Biodiversity is declining worldâwide with detrimental effects on ecosystems. However, we lack a quantitative understanding of the shape of the relationship between microbial biodiversity and ...ecosystem function (BEF). This limits our understanding of how microbial diversity depletion can impact key functions for human wellâbeing, including pollutant detoxification. Three independent microcosm experiments were conducted to evaluate the direction (i.e. positive, negative or null) and the shape of the relationships between bacterial diversity and both broad (i.e. microbial respiration) and specialized (i.e. toxin degradation) functions in five Australian and two UK freshwater ecosystems using nextâgeneration sequencing platforms. Reduced bacterial diversity, even after accounting for biomass, caused a decrease in broad (i.e. cumulative microbial respiration) and specialized (biodegradation of two important toxins) functions in all cases. Unlike the positive but decelerating BEF relationship observed most frequently in plants and animals, most evaluated functional measurements were related to bacterial diversity in a nonâredundant fashion (e.g. exponentially and/or linearly). Synthesis. Our results suggest that there is a lack of functional redundancy in the relationship between bacterial diversity and ecosystem functioning; thus, the consequences of declining microbial diversity on ecosystem functioning and human welfare have likely been considerably underestimated.
We lack strong empirical evidence for links between plant attributes (plant community attributes and functional traits) and the distribution of soil microbial communities at large spatial scales.
...Using datasets from two contrasting regions and ecosystem types in Australia and England, we report that aboveground plant community attributes, such as diversity (species richness) and cover, and functional traits can predict a unique portion of the variation in the diversity (number of phylotypes) and community composition of soil bacteria and fungi that cannot be explained by soil abiotic properties and climate. We further identify the relative importance and evaluate the potential direct and indirect effects of climate, soil properties and plant attributes in regulating the diversity and community composition of soil microbial communities.
Finally, we deliver a list of examples of common taxa from Australia and England that are strongly related to specific plant traits, such as specific leaf area index, leaf nitrogen and nitrogen fixation.
Together, our work provides new evidence that plant attributes, especially plant functional traits, can predict the distribution of soil microbial communities at the regional scale and across two hemispheres.
Despite their importance, how plant communities and soil microorganisms interact to determine the capacity of ecosystems to provide multiple functions simultaneously (multifunctionality) under ...climate change is poorly known. We conducted a common garden experiment using grassland species to evaluate how plant functional structure and soil microbial (bacteria and protists) diversity and abundance regulate soil multifunctionality responses to joint changes in plant species richness (one, three and six species) and simulated climate change (3°C warming and 35% rainfall reduction). The effects of species richness and climate on soil multifunctionality were indirectly driven via changes in plant functional structure and their relationships with the abundance and diversity of soil bacteria and protists. More specifically, warming selected for the larger and most productive plant species, increasing the average size within communities and leading to reductions in functional plant diversity. These changes increased the total abundance of bacteria that, in turn, increased that of protists, ultimately promoting soil multifunctionality. Our work suggests that cascading effects between plant functional traits and the abundance of multitrophic soil organisms largely regulate the response of soil multifunctionality to simulated climate change, and ultimately provides novel experimental insights into the mechanisms underlying the effects of biodiversity and climate change on ecosystem functioning.
How plant communities and soil microorganisms interact to determine the multifunctionality under climate change is poorly known. We evaluated, using an experimental approach, how simulated climate change (warming and rainfall reduction) and initial plant species richness affect plant functional structure and soil microorganisms. Also, we assessed how all these factors affect, directly and indirectly, soil multifunctionality. Warming selected for the larger and most productive plant species, increasing the average size in the communities and leading to reductions in functional plant diversity. These changes increased the total abundance of bacteria that, in turn, increased that of protists, ultimately promoting soil multifunctionality.
Despite the vital role of microorganisms for ecosystem functioning and human welfare, our understanding of their global diversity and biogeographical patterns lags significantly behind that of plants ...and animals. We conducted a meta-analysis including ~600 soil samples from all continents to evaluate the biogeographical patterns and drivers of bacterial diversity in terrestrial ecosystems at the global scale. Similar to what has been found with plants and animals, the diversity of soil bacteria in the Southern Hemisphere decreased from the equator to Antarctica. However, soil bacteria showed similar levels of diversity across the Northern Hemisphere. The composition of bacterial communities followed dissimilar patterns between hemispheres, as the Southern and Northern Hemispheres were dominated by Actinobacteria and Acidobacteria, respectively. However, Proteobacteria was co-dominant in both hemispheres. Moreover, we found a decrease in soil bacterial diversity with altitude. Climatic features (e.g., high diurnal temperature range and low temperature) were correlated with the lower diversity found at high elevations, but geographical gradients in soil total carbon and species turnover were important drivers of the observed latitudinal patterns. We thus found both parallels and differences in the biogeographical patterns of aboveground vs. soil bacterial diversity. Our findings support previous studies that highlighted soil pH, spatial influence, and organic matter as important drivers of bacterial diversity and composition. Furthermore, our results provide a novel integrative view of how climate and soil factors influence soil bacterial diversity at the global scale, which is critical to improve ecosystem and earth system simulation models and for formulating sustainable ecosystem management and conservation policies.
