Neutral models predict biogeographical patterns of soil microbes at a local scale in Mediterranean heathlands, South Africa

REFERENCES

• Abarenkov, K., Nilsson, R.H., Larsson, K.H., et al. 2010 The UNITE database for molecular identification of fungi – recent updates and future perspectives. New Phytologist 186: 281–285.
   PubMed Web of Science ®Google Scholar
• Abu-Ashour, J., Joy, D., Lee, H., Whiteley, H. & Zelin, S. 1998. Movement of bacteria in unsaturated soil columns with macropores. Transactions of the ASAE 41: 1043.
   Google Scholar
• Allsopp, N. 2014. Fynbos: ecology, evolution, and conservation of a megadiverse region. Oxford, Oxford University Press.
   Google Scholar
• Allsopp, N., Olivier, D.L. & Mitchell, D.T. 1987. Fungal populations associated with root systems of Proteaceous seedlings at a lowland Fynbos site in South-Africa. South African Journal of Botany 53: 365–369.
   Web of Science ®Google Scholar
• Bahram, M., Peay, K.G. & Tedersoo, L. 2015. Local-scale biogeography and spatiotemporal variability in communities of mycorrhizal fungi. New Phytologist 205: 1454–1463.
   PubMed Web of Science ®Google Scholar
• Bent, S.J., Gucker, C.L., Oda, Y. & Forney, L.J. 2003. Spatial distribution of Rhodopseudomonas palustris ecotypes on a local scale. Applied and Environmental Microbiology 69: 5192–5197.
   PubMed Web of Science ®Google Scholar
• Bevivino, A., Paganin, P., Bacci, G., et al. 2014. Soil bacterial community response to differences in agricultural management along with seasonal changes in a Mediterranean region. Plos One 9.
   PubMed Web of Science ®Google Scholar
• Bundt, M., Widmer, F., Pesaro, M., Zeyer, J. & Blaser, P. 2001. Preferential flow paths: biological ‘hot spots’ in soils. Soil Biology and Biochemistry 33: 729–738.
   Web of Science ®Google Scholar
• Burnham, K.P. & Anderson, D.R. 2003. Model Selection and Multimodel Inference: a practical information-theoretic approach. Springer Science & Business Media.
   Google Scholar
• Caporaso, J.G., Kuczynski, J., Stombaugh, J., et al. 2010. QIIME allows analysis of high-throughput community sequencing data. Nature Methods 7: 335–336.
   PubMed Web of Science ®Google Scholar
• Chu, H. 2011. Soil bacterial diversity in the Arctic is not fundamentally different from that found in other biomes (vol 12, pg 2998, 2010). Environmental Microbiology 13: 833–833.
   Web of Science ®Google Scholar
• Chu, H.Y., Fierer, N., Lauber, C.L., Caporaso, J.G., Knight, R. & Grogan, P. 2010. Soil bacterial diversity in the Arctic is not fundamentally different from that found in other biomes. Environmental Microbiology 12: 2998–3006.
   PubMed Web of Science ®Google Scholar
• Chun, J., Lee, J.H., Jung, Y., Kim, M., Kim, S., Kim, B.K. & Lim, Y.W. 2007. EzTaxon: a web-based tool for the identification of prokaryotes based on 16S ribosomal RNA gene sequences. International Journal of Systematic and Evolutionary Microbiology 57: 2259–2261.
   PubMed Web of Science ®Google Scholar
• Ciccolini, V., Bonari, E., Ercoli, L. & Pellegrino, E. 2016. Phylogenetic and multivariate analyses to determine the effect of agricultural land-use intensification and soil physico-chemical properties on N-cycling microbial communities in drained Mediterranean peaty soils. Biology and Fertility of Soils 52: 811–824.
   Web of Science ®Google Scholar
• Colwell, R.R. & Huq, A. 1999. Global microbial ecology: biogeography and diversity of Vibrios as a model. Journal of Applied Microbiology 85: 134S–137S.
   Web of Science ®Google Scholar
• Connolly, S.R., Dornelas, M., Bellwood, D.R. & Hughes, T.P. 2009. Testing species abundance models: a new bootstrap approach applied to Indo-Pacific coral reefs. Ecology 90: 3138–3149.
