Abstract
Although only a relatively small proportion of plant species form ectomycorrhizae with fungi, it is crucial for growth and survival for a number of widespread woody plant species. Few studies have attempted to investigate the fine scale spatial structure of entire root systems of adult ectomycorrhizal (EcM) plants. Here, we use the herbaceous perennial Bistorta vivipara to map the entire root system of an adult EcM plant and investigate the spatial structure of its root-associated fungi. All EcM root tips were sampled, mapped and identified using a direct PCR approach and Sanger sequencing of the internal transcribed spacer region. A total of 32.1% of all sampled root tips (739 of 2302) were successfully sequenced and clustered into 41 operational taxonomic units (OTUs). We observed a clear spatial structuring of the root-associated fungi within the root system. Clusters of individual OTUs were observed in the younger parts of the root system, consistent with observations of priority effects in previous studies, but were absent from the older parts of the root system. This may suggest a succession and fragmentation of the root-associated fungi even at a very fine scale, where competition likely comes into play at different successional stages within the root system.
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References
Agerer R (2001) Exploration types of ectomycorrhizae: a proposal to classify ectomycorrhizal mycelial systems according to their patterns of differentiation and putative ecological importance. Mycorrhiza 11:107–114. https://doi.org/10.1007/s005720100108
Agerer & Rambold (2004-2018) DEEMY—an information system for characterization and determination of Ectomycorrhizae.www.deemy.de –München, Ger
Alford R, Wilbur H (1985) Priority effects in experimental pond communities: competition between Bufo and Rana. Ecology 66:1097–1105
Alva V, Nam S-Z, Söding J, Lupas AN (2016) The MPI bioinformatics toolkit as an integrative platform for advanced protein sequence and structure analysis. Nucleic Acids Res 44:W410–W415. https://doi.org/10.1093/nar/gkw348
Alvarado P, Moreno G, Vizzini A, Consiglio G, Manjón JL, Setti L (2015) Atractosporocybe, Leucocybe and Rhizocybe : three new clitocyboid genera in the Tricholomatoid clade (Agaricales) with notes on Clitocybe and Lepista. Mycologia 107:123–136. https://doi.org/10.3852/13-369
Anderson IC, Genney DR, Alexander IJ (2014) Fine-scale diversity and distribution of ectomycorrhizal fungal mycelium in a Scots pine forest. New Phytol 201:1423–1430. https://doi.org/10.1111/nph.12637
Averill C, Turner BL, Finzi AC (2014) Mycorrhiza-mediated competition between plants and decomposers drives soil carbon storage. Nature 505:543–545. https://doi.org/10.1038/nature12901
Bahram M, Peay KG, Tedersoo L (2015) Local-scale biogeography and spatiotemporal variability in communities of mycorrhizal fungi. New Phytol 205:1454–1463. https://doi.org/10.1111/nph.13206
Bahram M, Põlme S, Kõljalg U, Tedersoo L (2011) A single European aspen (Populus tremula) tree individual may potentially harbour dozens of Cenococcum geophilum ITS genotypes and hundreds of species of ectomycorrhizal fungi. FEMS Microbiol Ecol 75:313–320. https://doi.org/10.1111/j.1574-6941.2010.01000.x
Bergemann SE, Miller SL (2002) Size, distribution, and persistence of genets in local populations of the late-stage ectomycorrhizal basidiomycete, Russula brevipes. New Phytol 156:313–320. https://doi.org/10.1046/j.1469-8137.2002.00507.x
Bjorbækmo M, Carlsen T, Brysting A, Vrålstad T, Høiland K, Ugland K, 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. https://doi.org/10.1186/1471-2229-10-244
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. Mol Ecol 21:1897–1908. https://doi.org/10.1111/j.1365-294X.2011.05214.x
Blaalid R, Davey ML, Kauserud H, Carlsen T, Halvorsen R, Høiland K, Eidesen PB (2014) Arctic root-associated fungal community composition reflects environmental filtering. Mol Ecol 23:649–659. https://doi.org/10.1111/mec.12622
