Microbial Responses to Biochar Soil Amendment and Influential Factors: A Three-Level Meta-Analysis.

Biochar is a multifunctional soil conditioner capable of enhancing soil health and crop production while reducing greenhouse gas emissions. Understanding how soil microbes respond to biochar amendment is a vital step toward precision biochar application. Here, we quantitatively synthesized 3899 observations of 24 microbial responses from 61 primary studies worldwide. Biochar significantly boosts microbial abundance [microbial biomass carbon (MBC) > colony-forming unit (CFU)] and C- and N-cycling functions (dehydrogenase > cellulase > urease > invertase > nirS) and increases the potential nitrification rate by 40.8% while reducing cumulative N2O by 12.7%. Biochar derived at lower pyrolysis temperatures can better improve dehydrogenase and acid phosphatase and thus nutrient retention, but it also leads to more cumulative CO2. Biochar derived from lignocellulose or agricultural biomass can better inhibit N2O through modulating denitrification genes nirS and nosZ; repeated biochar amendment may be needed as inhibition is stronger in shorter durations. This study contributes to our understanding of microbial responses to soil biochar amendment and highlights the promise of purpose-driven biochar production and application in sustainable agriculture such that biochar preparation can be tuned to elicit the desired soil microbial responses, and an amendment plan can be optimized to invoke multiple benefits. We also discussed current knowledge gaps and future research needs.

Multiscale responses and recovery of soils to wildfire in a sagebrush steppe ecosystem.

Ecological theory predicts a pulse disturbance results in loss of soil organic carbon and short-term respiration losses that exceed recovery of productivity in many ecosystems. However, fundamental uncertainties remain in our understanding of ecosystem recovery where spatiotemporal variation in structure and function are not adequately represented in conceptual models. Here we show that wildfire in sagebrush shrublands results in multiscale responses that vary with ecosystem properties, landscape position, and their interactions. Consistent with ecological theory, soil pH increased and soil organic carbon (SOC) decreased following fire. In contrast, SOC responses were slope aspect and shrub-microsite dependent, with a larger proportional decrease under previous shrubs on north-facing aspects compared to south-facing ones. In addition, respiratory losses from burned aspects were not significantly different than losses from unburned aspects. We also documented the novel formation of soil inorganic carbon (SIC) with wildfire that differed significantly with aspect and microsite scale. Whereas pH and SIC recovered within 37 months post-fire, SOC stocks remained reduced, especially on north-facing aspects. Spatially, SIC formation was paired with reduced respiration losses, presumably lower partial pressure of carbon dioxide (pCO2), and increased calcium availability, consistent with geochemical models of carbonate formation. Our findings highlight the formation of SIC after fire as a novel short-term sink of carbon in non-forested shrubland ecosystems. Resiliency in sagebrush shrublands may be more complex and integrated across ecosystem to landscape scales than predicted based on current theory.

Optimizing process-based models to predict current and future soil organic carbon stocks at high-resolution.

From hillslope to small catchment scales (< 50 km2), soil carbon management and mitigation policies rely on estimates and projections of soil organic carbon (SOC) stocks. Here we apply a process-based modeling approach that parameterizes the MIcrobial-MIneral Carbon Stabilization (MIMICS) model with SOC measurements and remotely sensed environmental data from the Reynolds Creek Experimental Watershed in SW Idaho, USA. Calibrating model parameters reduced error between simulated and observed SOC stocks by 25%, relative to the initial parameter estimates and better captured local gradients in climate and productivity. The calibrated parameter ensemble was used to produce spatially continuous, high-resolution (10 m2) estimates of stocks and associated uncertainties of litter, microbial biomass, particulate, and protected SOC pools across the complex landscape. Subsequent projections of SOC response to idealized environmental disturbances illustrate the spatial complexity of potential SOC vulnerabilities across the watershed. Parametric uncertainty generated physicochemically protected soil C stocks that varied by a mean factor of 4.4 × across individual locations in the watershed and a - 14.9 to + 20.4% range in potential SOC stock response to idealized disturbances, illustrating the need for additional measurements of soil carbon fractions and their turnover time to improve confidence in the MIMICS simulations of SOC dynamics.