   PubMed Web of Science ®Google Scholar
• Cowling, R.M., Proches, S. & Partridge, T.C. 2009. Explaining the uniqueness of the Cape flora: Incorporating geomorphic evolution as a factor for explaining its diversification. Molecular Phylogenetics and Evolution 51: 64–74.
   PubMed Web of Science ®Google Scholar
• Cowling, R.M., Pressey, R.L., Rouget, M. & Lombard, A.T. 2003. A conservation plan for a global biodiversity hotspot – the Cape Floristic Region, South Africa. Biology andConservation 112: 191–216.
   Web of Science ®Google Scholar
• Crous, P.W. & Wingfield, M.J. 1993. Imi Descriptions of Fungi and Bacteria No. 1158 – Cylindrocladium-Heptaseptatum. Mycopathologia 122: 59–60.
   Web of Science ®Google Scholar
• De Cáceres, M. & Legendre, P. 2009. Associations between species and groups of sites: indices and statistical inference. Ecology 90(12): 3566–3574.
   PubMed Web of Science ®Google Scholar
• Delgado-Baquerizo, M., Powell, J.R., Hamonts, K., et al. 2017. Circular linkages between soil biodiversity, fertility and plant productivity are limited to topsoil at the continental scale. New Phytologist 215: 1186–1196.
   PubMed Web of Science ®Google Scholar
• Di Lonardo, D.P., Pinzari, F., Lunghini, D., Maggi, O., Granito, V.M. & Persiani, A.M. 2013. Metabolic profiling reveals a functional succession of active fungi during the decay of Mediterranean plant litter. Soil Biology and Biochemistry 60: 210–219.
   Web of Science ®Google Scholar
• Dini-Andreote, F., Stegen, J.C., van Elsas, J.D. & Salles, J.F. 2015. Disentangling mechanisms that mediate the balance between stochastic and deterministic processes in microbial succession. Proceedings of the National Academy of Sciences USA 112: E1326–E1332.
   PubMed Web of Science ®Google Scholar
• Dumbrell, A.J., Nelson, M., Helgason, T., Dytham, C. & Fitter, A.H. 2010. Relative roles of niche and neutral processes in structuring a soil microbial community. The ISME Journal 4: 337–345.
   PubMed Web of Science ®Google Scholar
• Edgar, R.C. 2010. Search and clustering orders of magnitude faster than BLAST. Bioinformatics 26: 2460–2461.
   PubMed Web of Science ®Google Scholar
• Edgar, R.C., Haas, B.J., Clemente, J.C., Quince, C. & Knight, R. 2011. UCHIME improves sensitivity and speed of chimera detection. Bioinformatics 27: 2194–2200.
   PubMed Web of Science ®Google Scholar
• Elgholl, N.E., Alfenas, A.C., Crous, P.W. & Schubert, T.S. 1993. Description and pathogenicity of Cylindrocladium-Ovatum Sp-Nov. Canadian Journal of Botany 71: 466–470.
   Google Scholar
• Feinstein, L.M. & Blackwood, C.B. 2012. Taxa-area relationship and neutral dynamics influence the diversity of fungal communities on senesced tree leaves. Environmental Microbiology 14: 1488–1499.
   PubMed Web of Science ®Google Scholar
• Fierer, N. & Jackson, R.B. 2006. The diversity and biogeography of soil bacterial communities. Proceedings of the National Academy of Sciences USA 103: 626–631.
   PubMed Web of Science ®Google Scholar
• Fierer, N., Bradford, M.A. & Jackson, R.B. 2007. Toward an ecological classification of soil bacteria. Ecology 88: 1354–1364.
   PubMed Web of Science ®Google Scholar
• Franklin, R.B. & Mills, A.L. 2007. The Spatial Distribution of Microbes in the Environment. Springer.
   Google Scholar
• Gammack, S.M., Paterson, E., Kemp, J.S., Cresser, M.S. & Killham, K. 1992. Factors affecting the movement of microorganisms in soils. Soil Biochemistry 7: 263–305.
   Google Scholar
• Girvan, M.S., Bullimore, J., Pretty, J.N., Osborn, A.M. & Ball, A.S. 2003. Soil type is the primary determinant of the composition of the total and active bacterial communities in arable soils. Applied and Environmental Microbiology 69: 1800–1809.
   PubMed Web of Science ®Google Scholar
• Grundmann, G.L. & Debouzie, D. 2000. Geostatistical analysis of the distribution of NH4+ and NO2-oxidizing bacteria and serotypes at the millimeter scale along a soil transect. FEMS Microbiology Ecology 34: 57–62.