Bogar LM, Peay KG (2017) Processes maintaining the coexistence of ectomycorrhizal fungi at a fine spatial scale. In: Tedersoo L (ed) Biogeography of mycorrhizal symbiosis. Springer International Publishing, Cham, pp 79–105
Botnen S, Vik U, Carlsen T, Eidesen PB, Davey ML, Kauserud H (2014) Low host specificity of root-associated fungi at an arctic site. Mol Ecol 23:975–985. https://doi.org/10.1111/mec.12646
Brevik A, Moreno-Garcia J, Wenelczyk J (2010) Diversity of fungi associated with Bistorta vivipara (L.) Delarbre root systems along a local chronosequence on Svalbard. Agarica 29:15–26
Brundrett MC, Tedersoo L (2018) Evolutionary history of mycorrhizal symbioses and global host plant diversity. New Phytol 220:1108–1115. https://doi.org/10.1111/nph.14976
Buée M, Courty PE, Mignot D, Garbaye J (2007) Soil niche effect on species diversity and catabolic activities in an ectomycorrhizal fungal community. Soil Biol Biochem 39:1947–1955. https://doi.org/10.1016/j.soilbio.2007.02.016
Carlsen TA (2002) Molecular diversity of root endophytes in an alpine Bistorta vivipara—Kobresia myosuroides tundra plant community (Cand. Scient. Thesis). University of Oslo
Clemmensen KE, Bahr A, Ovaskainen O, Dahlberg A, Ekblad A, Wallander H, Stenlid J, Finlay RD, Wardle DA, Lindahl BD (2013) Roots and associated fungi drive long-term carbon sequestration in boreal forest. Science 339:1615–1618. https://doi.org/10.1126/science.1231923
Clemmensen KE, Finlay RD, Dahlberg A, Stenlid J, Wardle DA, Lindahl BD (2015) Carbon sequestration is related to mycorrhizal fungal community shifts during long-term succession in boreal forests. New Phytol 205:1525–1536. https://doi.org/10.1111/nph.13208
Clemmensen KE, Michelsen A (2006) Integrated long-term responses of an arctic–alpine willow and associated ectomycorrhizal fungi to an altered environment. Can J Bot 84:831–843. https://doi.org/10.1139/b06-039
Clymo RS (1980) Preliminary survey of the peat-bog Hummel Knowe moss using various numerical methods. Vegetatio 42:129–148
Dahlberg A, Stenlid J (1994) Size, distribution and biomass of genets in populations of Suillus bovinus (L.: Fr.) Roussel revealed by somatic incompatibility. New Phytol 128:225–234. https://doi.org/10.1111/j.1469-8137.1994.tb04006.x
Diggle PK (1997) Extreme preformation in alpine Polygonum viviparum: an architectural and developmental analysis. Am J Bot 84:154–169. https://doi.org/10.2307/2446077
Eriksen M, Bjureke KE, Dhillion SS (2002) Mycorrhizal plants of traditionally managed boreal grasslands in Norway. Mycorrhiza 12:117–123. https://doi.org/10.1007/s00572-002-0165-x
Gardes M, Bruns TD (1993) ITS primers with enhanced specificity for basidiomycetes—application to the identification of mycorrhizae and rusts. Mol Ecol 2:113–118. https://doi.org/10.1111/j.1365-294X.1993.tb00005.x
Genney DR, Anderson IC, Alexander IJ (2006) Fine-scale distribution of pine ectomycorrhizas and their extramatrical mycelium. New Phytol 170:381–390. https://doi.org/10.1111/j.1469-8137.2006.01669.x
Glassman SI, Peay KG, Talbot JM, Smith DP, Chung JA, Taylor JW, Vilgalys R, Bruns TD (2015) A continental view of pine-associated ectomycorrhizal fungal spore banks: a quiescent functional guild with a strong biogeographic pattern. New Phytol 205:1619–1631. https://doi.org/10.1111/nph.13240
Griffith GW, Easton GL, Jones AW (2002) Ecology and diversity of waxcap (Hygrocybe spp.) fungi. Bot J Scotl 54:7–22. https://doi.org/10.1080/03746600208685025
Hesselman H (1900) Om mykorrhizabildningar hos arktiske väkster. Bihang till Svenska Vetenskaps- Akademiens handlinger 26:1–46
Hill MO, Gauch HG (1980) Detrended correspondence analysis: an improved ordination technique. Vegetatio 42:47–58. https://doi.org/10.1007/BF00048870
Hiscox J, Savoury M, Müller CT, Lindahl BD, Rogers HJ, Boddy L (2015) Priority effects during fungal community establishment in beech wood. ISME J 9:2246–2260. https://doi.org/10.1038/ismej.2015.38
