Griggs, D. et al. Sustainable development goals for people and planet. Nature 495, 305–307 (2013).
Google Scholar
Charlop-Powers, Z. et al. Urban park soil microbiomes are a rich reservoir of natural product biosynthetic diversity. Proc. Natl Acad. Sci. USA 113, 14811 (2016).
Google Scholar
Delgado-Baquerizo, M. et al. Global homogenization of the structure and function in the soil microbiome of urban greenspaces. Sci. Adv. 7, eabg5809 (2021).
Google Scholar
Martínez, J. L. Antibiotics and antibiotic resistance genes in natural environments. Science 321, 365–367 (2008).
Google Scholar
Forsberg, K. J. et al. The shared antibiotic resistome of soil bacteria and human pathogens. Science 337, 1107–1111 (2012).
Google Scholar
Byrnes, J. E. K. et al. Investigating the relationship between biodiversity and ecosystem multifunctionality: challenges and solutions. Methods Ecol. Evolution 5, 111–124 (2014).
Google Scholar
Gamfeldt, L. & Roger, F. Revisiting the biodiversity–ecosystem multifunctionality relationship. Nat. Ecol. Evolution 1, 0168 (2017).
Google Scholar
Lefcheck, J. S. et al. Biodiversity enhances ecosystem multifunctionality across trophic levels and habitats. Nat. Commun. 6, 6936 (2015).
Google Scholar
Zavaleta, E. S. et al. Sustaining multiple ecosystem functions in grassland communities requires higher biodiversity. Proc. Natl Acad. Sci. USA 107, 1443 (2010).
Google Scholar
Delgado-Baquerizo, M. et al. Microbial diversity drives multifunctionality in terrestrial ecosystems. Nat. Commun. 7, 10541 (2016).
Google Scholar
Wagg, C. et al. Soil biodiversity and soil community composition determine ecosystem multifunctionality. Proc. Natl Acad. Sci. USA 111, 5266 (2014).
Google Scholar
van der Heijden, M. G. A. et al. Mycorrhizal fungal diversity determines plant biodiversity, ecosystem variability and productivity. Nature 396, 69–72 (1998).
Google Scholar
Delgado-Baquerizo, M. et al. Multiple elements of soil biodiversity drive ecosystem functions across biomes. Nat. Ecol. Evol. 4, 210–220 (2020).
Google Scholar
Ramirez, K. S. et al. Biogeographic patterns in below-ground diversity in New York City’s Central Park are similar to those observed globally. Proc. R. Soc. B 281, 20141988 (2014).
Google Scholar
Schittko, C. et al. Biodiversity maintains soil multifunctionality and soil organic carbon in novel urban ecosystems. J. Ecol. https://doi.org/10.1111/1365-2745.13852 (2022).
Maestre, F. T. et al. Plant species richness and ecosystem multifunctionality in global drylands. Science 335, 214–218 (2012).
Google Scholar
Jing, X. et al. The links between ecosystem multifunctionality and above-and belowground biodiversity are mediated by climate. Nat. Commun. 6, 1–8 (2015).
Google Scholar
Kadowaki, K. et al. Mycorrhizal fungi mediate the direction and strength of plant–soil feedbacks differently between arbuscular mycorrhizal and ectomycorrhizal communities. Commun. Biol. 1, 196 (2018).
Google Scholar
Soliveres, S. et al. Biodiversity at multiple trophic levels is needed for ecosystem multifunctionality. Nature 536, 456–459 (2016).
Google Scholar
Berman, J. J. in Taxonomic Guide to Infectious Diseases (ed. Berman, J. J.) 37–47 (Academic Press, 2012).
Berman, J. J. in Taxonomic Guide to Infectious Diseases (ed. Berman, J. J.) 25–31 (Academic Press, 2012).
Busse, H.-J. in Methods in Microbiology (eds Rainey, F. & Oren. A.) Vol. 38, 239–259 (Academic Press, 2011).
van den Hoogen, J. et al. Soil nematode abundance and functional group composition at a global scale. Nature 572, 194–198 (2019).
Google Scholar
van Bergeijk, D. A. et al. Ecology and genomics of Actinobacteria: new concepts for natural product discovery. Nat. Rev. Microbiol. 18, 546–558 (2020).
Google Scholar
Orellana, L. H. et al. Verrucomicrobiota are specialist consumers of sulfated methyl pentoses during diatom blooms. ISME J. 16, 630–641 (2022).
Google Scholar
Fincker, M. et al. Metabolic strategies of marine subseafloor Chloroflexi inferred from genome reconstructions. Environ. Microbiol. 22, 3188–3204 (2020).
Google Scholar
Stralis-Pavese, N. et al. Analysis of methanotroph community composition using a pmoA-based microbial diagnostic microarray. Nat. Protoc. 6, 609–624 (2011).
Google Scholar
Berube, P. M. et al. Physiology and evolution of nitrate acquisition in Prochlorococcus. ISME J. 9, 1195–1207 (2015).
Google Scholar
Liang, J.-L. et al. Novel phosphate-solubilizing bacteria enhance soil phosphorus cycling following ecological restoration of land degraded by mining. ISME J. 14, 1600–1613 (2020).
Google Scholar
Hättenschwiler, S. & Gasser, P. Soil animals alter plant litter diversity effects on decomposition. Proc. Natl Acad. Sci. USA 102, 1519 (2005).
Google Scholar
Erktan, A. et al. The physical structure of soil: determinant and consequence of trophic interactions. Soil Biol. Biochem. 148, 107876 (2020).
Google Scholar
Grime, J. P. Benefits of plant diversity to ecosystems: immediate, filter and founder effects. J. Ecol. 86, 902–910 (1998).