   PubMed Web of Science ®Google Scholar
• Hopper, S.D. 2009. OCBIL theory: towards an integrated understanding of the evolution, ecology and conservation of biodiversity on old, climatically buffered, infertile landscapes. Plant and Soil 322: 49–86.
   Web of Science ®Google Scholar
• Hubbell, S.P. 2001, The Unified Neutral Theory of Biodiversity and Biogeography. Princeton, NJ, Princeton University Press.
   Google Scholar
• Huse, S.M., Dethlefsen, L., Huber, J.A., Welch, D.M., Relman, D.A. & Sogin, M.L. 2008. Exploring microbial diversity and taxonomy using SSU rRNA hypervariable tag sequencing. Plos Genetics 4.
   PubMed Web of Science ®Google Scholar
• Jabot, F., Etienne, R.S. & Chave, J. 2008. Reconciling neutral community models and environmental filtering: theory and an empirical test. Oikos 117: 1308–1320.
   Web of Science ®Google Scholar
• Jesus, E.D., Marsh, T.L., Tiedje, J.M. & Moreira, F.M.D. 2009. Changes in land use alter the structure of bacterial communities in Western Amazon soils (vol 3, pg 1004, 2009). The ISME Journal 3: 1222–1222.
   Web of Science ®Google Scholar
• Johnson, M.J., Lee, K.Y. & Scow, K.M. 2003. DNA fingerprinting reveals links among agricultural crops, soil properties, and the composition of soil microbial communities. Geoderma 114: 279–303.
   Web of Science ®Google Scholar
• Jost, L. 2006. Entropy and diversity. Oikos 113: 363–375.
   Web of Science ®Google Scholar
• Jost, L. 2007. Partitioning diversity into independent alpha and beta components. Ecology 88: 2427–2439.
   PubMed Web of Science ®Google Scholar
• Kembel, S.W. 2009. Disentangling niche and neutral influences on community assembly: assessing the performance of community phylogenetic structure tests. Ecology Letters 12: 949–960.
   PubMed Web of Science ®Google Scholar
• Kõljalg, U., Larsson, K.H., Abarenkov, K., Nilsson, R.H., Alexander, I.J., Eberhardt, U., Erland, S., Høiland, K., Kjøller, R. & Larsson, E. 2005. UNITE: a database providing web-based methods for the molecular identification of ectomycorrhizal fungi. New Phytologist 166: 1063–1068.
   PubMed Web of Science ®Google Scholar
• Lauber, C.L., Strickland, M.S., Bradford, M.A. & Fierer, N. 2008. The influence of soil properties on the structure of bacterial and fungal communities across land-use types. Soil Biology and Biochemistry 40: 2407–2415.
   Web of Science ®Google Scholar
• Lemaire, B., Dlodlo, O., Chimphango, S., et al. 2015. Symbiotic diversity, specificity and distribution of rhizobia in native legumes of the Core Cape Subregion (South Africa). FEMS Microbiology and Ecology 91.
   Web of Science ®Google Scholar
• Liao, J.Q., Cao, X.F., Zhao, L., Wang, J., Gao, Z., Wang, M.C. & Huang, Y. 2016. The importance of neutral and niche processes for bacterial community assembly differs between habitat generalists and specialists. FEMS Microbiology and Ecology 92.
   PubMed Web of Science ®Google Scholar
• Locey, K.J. & Lennon, J.T. 2016. Scaling laws predict global microbial diversity. Proceedings of the National Academy of Sciences 201521291.
   Google Scholar
• Lozupone, C. & Knight, R. 2005. UniFrac: a new phylogenetic method for comparing microbial communities. Applied and Environmental Microbiology 71: 8228–8235.
   PubMed Web of Science ®Google Scholar
• Lunghini, D., Granito, V.M., Di Lonardo, D.P., Maggi, O. & Persiani, A.M. 2013. Fungal diversity of saprotrophic litter fungi in a Mediterranean maquis environment. Mycologia 105: 1499–1515.
   PubMed Web of Science ®Google Scholar
• MacArthur, R.H. 1957. On the relative abundance of bird species. Proceedings of the National Academy of Sciences 43: 293–295.