Biological Soil Crust Bacterial Communities Vary Along Climatic and Shrub Cover Gradients Within a Sagebrush Steppe Ecosystem.

Numerous studies have examined bacterial communities in biological soil crusts (BSCs) associated with warm arid to semiarid ecosystems. Few, however, have examined bacterial communities in BSCs associated with cold steppe ecosystems, which often span a wide range of climate conditions and are sensitive to trends predicted by relevant climate models. Here, we utilized Illumina sequencing to examine BSC bacterial communities with respect to climatic gradients (elevation), land management practices (grazing vs. non-grazing), and shrub/intershrub patches in a cold sagebrush steppe ecosystem in southwestern Idaho, United States. Particular attention was paid to shifts in bacterial community structure and composition. BSC bacterial communities, including keystone N-fixing taxa, shifted dramatically with both elevation and shrub-canopy microclimates within elevational zones. BSC cover and BSC cyanobacteria abundance were much higher at lower elevation (warmer and drier) sites and in intershrub areas. Shrub-understory BSCs were significantly associated with several non-cyanobacteria diazotrophic genera, including Mesorhizobium and Allorhizobium-Neorhizobium-Pararhizobium-Rhizobium. High elevation (wetter and colder) sites had distinct, highly diverse, but low-cover BSC communities that were significantly indicated by non-cyanobacterial diazotrophic taxa including families in the order Rhizobiales and the family Frankiaceae. Abiotic soil characteristics, especially pH and ammonium, varied with both elevation and shrub/intershrub level, and were strongly associated with BSC community composition. Functional inference using the PICRUSt pipeline identified shifts in putative N-fixing taxa with respect to both the elevational gradient and the presence/absence of shrub canopy cover. These results add to current understanding of biocrust microbial ecology in cold steppe, serving as a baseline for future mechanistic research.

Ecological and Genomic Attributes of Novel Bacterial Taxa That Thrive in Subsurface Soil Horizons.

While most bacterial and archaeal taxa living in surface soils remain undescribed, this problem is exacerbated in deeper soils, owing to the unique oligotrophic conditions found in the subsurface. Additionally, previous studies of soil microbiomes have focused almost exclusively on surface soils, even though the microbes living in deeper soils also play critical roles in a wide range of biogeochemical processes. We examined soils collected from 20 distinct profiles across the United States to characterize the bacterial and archaeal communities that live in subsurface soils and to determine whether there are consistent changes in soil microbial communities with depth across a wide range of soil and environmental conditions. We found that bacterial and archaeal diversity generally decreased with depth, as did the degree of similarity of microbial communities to those found in surface horizons. We observed five phyla that consistently increased in relative abundance with depth across our soil profiles: Chloroflexi, Nitrospirae, Euryarchaeota, and candidate phyla GAL15 and Dormibacteraeota (formerly AD3). Leveraging the unusually high abundance of Dormibacteraeota at depth, we assembled genomes representative of this candidate phylum and identified traits that are likely to be beneficial in low-nutrient environments, including the synthesis and storage of carbohydrates, the potential to use carbon monoxide (CO) as a supplemental energy source, and the ability to form spores. Together these attributes likely allow members of the candidate phylum Dormibacteraeota to flourish in deeper soils and provide insight into the survival and growth strategies employed by the microbes that thrive in oligotrophic soil environments.IMPORTANCE Soil profiles are rarely homogeneous. Resource availability and microbial abundances typically decrease with soil depth, but microbes found in deeper horizons are still important components of terrestrial ecosystems. By studying 20 soil profiles across the United States, we documented consistent changes in soil bacterial and archaeal communities with depth. Deeper soils harbored communities distinct from those of the more commonly studied surface horizons. Most notably, we found that the candidate phylum Dormibacteraeota (formerly AD3) was often dominant in subsurface soils, and we used genomes from uncultivated members of this group to identify why these taxa are able to thrive in such resource-limited environments. Simply digging deeper into soil can reveal a surprising number of novel microbes with unique adaptations to oligotrophic subsurface conditions.