The current theoretical framework suggests that tripartite positive feedback relationships between soil biodiversity, fertility and plant productivity are universal. However, empirical evidence for ...these relationships at the continental scale and across different soil depths is lacking.
We investigate the continental-scale relationships between the diversity of microbial and invertebrate-based soil food webs, fertility and above-ground plant productivity at 289 sites and two soil depths, that is 0–10 and 20–30 cm, across Australia.
Soil biodiversity, fertility and plant productivity are strongly positively related in surface soils. Conversely, in the deeper soil layer, the relationships between soil biodiversity, fertility and plant productivity weaken considerably, probably as a result of a reduction in biodiversity and fertility with depth. Further modeling suggested that strong positive associations among soil biodiversity–fertility and fertility–plant productivity are limited to the upper soil layer (0–10 cm), after accounting for key factors, such as distance from the equator, altitude, climate and physicochemical soil properties.
These findings highlight the importance of surface soil biodiversity for soil fertility, and suggest that any loss of surface soil could potentially break the links between soil biodiversity–fertility and/or fertility–plant productivity, which can negatively impact nutrient cycling and food production, upon which future generations depend.
The impact of the installation of a technologically advanced wastewater treatment plant (WWTP) on the benthic microbial community of a vinyl chloride (VC) impacted eutrophic river was examined two ...years before, and three and four years after installation of the WWTP. Reduced dissolved organic carbon and increased dissolved oxygen concentrations in surface water and reduced total organic carbon and total nitrogen content in the sediment were recorded in the post-WWTP samples. Pyrosequencing of bacterial 16S rRNA gene fragments in sediment cores showed reduced relative abundance of heterotrophs and fermenters such as Chloroflexi and Firmicutes in more oxic and nutrient poor post-WWTP sediments. Similarly, quantitative PCR analysis showed 1-3 orders of magnitude reduction in phylogenetic and functional genes of sulphate reducers, denitrifiers, ammonium oxidizers, methanogens and VC-respiring Dehalococcoides mccartyi. In contrast, members of Proteobacteria adapted to nutrient-poor conditions were enriched in post-WWTP samples. This transition in the trophic state of the hyporheic sediments reduced but did not abolish the VC respiration potential in the post-WWTP sediments as an important hyporheic sediment function. Our results highlight effective nutrient load reduction and parallel microbial ecological state restoration of a human-stressed urban river as a result of installation of a WWTP.
The legacy impacts of past climates on the current distribution of soil microbial communities are largely unknown. Here, we use data from more than 1,000 sites from five separate global and regional ...datasets to identify the importance of palaeoclimatic conditions (Last Glacial Maximum and mid-Holocene) in shaping the current structure of soil bacterial communities in natural and agricultural soils. We show that palaeoclimate explains more of the variation in the richness and composition of bacterial communities than current climate. Moreover, palaeoclimate accounts for a unique fraction of this variation that cannot be predicted from geographical location, current climate, soil properties or plant diversity. Climatic legacies (temperature and precipitation anomalies from the present to ~20 kyr ago) probably shape soil bacterial communities both directly and indirectly through shifts in soil properties and plant communities. The ability to predict the distribution of soil bacteria from either palaeoclimate or current climate declines greatly in agricultural soils, highlighting the fact that anthropogenic activities have a strong influence on soil bacterial diversity. We illustrate how climatic legacies can help to explain the current distribution of soil bacteria in natural ecosystems and advocate that climatic legacies should be considered when predicting microbial responses to climate change.
Transformation of ruminant urine-nitrogen (N) can contribute to negative environmental outcomes such as nitrate leaching which leads to eutrophication of waterways and production of nitrous oxide ...(N2O), a greenhouse gas. Although abiotic factors influencing urine-N processing have been well studied, detailed studies of the soil microbial community dynamics following urine application are required to improve mitigation strategies for reducing harmful N fluxes from urine deposition. A factorial laboratory experiment using packed silt-loam soil cores with two levels each of urea (±), soil matric potential (ψ −6.0 or −0.2 kPa) and soil bulk density (ρb 1.1 or 1.5 g cm−3) was performed to study the interaction of urea and soil physical conditions on both soil inorganic N transformations and the abundance of ammonia-oxidizers and denitrifiers. Soil ψ and ρb treatments had an immediate impact on soil pH, dissolved organic carbon, inorganic N pools and emissions of N2O and N2 following urea deposition, and microorganisms carrying the nosZ gene were present in lower numbers in the most aerobic soil (−6.0 kPa and 1.1 g cm−3) from day 7. In all treatments, both bacterial amoA and denitrifier nirS, nirK and nosZ gene copy numbers increased within 1 day following urea application. Dynamics in the NH4+ concentrations were significantly correlated with cumulative changes in the abundance of the ammonia-oxidizers, but no relation was found between cumulative changes in the denitrifier nirS, nirK and nosZ gene copy numbers and the dynamics in soil inorganic N, N2O or N2 emissions. Throughout most of the study period the specific soil conditions, induced by the ψ and ρb treatments, determined nitrifier and denitrifier activity rather than the size of the microbial communities involved. However, by day 35 soil ψ and ρb treatments exerted large treatment effects on bacterial amoA, nirS and nirK gene copy numbers. Thus, although nitrate concentrations and N2O emissions following urea deposition were determined by the soil ψ and ρb conditions in the short-term, our results indicate that changes in the population sizes of denitrifiers and AOB in ruminant urine patches may influence environmental N fluxes in the long-term.