   PubMed Web of Science ®Google Scholar
• Magadlela, A., Vardien, W., Kleinert, A., Dreyer, L.L. & Valentine, A.J. 2015. The role of phosphorus deficiency in nodule microbial composition, and carbon and nitrogen nutrition of a native legume tree in the Cape fynbos ecosystem. Australian Journal of Botany 63: 379–386.
   Web of Science ®Google Scholar
• Magadlela, A., Beukes, C., Venter, F., Steenkamp, E. & Valentine, A. 2017. Does P deficiency affect nodule bacterial composition and N source utilization in a legume from nutrient-poor Mediterranean-type ecosystems? Soil Biology and Biochemistry 104: 164–174.
   Web of Science ®Google Scholar
• Manning, J. & Goldblatt, P. 2012. Plants of the Greater Cape Floristic Region. Pretoria, SANBI, Biodiversity for Life.
   Google Scholar
• Marincowitz, S., Crous, P.W., Groenewald, J.Z. & Wingfield, M.J. 2008. Microfungi occurring on Proteaceae in the Fynbos. CBS Fungal Biodiversity Centre.
   Google Scholar
• Martiny, J.B.H., Bohannan, B.J.M., Brown, J.H., et al. 2006. Microbial biogeography: putting microorganisms on the map. Nature Reviews Microbiology 4: 102–112.
   PubMed Web of Science ®Google Scholar
• Martiny, J.B.H., Eisen, J.A., Penn, K., Allison, S.D. & Horner-Devine, M.C. 2011. Drivers of bacterial beta-diversity depend on spatial scale. Proceedings of the National Academy of Sciences USA 108: 7850–7854.
   PubMed Web of Science ®Google Scholar
• Masella, A.P., Bartram, A.K., Truszkowski, J.M., Brown, D.G. & Neufeld, J.D. 2012. PANDAseq: PAired-eND Assembler for Illumina sequences. BMC Bioinformatics 13.
   PubMed Web of Science ®Google Scholar
• McGill, B.J., Maurer, B.A. & Weiser, M.D. 2006. Empirical evaluation of neutral theory. Ecology 87: 1411–1423.
   PubMed Web of Science ®Google Scholar
• McGill, B.J., Etienne, R.S., Gray, J.S., et al. 2007. Species abundance distributions: moving beyond single prediction theories to integration within an ecological framework. Ecology Letters 10: 995–1015.
   PubMed Web of Science ®Google Scholar
• Mendes, L.W., Kuramae, E.E., Navarrete, A.A., van Veen, J.A. & Tsai, S.M. 2014. Taxonomical and functional microbial community selection in soybean rhizosphere. The ISME Journal 8: 1577–1587.
   PubMed Web of Science ®Google Scholar
• Meyer, F., Paarmann, D., D'Souza M., et al. 2008 The metagenomics RAST server – a public resource for the automatic phylogenetic and functional analysis of metagenomes. BMC Bioinformatics 9.
   Web of Science ®Google Scholar
• Miyambo, T., Makhalanyane, T.P., Cowan, D.A. & Valverde, A. 2016. Plants of the fynbos biome harbour host species-specific bacterial communities. FEMS Microbiology Letters 363.
   PubMed Web of Science ®Google Scholar
• Moon, J.B., Wardrop, D.H., Bruns, M.A.V., Miller, R.M. & Naithani, K.J. 2016. Land-use and land-cover effects on soil microbial community abundance and composition in headwater riparian wetlands. Soil Biology and Biochemistry 97: 215–233.
   Web of Science ®Google Scholar
• Moroenyane, I., Dong, K., Singh, D., Chimphango, S. & Adams, J. 2016a. Deterministic processes dominate nematode community structure in the Fynbos Mediterranean heathland of South Africa. Evolutionary Ecology 30: 16.
   Google Scholar
• Moroenyane, I., Chimphango, S.B.M., Wang, J., Kim, H.K. & Adams, J.M. 2016b. Deterministic assembly processes govern bacterial community structure in the Fynbos, South Africa. Microbiology and Ecology 72: 313–323.
   PubMed Web of Science ®Google Scholar
• Motomura, I. 1932. A statistical treatment of ecological communities. Zoological Magazine 44: 379–383.
   Google Scholar
• Mucina, L. & Rutherford, M.C. 2006. The Vegetation of South Africa, Lesotho and Swaziland. Pretoria, SANBI.