Jarvis S, Woodward S, Alexander IJJ, Taylor A, FSFS (2013) Regional scale gradients of climate and nitrogen deposition drive variation in ectomycorrhizal fungal communities associated with native Scots pine. Glob Chang Biol 19:1688–1696. https://doi.org/10.1111/gcb.12178
Jonsell B (ed) (2000) Flora Nordica 1. Ber, Stockholm
Jumpponen A, Weber NS, Trappe JM, Cázares E (1997) Distribution and ecology of the ascomycete Sarcoleotia globosa in the United States. Can J Bot 75:2228–2231. https://doi.org/10.1139/b97-933#.W78K7PmYOM8
Kauserud H, Kumar S, Brysting AK, Nordén J, Carlsen T (2012) High consistency between replicate 454 pyrosequencing analyses of ectomycorrhizal plant root samples. Mycorrhiza 22:309–315. https://doi.org/10.1007/s00572-011-0403-1
Kendall MG (1938) A new measure of rank correlation. Biometrika 30:81–93. https://doi.org/10.1093/biomet/30.1-2.81
Kennedy PG, Bruns TD (2005) Priority effects determine the outcome of ectomycorrhizal competition between two Rhizopogon species colonizing Pinus muricata seedlings. New Phytol 166:631–638. https://doi.org/10.1111/j.1469-8137.2005.01355.x
Kennedy PG, Higgins LM, Rogers RH, Weber MG (2011) Colonization-competition tradeoffs as a mechanism driving successional dynamics in ectomycorrhizal fungal vommunities. PLoS One 6:e25126. https://doi.org/10.1371/journal.pone.0025126
Kennedy PG, Peay KG, Bruns TD (2009) Root tip competition among ectomycorrhizal fungi: are priority effects a rule or an exception? Ecology 90:2098–2107. https://doi.org/10.1890/08-1291.1
Kõljalg U, Nilsson RH, Abarenkov K, Tedersoo L, Taylor AFS, Bahram M, Bates ST, Bruns TD, Bengtsson-Palme J, Callaghan TM, Douglas B, Drenkhan T, Eberhardt U, Dueñas M, Grebenc T, Griffith GW, Hartmann M, Kirk PM, Kohout P, Larsson E, Lindahl BD, Lücking R, Martín MP, Matheny PB, Nguyen NH, Niskanen T, Oja J, Peay KG, Peintner U, Peterson M, Põldmaa K, Saag L, Saar I, Schüßler A, Scott JA, Senés C, Smith ME, Suija A, Taylor DL, Telleria MT, Weiss M, Larsson KH (2013) Towards a unified paradigm for sequence-based identification of fungi. Mol Ecol 22:5271–5277. https://doi.org/10.1111/mec.12481
Kruskal JB (1964) Nonmetric multidimensional scaling: a numerical method. Psychometrika 29:115–129. https://doi.org/10.1007/BF02289694
Kruskal WH (1958) Ordinal measures of association. J Am Stat Assoc 53:814. https://doi.org/10.2307/2281954
Kyaschenko J, Clemmensen KE, Hagenbo A, Karltun E, Lindahl BD (2017) Shift in fungal communities and associated enzyme activities along an age gradient of managed Pinus sylvestris stands. ISME J 11:863–874. https://doi.org/10.1038/ismej.2016.184
Lilleskov EA, Bruns TD, Horton TR et al (2004) Detection of forest stand-level spatial structure in ectomycorrhizal fungal communities. FEMS Microbiol Ecol 49:319–332. https://doi.org/10.1016/j.femsec.2004.04.004
Lilleskov EA, Bruns TD (2003) Root colonization dynamics of two ectomycorrhizal fungi of contrasting life history strategies nutrient patches. New Phytol 159:141–151. https://doi.org/10.1046/j.0028-646x.2003.00794.x
Lindahl BD, Ihrmark K, Boberg J, Trumbore SE, Högberg P, Stenlid J, Finlay RD (2007) Spatial separation of litter decomposition and mycorrhizal nitrogen uptake in a boreal forest. New Phytol 173:611–620. https://doi.org/10.1111/j.1469-8137.2006.01936.x
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. https://doi.org/10.1007/s005720050194
Miyamoto Y, Sakai A, Hattori M, Nara K (2015) Strong effect of climate on ectomycorrhizal fungal composition: evidence from range overlap between two mountains. ISME J 9:1870–1879. https://doi.org/10.1038/ismej.2015.8
Morgado LN, Semenova TA, Welker JM, Walker MD, Smets E, Geml J (2015) Summer temperature increase has distinct effects on the ectomycorrhizal fungal communities of moist tussock and dry tundra in Arctic Alaska. Glob Chang Biol 21:959–972. https://doi.org/10.1111/gcb.12716
Mühlmann O, Bacher M, Peintner U (2008) Polygonum viviparum mycobionts on an alpine primary successional glacier forefront. Mycorrhiza 18:87–95. https://doi.org/10.1007/s00572-007-0156-z