Topographic controls of soil organic carbon on soil-mantled landscapes.

Large uncertainties in global carbon (C) budgets stem from soil carbon estimates and associated challenges in distributing soil organic carbon (SOC) at local to landscape scales owing to lack of information on soil thickness and controls on SOC storage. Here we show that 94% of the fine-scale variation in total profile SOC within a 1.8 km2 semi-arid catchment in Idaho, U.S.A. can be explained as a function of aspect and hillslope curvature when the entire vertical dimension of SOC is measured and fine-resolution (3 m) digital elevation models are utilized. Catchment SOC stocks below 0.3 m depth based on our SOC-curvature model account for >50% of the total SOC indicating substantial underestimation of stocks if sampled at shallower depths. A rapid assessment method introduced here also allows for accurate catchment-wide total SOC inventory estimation with a minimum of one soil pit and topographic data if spatial distribution of total profile SOC is not required. Comparison of multiple datasets shows generality in linear SOC-curvature and -soil thickness relationships at multiple scales. We conclude that mechanisms driving variations in carbon storage in hillslope catchment soils vary spatially at relatively small scales and can be described in a deterministic fashion given adequate topographic data.

Land conservation can mitigate freshwater ecosystem services degradation due to climate change in a semiarid catchment: The case of the Portneuf River catchment, Idaho, USA.

There is increasing evidence of environmental change impacts on freshwater ecosystem services especially through land use and climate change. However, little is known about how land conservation could help mitigate adverse water-sustainability impacts. In this paper, we utilized the InVEST tool and the Residual Trends method to assess the joint effects and relative contributions of climate change and land conservation on freshwater ecosystem services in the Portneuf River catchment in Idaho, USA. We developed five hypothesized scenarios regarding gain and loss in the enrollment of Conservation Reserve Program (CRP), the largest agricultural land-retirement program in the U.S., plus riparian buffer and assessed their interactions with climate change. Results suggest that the realized water yield in the Portneuf River catchment would possibly be 56% less due to climate change and 24% less due to the decline of CRP enrollment. On the contrary, if CRP enrollment is promoted by ~30% and riparian buffer protection is implemented, the water supply reduction in the year 2050 could be changed from 56% to 26%, the total phosphorus (TP) and total nitrogen (TN) export would be reduced by 10% and 11%, and the total suspended sediment (TSS) reduced by 17%. This study suggests that increasing implementation of the CRP would likely preserve key freshwater ecosystem services and assist proactive mitigation, especially for semiarid regions vulnerable to changing climate conditions.

Predicting soil thickness on soil mantled hillslopes.

Soil thickness is a fundamental variable in many earth science disciplines due to its critical role in many hydrological and ecological processes, but it is difficult to predict. Here we show a strong linear relationship (r2 = 0.87, RMSE = 0.19 m) between soil thickness and hillslope curvature across both convergent and divergent parts of the landscape at a field site in Idaho. We find similar linear relationships across diverse landscapes (n = 6) with the slopes of these relationships varying as a function of the standard deviation in catchment curvatures. This soil thickness-curvature approach is significantly more efficient and just as accurate as kriging-based methods, but requires only high-resolution elevation data and as few as one soil profile. Efficiently attained, spatially continuous soil thickness datasets enable improved models for soil carbon, hydrology, weathering, and landscape evolution.

Variation in Biological Soil Crust Bacterial Abundance and Diversity as a Function of Climate in Cold Steppe Ecosystems in the Intermountain West, USA.