   Google Scholar
• Murty, D., Kirschbaum, M.U.F., McMurtrie, R.E. & McGilvray, A. 2002. Does conversion of forest to agricultural land change soil carbon and nitrogen? A review of the literature. Global Change Biology 8: 105–123.
   Web of Science ®Google Scholar
• Nunan, N., Wu, K., Young, I.M., Crawford, J.W. & Ritz, K. 2002. In situ spatial patterns of soil bacterial populations, mapped at multiple scales, in an arable soil. Microbial Ecology 44: 296–305.
   PubMed Web of Science ®Google Scholar
• Nunan, N., Wu, K.J., Young, I.M., Crawford, J.W. & Ritz, K. 2003. Spatial distribution of bacterial communities and their relationships with the micro-architecture of soil. FEMS Microbioly and Ecology 44: 203–215.
   PubMed Web of Science ®Google Scholar
• Oksanen, J., Blanchet, F.G., Kindt, R., Legendre, P., Minchin, P.R., O'Hara, R., Simpson, G.L., Solymos, P., Stevens, M.H.H. & Wagner, H. 2013. Package ‘vegan’. Community Ecology Package, version 2.
   Google Scholar
• Ramette, A. & Tiedje, J.M. 2007. Multiscale responses of microbial life to spatial distance and environmental heterogeneity in a patchy ecosystem. Proceedings of the National Academy of Sciences USA 104: 2761–2766.
   PubMed Web of Science ®Google Scholar
• Ramond, J.B., Lako, J.D.W., Stafford, W.H.L., Tuffin, M.I. & Cowan, D.A. 2015. Evidence of novel plant-species specific ammonia oxidizing bacterial clades in acidic South African fynbos soils. Journal of Basic Microbiology 55: 1040–1047.
   PubMed Web of Science ®Google Scholar
• Rodriguez-Navarro, C., Jroundi, F., Schiro, M., Ruiz-Agudo, E. & Gonzalez-Munoz, M.T. 2012. Influence of substrate mineralogy on bacterial mineralization of calcium carbonate: implications for stone conservation. Applied and Environmental Microbiology 78: 4017–4029.
   PubMed Web of Science ®Google Scholar
• Roesch, L.F., Fulthorpe, R.R., Riva, A., Casella, G., Hadwin, A.K., Kent, A.D., Daroub, S.H., Camargo, F.A., Farmerie, W.G. & Triplett, E.W. 2007. Pyrosequencing enumerates and contrasts soil microbial diversity. The ISME Journal 1: 283–290.
   PubMed Web of Science ®Google Scholar
• Sagara, N. 1975. Ammonia fungi—a chemoecological grouping of terrestrial fungi. Contributions from the Biological Laboratory, Kyoto University 24: 205–276.
   Google Scholar
• Sagara, N. 1976. Supplement to studies of ammonia fungi .1. T Mycology Society of Japan 17: 418–428.
   Google Scholar
• Schloss, P.D., Westcott, S.L., 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.
   PubMed Web of Science ®Google Scholar
• Schmidt, P.-A., Bálint, M., Greshake, B., Bandow, C., Römbke, J. & Schmitt, I. 2013. Illumina metabarcoding of a soil fungal community. Soil Biology and Biochemistry 65: 128–132.
   Web of Science ®Google Scholar
• Shade, A. 2017. Diversity is the question, not the answer. The ISME Journal 11: 1–6.
   PubMed Web of Science ®Google Scholar
• Singh, D., Takahashi, K. & Adams, J.M. 2012a. Elevational patterns in archaeal diversity on Mt. Fuji. Plos One 7.
   Web of Science ®Google Scholar
• Singh, D., Takahashi, K., Kim, M., Chun, J. & Adams, J.M. 2012b. A hump-backed trend in bacterial diversity with elevation on mount fuji, Japan. Microbiology and Ecology 63: 429–437.
   PubMed Web of Science ®Google Scholar
• Singh, D., Shi, L.L. & Adams, J.M. 2013. Bacterial diversity in the mountains of south-west China: climate dominates over soil parameters. Journal of Microbiology 51: 439–447.
   PubMed Web of Science ®Google Scholar
• Singh, D., Lee-Cruz, L., Kim, W.S., Kerfahi, D., Chun, J.H. & Adams, J.M. 2014. Strong elevational trends in soil bacterial community composition on Mt. Ha lla, South Korea. Soil Biology & Biochemistry 68: 140–149.