•Population size of ammonia-oxidizing bacteria and denitrifiers increased upon urea deposition.•Overall, soil bulk density and matric potential did not affect nitrifier and denitrifier abundance.•However, nosZ gene copy numbers were the lowest in the most aerobic soil from day 7.•Dynamics in soil NH4+-N correlated with cumulative changes in the abundance of ammonia-oxidizers.•Soil conditions rather than microbial abundance determined N2O and N2 emissions in the short-term.
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As wheat (Triticum aestivum) is an important staple food across the world, preservation of stable yields and increased productivity are major objectives in breeding programs. Drought ...is a global concern because its adverse impact is expected to be amplified in the future due to the current climate change. Here, we analyzed the effects of edaphic, environmental, and host factors on the wheat root microbiomes collected in soils from six regions in Belgium. Amplicon sequencing analysis of unplanted soil and wheat root endosphere samples indicated that the microbial community variations can be significantly explained by soil pH, microbial biomass, wheat genotype, and soil sodium and iron levels. Under drought stress, the biodiversity in the soil decreased significantly, but increased in the root endosphere community, where specific soil parameters seemingly determine the enrichment of bacterial groups. Indeed, we identified a cluster of drought-enriched bacteria that significantly correlated with soil compositions. Interestingly, integration of a functional analysis further revealed a strong correlation between the same cluster of bacteria and β-glucosidase and osmoprotectant proteins, two functions known to be involved in coping with drought stress. By means of this in silico analysis, we identified amplicon sequence variants (ASVs) that could potentially protect the plant from drought stress and validated them in planta. Yet, ASVs based on 16S rRNA sequencing data did not completely distinguish individual isolates because of their intrinsic short sequences. Our findings support the efforts to maintain stable crop yields under drought conditions through implementation of root microbiome analyses.
Chlorinated aliphatic hydrocarbons (CAHs) often discharge into rivers as contaminated groundwater baseflow. Biotransformation, sorption and dilution of CAHs in the impacted river sediments have been ...reported to reduce discharge, but the effect of temporal variations in environmental conditions on the occurrence and extent of those processes in river sediments is largely unknown. We monitored the reduction of CAH discharge into the Zenne River during a 21-month period. Despite a relatively stable influx of CAHs from the groundwater, the total reduction in CAH discharge from 120 to 20cm depth in the river sediments, on average 74±21%, showed moderate to large temporal variations, depending on the riverbed location. High organic carbon and anaerobic conditions in the river sediments allowed microbial reductive dechlorination of both chlorinated ethenes and chlorinated ethanes. δ13C values of the CAHs showed that this biotransformation was remarkably stable over time, despite fluctuating pore water temperatures. Daughter products of the CAHs, however, were not detected in stoichiometric amounts and suggested the co-occurrence of a physical process reducing the concentrations of CAHs in the riverbed. This process was the main process causing temporal variations in natural attenuation of the CAHs and was most likely dilution by surface water-mixing. However, higher spatial resolution monitoring of flow transients in the riverbed is required to prove dilution contributions due to dynamic surface water–groundwater flow exchanges. δ13C values and a site-specific isotope enrichment factor for reductive dechlorination of the main groundwater pollutant vinyl chloride (VC) allowed assessment of changes over time in the extent of both biotransformation and dilution of VC for different scenarios in which those processes either occurred consecutively or simultaneously between 120 and 20cm depth in the riverbed. The extent of reductive dechlorination of VC ranged from 27 to 89% and differed spatially but was remarkably stable over time, whereas the extent of VC reduction by dilution ranged from 6 to 94%, showed large temporal variations, and was often the main process contributing to the reduction of VC discharge into the river.
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► CAH biotransformation is remarkably stable despite fluctuating pore water temperatures. ► Physical CAH attenuation often largely contributes to the total reduction in CAH discharge. ► Physical CAH attenuation (most likely dilution by surface water-mixing) is highly variable over time. ► Extent of both biotransformation and dilution of VC quantified using δ13C data.
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