Global homogenization of the structure and function in the soil microbiome of urban greenspaces

Published on Jul 1, 2021in Science Advances13.116
· DOI :10.1126/SCIADV.ABG5809
The structure and function of the soil microbiome of urban greenspaces remain largely undetermined. We conducted a global field survey in urban greenspaces and neighboring natural ecosystems across 56 cities from six continents, and found that urban soils are important hotspots for soil bacterial, protist and functional gene diversity, but support highly homogenized microbial communities worldwide. Urban greenspaces had a greater proportion of fast-growing bacteria, algae, amoebae, and fungal pathogens, but a lower proportion of ectomycorrhizal fungi than natural ecosystems. These urban ecosystems also showed higher proportions of genes associated with human pathogens, greenhouse gas emissions, faster nutrient cycling, and more intense abiotic stress than natural environments. City affluence, management practices, and climate were fundamental drivers of urban soil communities. Our work paves the way toward a more comprehensive global-scale perspective on urban greenspaces, which is integral to managing the health of these ecosystems and the well-being of human populations.
#1Leho Tedersoo (UT: University of Tartu)H-Index: 66
#2Sten Anslan (UT: University of Tartu)H-Index: 20
Last. Kessy Abarenkov (UT: University of Tartu)H-Index: 37
view all 29 authors...
Soil microbiome has a pivotal role in ecosystem functioning, yet little is known about its build-up from local to regional scales. In a multi-year regional-scale survey involving 1251 plots and long-read third-generation sequencing, we found that soil pH has the strongest effect on the diversity of fungi and its multiple taxonomic and functional groups. The pH effects were typically unimodal, usually both direct and indirect through tree species, soil nutrients or mold abundance. Individual tree...
25 CitationsSource
#1Nadejda A. Soudzilovskaia (LEI: Leiden University)H-Index: 36
#2Stijn Vaessen (LEI: Leiden University)H-Index: 4
Last. Leho Tedersoo (UT: University of Tartu)H-Index: 66
view all 10 authors...
Testing of ecological, biogeographic and phylogenetic hypotheses of mycorrhizal traits requires a comprehensive reference data set about plant mycorrhizal associations. Here we present a database, FungalRoot, which summarizes publicly available data about vascular plant mycorrhizal type and intensity of root colonization by mycorrhizal fungi, accompanied with rich meta-data. We compiled and digitized data about plant mycorrhizal colonization in nine wide-spread languages. The present version of ...
47 CitationsSource
#1Manuel Delgado-Baquerizo (Pablo de Olavide University)H-Index: 46
#2Carlos A. Guerra (MLU: Martin Luther University of Halle-Wittenberg)H-Index: 23
Last. Fernando T. Maestre (University of Alicante)H-Index: 81
view all 8 authors...
Understanding the present and future distribution of soil-borne plant pathogens is critical to supporting food and fibre production in a warmer world. Using data from a global field survey and a nine-year field experiment, we show that warmer temperatures increase the relative abundance of soil-borne potential fungal plant pathogens. Moreover, we provide a global atlas of these organisms along with future distribution projections under different climate change and land-use scenarios. These proje...
48 CitationsSource
#1Miquel De CáceresH-Index: 27
#2Florian JansenH-Index: 23
Last. Noah DellH-Index: 1
view all 3 authors...
32 Citations
#1Manuel Delgado-Baquerizo (Pablo de Olavide University)H-Index: 46
#2Peter B. Reich (USYD: University of Sydney)H-Index: 173
Last. Brajesh K. Singh (USYD: University of Sydney)H-Index: 88
view all 27 authors...
The role of soil biodiversity in regulating multiple ecosystem functions is poorly understood, limiting our ability to predict how soil biodiversity loss might affect human wellbeing and ecosystem sustainability. Here, combining a global observational study with an experimental microcosm study, we provide evidence that soil biodiversity (bacteria, fungi, protists and invertebrates) is significantly and positively associated with multiple ecosystem functions. These functions include nutrient cycl...
90 CitationsSource
#1Angela M. Oliverio (CIRES: Cooperative Institute for Research in Environmental Sciences)H-Index: 13
#2Stefan GeisenH-Index: 28
Last. Noah Fierer (CIRES: Cooperative Institute for Research in Environmental Sciences)H-Index: 116
view all 6 authors...
Protists are ubiquitous in soil, where they are key contributors to nutrient cycling and energy transfer. However, protists have received far less attention than other components of the soil microbiome. We used amplicon sequencing of soils from 180 locations across six continents to investigate the ecological preferences of protists and their functional contributions to belowground systems. We complemented these analyses with shotgun metagenomic sequencing of 46 soils to validate the identities ...
64 CitationsSource
#1Corinne M. Walsh (CU: University of Colorado Boulder)H-Index: 2
#2Matthew J. Gebert (CIRES: Cooperative Institute for Research in Environmental Sciences)H-Index: 7
Last. Noah Fierer (CIRES: Cooperative Institute for Research in Environmental Sciences)H-Index: 116
view all 5 authors...
ABSTRACT Mycobacteria are a diverse bacterial group ubiquitous in many soil and aquatic environments. Members of this group have been associated with human and other animal diseases, including the nontuberculous mycobacteria (NTM), which are of growing relevance to public health worldwide. Although soils are often considered an important source of environmentally acquired NTM infections, the biodiversity and ecological preferences of soil mycobacteria remain largely unexplored across contrasting...
14 CitationsSource
#1Brian S. Steidinger (Stanford University)H-Index: 7
#2Thomas W. Crowther (ETH Zurich)H-Index: 37
Last. Kabir G. Peay (Stanford University)H-Index: 40
view all 15 authors...
The identity of the dominant root-associated microbial symbionts in a forest determines the ability of trees to access limiting nutrients from atmospheric or soil pools1,2, sequester carbon3,4 and withstand the effects of climate change5,6. Characterizing the global distribution of these symbioses and identifying the factors that control this distribution are thus integral to understanding the present and future functioning of forest ecosystems. Here we generate a spatially explicit global map o...
157 CitationsSource
Antimicrobial resistance (AMR) has been recognized by global leadership as the biggest - and the harshest challenge to the economic development of the humanity and the global health security. Factors responsible for burgeoning AMR are well known. Possible avenues for rapid containment of this scourge have also been articulated. Huge resources -both financial and technical are needed by the developing countries. In the absence of these, innovative cost-effective approaches are needed. Universal h...
1 CitationsSource
#1Manuel Delgado-Baquerizo (URJC: King Juan Carlos University)H-Index: 46
#2Richard D. Bardgett (University of Manchester)H-Index: 123
Last. Noah Fierer (CU: University of Colorado Boulder)H-Index: 116
view all 29 authors...
Belowground organisms play critical roles in maintaining multiple ecosystem processes, including plant productivity, decomposition, and nutrient cycling. Despite their importance, however, we have a limited understanding of how and why belowground biodiversity (bacteria, fungi, protists, and invertebrates) may change as soils develop over centuries to millennia (pedogenesis). Moreover, it is unclear whether belowground biodiversity changes during pedogenesis are similar to the patterns observed ...
65 CitationsSource
Cited By0