   Web of Science ®Google Scholar
• Singh, D., Takahashi, K., Park, J. & Adams, J.M. 2016. Similarities and contrasts in the archaeal community of two Japanese mountains: Mt. Norikura compared to Mt. Fuji. Microbiology and Ecology 71: 428–441.
   PubMed Web of Science ®Google Scholar
• Slabbert, E., Kongor, R.Y., Esler, K.J. & Jacobs, K. 2010a. Microbial diversity and community structure in Fynbos soil. Molecular Ecology 19: 1031–1041.
   PubMed Web of Science ®Google Scholar
• Slabbert, E., van Heerden, C.J. & Jacobs, K. 2010b. Optimisation of automated ribosomal intergenic spacer analysis for the estimation of microbial diversity in fynbos soil. South African Journal of Science 106: 52–55.
   Web of Science ®Google Scholar
• Slabbert, E., Jacobs, S.M. & Jacobs, K. 2014. The soil bacterial communities of South African Fynbos riparian ecosystems invaded by Australian Acacia species. Plos One 9.
   PubMed Web of Science ®Google Scholar
• Sridevi, G., Minocha, R., Turlapati, S.A., Goldfarb, K.C., Brodie, E.L., Tisa, L.S. & Minocha, S.C. 2012. Soil bacterial communities of a calcium-supplemented and a reference watershed at the Hubbard Brook Experimental Forest (HBEF), New Hampshire, USA. FEMS Microbiology Ecology 79: 728–740.
   PubMed Web of Science ®Google Scholar
• Stafford, W.H.L., Baker, G.C., Brown, S.A., Burton, S.G. & Cowan, D.A. 2005. Bacterial diversity in the rhizosphere of Proteaceae species. Environmental Microbiology 7: 1755–1768.
   PubMed Web of Science ®Google Scholar
• Stursova, M., Barta, J., Santruckova, H. & Baldrian, P. 2016. Small-scale spatial heterogeneity of ecosystem properties, microbial community composition and microbial activities in a temperate mountain forest soil. FEMS Microbiology Ecology 92.
   PubMed Web of Science ®Google Scholar
• Suzuki, A. 2009. Propagation strategy of ammonia fungi. Mycoscience 50: 39–51.
   Web of Science ®Google Scholar
• Swart, L., Crous, P.W., Denman, S. & Palm, M.E. 1998. Fungi occurring on Proteaceae. I. South African Journal of Botany 64: 137–145.
   Web of Science ®Google Scholar
• Team R 2014. RStudio: integrated development for R. Boston, MA, RStudio, Inc. http://www.RStudio com/ide.
   Google Scholar
• Tedersoo, L., Bahram, M., Polme, S., et al. 2014. Global diversity and geography of soil fungi. Science 346: 1078.
   Web of Science ®Google Scholar
• Tripathi, B.M., Lee-Cruz, L., Kim, M., Singh, D., Go, R., Shukor, N.A.A., Husni, M.H.A., Chun, J. & Adams, J.M. 2014. Spatial scaling effects on soil bacterial communities in Malaysian tropical forests. Microbial Ecology 68: 247–258.
   PubMed Web of Science ®Google Scholar
• Tripathi, B.M., Kim, M., Tateno, R., Kim, W., Wang, J.J., Lai-Hoe, A., Ab Shukor, N.A., Rahim, R.A., Go, R. & Adams, J.M. 2015. Soil pH and biome are both key determinants of soil archaeal community structure. Soil Biology and Biochemistry 88: 1–8.
   Web of Science ®Google Scholar
• Tripathi, B.M., Stegen, J.C., Kim, M., Dong, K., Adams, J.M. & Lee, Y.K. 2018. Soil pH mediates the balance between stochastic and deterministic assembly of bacteria. The ISME Journal 12: 1072–1083.
   PubMed Web of Science ®Google Scholar
• Van Horn, D.J., Van Horn, M.L., Barrett, J.E., Gooseff, M.N., Altrichter, A.E., Geyer, K.M., Zeglin, L.H. & Takacs-Vesbach, C.D. 2013. Factors controlling soil microbial biomass and bacterial diversity and community composition in a cold desert ecosystem: role of geographic scale. Plos One 8.
   Web of Science ®Google Scholar
• Vellend, M. 2016. The Theory of Ecological Communities. Princeton, NJ, Princeton University Press.