Mundra S, Bahram M, Tedersoo L, Kauserud H, Halvorsen R, Eidesen PB (2015a) Temporal variation of Bistorta vivipara-associated ectomycorrhizal fungal communities in the high arctic. Mol Ecol 24:6289–6302. https://doi.org/10.1111/mec.13458
Mundra S, Halvorsen R, Kauserud H, Müller E, Vik U, Eidesen PB (2015b) Arctic fungal communities associated with roots of Bistorta vivipara do not respond to the same fine-scale edaphic gradients as the aboveground vegetation. New Phytol 205:1587–1597. https://doi.org/10.1111/nph.13216
Oksanen J, Blanchet F, Kindt R, et al (2013) Vegan: community ecology package
Peay KG, Kennedy PG, Bruns TD (2011) Rethinking ectomycorrhizal succession: are root density and hyphal exploration types drivers of spatial and temporal zonation? Fungal Ecol 4:233–240. https://doi.org/10.1016/j.funeco.2010.09.010
Pickles BJ, Genney DR, Anderson IC, Alexander IJ (2012) Spatial analysis of ectomycorrhizal fungi reveals that root tip communities are structured by competitive interactions. Mol Ecol 21:5110–5123. https://doi.org/10.1111/j.1365-294X.2012.05739.x
Core Team R (2017) R: a language and environment for statistical computing. R Foundation for Statistical Computing, Vienna
Schumacher T, Sivertsen S (1987) Sarcoleotia globosa (Sommerf.: Fr.) Korf, taxonomy, ecology and distribution. In: Laursen GA, Ammirati JF, Redhead SA (eds) Arctic and alpine mycology II. Springer US, Boston, MA, pp 163–176
Shorrocks B, Bingley M (1994) Priority effects and species coexistence: experiments with fungal-breeding Drosophila. J Anim Ecol 63:799. https://doi.org/10.2307/5257
Smith SE, Read D (2008) Mycorrhizal symbiosis, 3rd edn. Elsevier, London
van Son TC, Halvorsen R (2014) Multiple parallel ordinations: the importance of choice of ordination method and weighting of species abundance data. Sommerfeltia 37:1–37. https://doi.org/10.2478/som-2014-0001
Sterkenburg E, Clemmensen KE, Ekblad A, Finlay RD, Lindahl BD (2018) Contrasting effects of ectomycorrhizal fungi on early and late stage decomposition in a boreal forest. ISME J 12:2187–2197. https://doi.org/10.1038/s41396-018-0181-2
Talbot JM, Bruns TD, Taylor JW, Smith DP, Branco S, Glassman SI, Erlandson S, Vilgalys R, Liao HL, Smith ME, Peay KG (2014) Endemism and functional convergence across the North American soil mycobiome. Proc Natl Acad Sci 111:6341–6346. https://doi.org/10.1073/pnas.1402584111
Taylor DL, Bruns TD (1999) Community structure of ectomycorrhizal fungi in a Pinus muricata forest: minimal overlap between the mature forest and resistant propagule communities. Mol Ecol 8:1837–1850. https://doi.org/10.1046/j.1365-294x.1999.00773.x
Tedersoo L, Hallenberg N, Larsson K (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. https://doi.org/10.1046/j.0028-646x.2003.00792.x
Tedersoo L, May TW, Smith ME (2010) Ectomycorrhizal lifestyle in fungi: global diversity, distribution, and evolution of phylogenetic lineages. Mycorrhiza 20:217–263. https://doi.org/10.1007/s00572-009-0274-x
Tedersoo L, Suvi T, Jairus T, Kõljalg U (2008) Forest microsite effects on community composition of ectomycorrhizal fungi on seedlings of Picea abies and Betula pendula. Environ Microbiol 10:1189–1201. https://doi.org/10.1111/j.1462-2920.2007.01535.x
Tenenbaum JB (2000) A global geometric framework for nonlinear dimensionality reduction. Science 290:2319–2323. https://doi.org/10.1126/science.290.5500.2319
Timling I, Dahlberg A, Walker D et al (2012) Distribution and drivers of ectomycorrhizal fungal communities across the North American Arctic. Ecosphere 3(11):1–25
van der Linde S, Suz LM, Orme CDL, Cox F, Andreae H, Asi E, Atkinson B, Benham S, Carroll C, Cools N, de Vos B, Dietrich HP, Eichhorn J, Gehrmann J, Grebenc T, Gweon HS, Hansen K, Jacob F, Kristöfel F, Lech P, Manninger M, Martin J, Meesenburg H, Merilä P, Nicolas M, Pavlenda P, Rautio P, Schaub M, Schröck HW, Seidling W, Šrámek V, Thimonier A, Thomsen IM, Titeux H, Vanguelova E, Verstraeten A, Vesterdal L, Waldner P, Wijk S, Zhang Y, Žlindra D, Bidartondo MI (2018) Environment and host as large-scale controls of ectomycorrhizal fungi. Nature 558:243–248. https://doi.org/10.1038/s41586-018-0189-9