Google Scholar
Barberán, A. et al. Why are some microbes more ubiquitous than others? Predicting the habitat breadth of soil bacteria. Ecol. Lett. 17, 794–802 (2014).
Google Scholar
Chen, Q. L. et al. Rare microbial taxa as the major drivers of ecosystem multifunctionality in long-term fertilized soils. Soil Biol. Biochem. 141, 107686 (2020).
Google Scholar
Zhang, Z. et al. Rare species-driven diversity-ecosystem multifunctionality relationships are promoted by stochastic community assembly. mBio. mBio. 13, e00449–22 (2022).
Google Scholar
Domínguez-García, V. et al. Unveiling dimensions of stability in complex ecological networks. Proc. Natl Acad. Sci. USA 116, 25714 (2019).
Google Scholar
Zhang, L. et al. Signal beyond nutrient, fructose, exuded by an arbuscular mycorrhizal fungus triggers phytate mineralization by a phosphate solubilizing bacterium. ISME J. 12, 2339–2351 (2018).
Google Scholar
Couturier, M. et al. Lytic xylan oxidases from wood-decay fungi unlock biomass degradation. Nat. Chem. Biol. 14, 306–310 (2018).
Google Scholar
Steinberg, G. et al. A lipophilic cation protects crops against fungal pathogens by multiple modes of action. Nat. Commun. 11, 1608 (2020).
Google Scholar
Johnston, A. S. A. & Sibly, R. M. The influence of soil communities on the temperature sensitivity of soil respiration. Nat. Ecol. Evol. 2, 1597–1602 (2018).
Google Scholar
Watson, C. J. et al. Ecological and economic benefits of low-intensity urban lawn management. J. Appl. Ecol. 57, 436–446 (2020).
Google Scholar
Williams, N. S. G. et al. A conceptual framework for predicting the effects of urban environments on floras. J. Ecol. 97, 4–9 (2009).
Google Scholar
Trabucco, A. & Zomer, R. Global Aridity Index and Potential Evapotranspiration (ET0) Climate Database v2 (figshare, 2019); https://doi.org/10.6084/m9.figshare.7504448.v3
Kettler, T. A. et al. Simplifed method for soil particle-size determination to accompany soil-quality analyses. Soil Sci. Soc. Am. J. 65, 849–852 (2001).
Google Scholar
Delgado-Baquerizo, M. et al. Changes in belowground biodiversity during ecosystem development. Proc. Natl Acad. Sci. USA 116, 6891 (2019).
Google Scholar
Ramirez, K. S. et al. Biogeographic patterns in below-ground diversity in New York City’s Central Park are similar to those observed globally. Proc. Biol. Sci. 281, 22 (2014).
Callahan, B. J. et al. DADA2: high-resolution sample inference from Illumina amplicon data. Nat. Methods 13, 581–583 (2016).
Google Scholar
Tedersoo, L. et al. Regional-scale in-depth analysis of soil fungal diversity reveals strong pH and plant species effects in Northern Europe. Front. Microbiol. 11, 1953 (2020).
Google Scholar
Bastida, F. et al. Microbiological degradation index of soils in a semiarid climate. Soil Biol. Biochem. 38, 3463–3473 (2006).
Google Scholar
Lugato, E. et al. Different climate sensitivity of particulate and mineral-associated soil organic matter. Nat. Geosci. 14, 295–300 (2021).
Google Scholar
Delgado-Baquerizo, M. et al. The influence of soil age on ecosystem structure and function across biomes. Nat. Commun. 11, 4721 (2020).
Google Scholar
Frostegård, Å. et al. Use and misuse of PLFA measurements in soils. Soil Biol. Biochem. 43, 1621–1625 (2011).
Google Scholar
Olsson, P. A. et al. The use of phospholipid and neutral lipid fatty acids to estimate biomass of arbuscular mycorrhizal fungi in soil. Mycol. Res. 99, 623–629 (1995).
Google Scholar
Campbell, C. D. et al. A rapid microtiter plate method to measure carbon dioxide evolved from carbon substrate amendments so as to determine the physiological profiles of soil microbial communities by using whole soil. Appl. Environ. Microbiol. 69, 3593–3599 (2003).
Google Scholar
Bell, C. W. et al. High-throughput fluorometric measurement of potential soil extracellular enzyme activities. J. Vis. Exp. 15, e50961 (2013).
Nguyen, N. H. et al. FUNGuild: an open annotation tool for parsing fungal community datasets by ecological guild. Fungal Ecol. 20, 241–248 (2016).
Google Scholar
Fierer, N. et al. Cross-biome metagenomic analyses of soil microbial communities and their functional attributes. Proc. Natl Acad. Sci. USA 109, 21390–21395 (2012).
Google Scholar
Fierer, N. et al. Reconstructing the microbial diversity and function of pre-agricultural tallgrass prairie soils in the United States. Science 342, 621–624 (2013).
Google Scholar
Buchfink, B., Reuter, K. & Drost, H. G. Sensitive protein alignments at tree-of-life scale using DIAMOND. Nat. Methods 18, 366–368 (2021).
Google Scholar
Manning, P. et al. Redefining ecosystem multifunctionality. Nat. Ecol. Evolution 2, 427–436 (2018).
Google Scholar
Legendre, P. & Legendre, L. Interpretation of Ecological Structures Numerical Ecology 3rd English edn (Elsevier Science BV, 2012).
Grace, J. B. Structural Equation Modeling and Natural Systems (Cambridge University Press, 2006).
Subramanian, S. et al. Persistent gut microbiota immaturity in malnourished Bangladeshi children. Nature 510, 417 (2014).
Google Scholar
Fan, K. et al. Soil biodiversity supports the delivery of multiple ecosystem functions in urban greenspaces. figshare https://doi.org/10.6084/m9.figshare.21175492.v3 (2022).
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