   Google Scholar
• Verheyen, W. & De la Rosa, D. 2005. Mediterranean soils. In Land Use, Land Cover and Soil Sciences. Encyclopedia of Life Support Systems (EOLSS). Oxford, EOLSS Publishers.
   Google Scholar
• Vreulink, J.M., Esterhuyse, A., Jacobs, K. & Botha, A. 2007. Soil properties that impact yeast and actinomycete numbers in sandy low nutrient soils. Canadian Journal of Microbiology 53: 1369–1374.
   PubMed Web of Science ®Google Scholar
• Waldrop, M.P., Zak, D.R., Blackwood, C.B., Curtis, C.D. & Tilman, D. 2006. Resource availability controls fungal diversity across a plant diversity gradient. Ecology Letters 9: 1127–1135.
   PubMed Web of Science ®Google Scholar
• Wang, J.J., Shen, J., Wu, Y.C., Tu, C., Soininen, J., Stegen, J.C., He, J.Z., Liu, X.Q., Zhang, L. & Zhang, E.L. 2013. Phylogenetic beta diversity in bacterial assemblages across ecosystems: deterministic versus stochastic processes. The ISME Journal 7: 1310–1321.
   PubMed Web of Science ®Google Scholar
• Wang, L.P., Zheng, B.H., Nan, B.X. & Hu, P.L. 2014. Diversity of bacterial community and detection of nirS- and nirK-encoding denitrifying bacteria in sandy intertidal sediments along Laizhou Bay of Bohai Sea, China. Marine Pollution Bulletin 88: 215–223.
   PubMed Web of Science ®Google Scholar
• Wilding, L.P., Smeck, N.E. & Hall, G.F. 1983. Pedogenesis and Soil Taxonomy. Amsterdam, Elsevier.
   Google Scholar
• Wingfield, M.J., Crous, P.W. & Swart, W.J. 1993. Sporothrix-Eucalypti (Sp-Nov), a shoot and leaf pathogen of eucalyptus in South-Africa. Mycopathologia 123: 159–164.
   Web of Science ®Google Scholar
• Wolfe, B.E., Mummey, D.L., Rillig, M.C. & Klironomos, J.N. 2007. Small-scale spatial heterogeneity of arbuscular mycorrhizal fungal abundance and community composition in a wetland plant community. Mycorrhiza 17: 175–183.
   PubMed Web of Science ®Google Scholar
• Woodcock, S., van der Gast, C.J., Bell, T., Lunn, M., Curtis, T.P., Head, I.M. & Sloan, W.T. 2007. Neutral assembly of bacterial communities. FEMS Microbiology and Ecology 62: 171–180.
   PubMed Web of Science ®Google Scholar
• Yuste, J.C., Fernandez-Gonzalez, A.J., Fernandez-Lopez, M., Ogaya, R., Penuelas, J., Sardans, J. & Lloret, F. 2014. Strong functional stability of soil microbial communities under semiarid Mediterranean conditions and subjected to long-term shifts in baseline precipitation. Soil Biology and Biochemistry 69: 223–233.
   Web of Science ®Google Scholar
• Zhalnina, K., Dias, R., de Quadros, P.D., Davis-Richardson, A., Camargo, F.A.O., Clark, I.M., McGrath, S.P., Hirsch, P.R. & Triplett, E.W. 2015. Soil pH determines microbial diversity and composition in the park grass experiment. Microbial Ecology 69: 395–406.
   PubMed Web of Science ®Google Scholar
• Zhang, Y.G., Cong, J., Lu, H., Li, G.L., Qu, Y.Y., Su, X.J., Zhou, J.Z. & Li, D.Q. 2014. Community structure and elevational diversity patterns of soil Acidobacteria. Journal of Environmental Sciences China 26: 1717–1724.
   PubMed Web of Science ®Google Scholar
• Zhou, H.W., Li, D.F., Tam, N.F.Y., Jiang, X.T., Zhang, H., Sheng, H.F., Qin, J., Liu, X. & Zou, F. 2011. BIPES, a cost-effective high-throughput method for assessing microbial diversity. The ISME Journal 5: 741–749.
   PubMed Web of Science ®Google Scholar
• Zhou, X., Zhang, Z.Q., Tian, L., Li, X.J. & Tian, C.J. 2017. Microbial communities in peatlands along a chronosequence on the Sanjiang Plain, China. Science Reports 7: 9567.
   Google Scholar