding of arbuscular mycorrhizal fungi. New Phytologist, 187, 461-474.
60. Tedersoo L, Nara K, (2010) General latitudinal gradient of biodiversity is reversed in ectomycorrhizal fungi. New Phytologist, 185, 351-354.
61. Tedersoo L, Nilsson RH, Abarenkov K, Jairus T, Sadam A, Saar I, (2010) 454 Pyrosequencing and Sanger sequencing of tropical mycorrhizal fungi provide similar results but reveal substantial methodological biases. New Phytologist, 188, 291-301.
62. Tedersoo L, Bahram M, Toots M, et al,. (2012) Towards global patterns in the diversity and community structure of ectomycorrhizal fungi. Molecular Ecology, 21, 4160-4170.
63. Tibbett M, Cairney JWG, (2007) The cooler side of mycorrhizas: their occurrence and functioning at low temperatures. Canadian Journal of Botany, 85, 51-62.
64. Timling I, Taylor DL, (2012) Peeking through a frosty window: molecular insights into the ecology of Arctic soil fungi. Fungal Ecology, 5, 419-429.
65. Timling I, Dahlberg A, Walker DA, et al,. (2012) Distribution and drivers of ectomycorrhizal fungal communities across the North American Arctic. Ecosphere, 3, 111.
66. Väre H, Vestberg M, Eurola S, (1992) Mycorrhiza and root-associated fungi in Spitsbergen. Mycorrhiza, 1, 93-104.
67. Walker DA, Raynolds MK, Daniëls FJA, et al,. (2005) The circumpolar Arctic vegetation map. Journal of Vegetation Science, 16, 267-282.
68. Weiß M, Selosse MA, Rexer KH, Urban A, Oberwinkler F, (2004) Sebacinales: a hitherto overlooked cosm of heterobasidiomycetes with a broad mycorrhizal potential. Mycological Research, 108, 1003-1010.
69. Weiß M, Sykorova Z, Garnica S, et al,. (2011) Sebacinales everywhere: Previously overlooked ubiquitous fungal endophytes. PLoS ONE, 6, e16793.
70. White TJ, Bruns T, Taylor J, (1990) Amplification and direct sequencing of fungal ribosomal RNA genes for phylogenetics. In: PCR Protocols: A Guide to Methods and Applications (eds, Innis MA, Gelfand DH, Sninsky JJ, White TJ,), pp. 315-322. Academic Press, New York, USA.
71. Yao F, Vik U, Brysting AK, Carlsen T, Halvorsen R, Kauserud H, (2013) Substantial compositional turnover of fungal communities in alpine ridge-to-snowbed gradient. Molecular Ecology, 22, 5040-5052.