van der Maabel E (1979) Transformation of cover-abundance values in phytosociology and its effects on community similarity. Vegetatio 39:97–114. https://doi.org/10.1007/BF00052021
White TJ, Bruns TD, Lee SB, Taylor JW (1990) Analysis of phylogenetic relationships by amplification and direct sequencing of ribosomal RNA genes. In: Innis M, Gelfand D, Sninsky J, White T (eds) PCR protocols: a guide to methods and applications. Academic Press, New York, pp 315–322
Yao F, Vik U, Brysting AK, Carlsen T, Halvorsen R, Kauserud H (2013) Substantial compositional turnover of fungal communities in an alpine ridge-to-snowbed gradient. Mol Ecol 22:5040–5052. https://doi.org/10.1111/mec.12437
Yoshida N, Son JA, Matsushita N et al (2014) Fine-scale distribution of ectomycorrhizal fungi colonizing Tsuga diversifolia seedlings growing on rocks in a subalpine Abies veitchii forest. Mycorrhiza 24:247–257. https://doi.org/10.1007/s00572-013-0535-6
Acknowledgments
We would like to acknowledge Cecilie Mathiesen for an excellent effort in preparation of samples for sequencing, Rune Halvorsen for valuable input on ordination methods and Erlend Y. Fines for assistance in graphical design and excellent drawing.
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This project was funded by University of Oslo.
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All authors have contributed to the completion of the article. The main ideas and design of the study were done by TC, HK and ET. Sampling and laboratory work were conducted by mainly ET, but also ABA and UV. ABA contributed substantially in ideas on analyses of the data. Drafting and writing of the manuscript was mainly performed by ET, but all authors (ABA, UV, AKB, IS, TC, HK) contributed substantially to supervision, ideas and discussion of the results in the writing process.
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Fig. S1
Multiple parallel ordinations (MPO) using DCA (A, B, C) and GNMDS (D, E, F) with raw (A, D), power-weighted (w=0.5, B, E) and presence/absence (C, F) data using fine roots as sites. All ordination methods and weighting functions show similar point configuration, supporting a strong gradient in the dataset. Arrows depicts significant variables fitted onto the ordination diagrams using envar function in the vegan package (Oksanen et al. 2013). position=postion of fine root along the rhizome, diversity=Shannon’s H calculated per fine root, richnes=richness per fine root, length=relative length of fine root, branch=number of branches per fine root, no_root_tip=number of root tips per fine root, no_exp_types=number of exploration type per fine root. Assigned exploration types are: contact, short smooth (sh_smooth), medium smooth (med_smooth) and additionally, hydrophilic for hydrophilic exploration types (PNG 323 kb)
Fig. S2
Photograph of one of the fine roots from the B. vivipara root system, showing how root tips are growing from fine roots and branches from the main fine roots. Because the real orientation of the main fine roots and branches in the soil is unknown, we assigned the root tips to three distance classes; neighbour, adjacent and non-neighbour. We assumed that, for instance, A and B were located in very close proximity in the soil (i.e. strict neighbours), and that C, on the same branch, is closer to A and B (i.e. adjacent) than it was to D, which was most likely located further away from A, B and C (i.e. non-neighbour) (PNG 1808 kb)
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Thoen, E., Aas, A.B., Vik, U. et al. A single ectomycorrhizal plant root system includes a diverse and spatially structured fungal community. Mycorrhiza 29, 167–180 (2019). https://doi.org/10.1007/s00572-019-00889-z
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DOI: https://doi.org/10.1007/s00572-019-00889-z