Biological soil crust (biocrust) is a composite of mosses, lichens, and bacteria that performs many important soil system functions, including increasing soil stability, protecting against wind erosion, reducing nutrient loss, and mediating carbon and nitrogen fixation cycles. These cold desert and steppe ecosystems are expected to experience directional changes in both climate and disturbance. These include increased temperatures, precipitation phase changes, and increased disturbance from anthropogenic land use. In this study, we assessed how climate and grazing disturbance may affect the abundance and diversity of bacteria in biocrusts in cold steppe ecosystems located in southwestern Idaho, USA. To our knowledge, our study is the first to document how biocrust bacterial composition and diversity change along a cold steppe climatic gradient. Analyses based on 16S small subunit ribosomal RNA gene sequences identified the phylum Actinobacteria as the major bacterial component within study site biocrusts (relative abundance = 36-51%). The abundance of the phyla Actinobacteria and Firmicutes was higher at elevations experiencing cooler, wetter climates, while the abundance of Cyanobacteria, Proteobacteria, and Chloroflexi decreased. The abundance of the phyla Cyanobacteria and Proteobacteria showed no significant evidence of decline in grazed areas. Taken together, results from this study indicate that bacterial communities from rolling biocrusts found in cold steppe ecosystems are affected by climate regime and differ substantially from other cold desert ecosystems, resulting in potential differences in nutrient cycling and ecosystem dynamics.

Sources and transport of nitrogen in arid urban watersheds.

Urban watersheds are often sources of nitrogen (N) to downstream systems, contributing to poor water quality. However, it is unknown which components (e.g., land cover and stormwater infrastructure type) of urban watersheds contribute to N export and which may be sites of retention. In this study we investigated which watershed characteristics control N sourcing, biogeochemical processing of nitrate (NO3-) during storms, and the amount of rainfall N that is retained within urban watersheds. We used triple isotopes of NO3- (δ15N, δ18O, and Δ17O) to identify sources and transformations of NO3- during storms from 10 nested arid urban watersheds that varied in stormwater infrastructure type and drainage area. Stormwater infrastructure and land cover--retention basins, pipes, and grass cover--dictated the sourcing of NO3- in runoff. Urban watersheds were strong sinks or sources of N to stormwater depending on runoff, which in turn was inversely related to retention basin density and positively related to imperviousness and precipitation. Our results suggest that watershed characteristics control the sources and transport of inorganic N in urban stormwater but that retention of inorganic N at the time scale of individual runoff events is controlled by hydrologic, rather than biogeochemical, mechanisms.

Atmospheric deposition of carbon and nutrients across an arid metropolitan area.

Urbanization is increasing rapidly in semi-arid environments and is predicted to alter atmospheric deposition of nutrients and pollutants to cities as well as to ecosystems downwind. We examined patterns of wet and coarse dry deposition chemistry over a five-year period at 7 sites across the Central Arizona-Phoenix (CAP) study area, one of two urban sites within the National Science Foundation's Long-Term Ecological Research (LTER) program. Wet and dry deposition of organic carbon (oC) were significantly elevated in the urban core; in contrast, mean annual wet and dry fluxes of nitrogen (N) were low (<6 kg ha(-1) yr(-1)) compared to previous estimates and did not differ significantly among sites. Wet deposition of sulfate (SO(4)2-) was high across CAP (mean 1.39 kg ha(-1) yr(-1) as S) and represented the dominant anion in rainfall. Dry deposition rates did not show strong seasonal trends with the exception of oC, which was 3-fold higher in winter than in summer; ammonium (NH4+) deposition was high but more variable. Dry deposition of NO3- and oC was strongly correlated with particulate base cations and dust-derived soluble reactive phosphorus (SRP), suggesting that urban-derived dust is scrubbing the atmosphere of acidic gases and entrained particles and increasing local deposition. Differences between measured and predicted rates of dry N deposition to the urban core may be explained by incomplete collection of gas phase N on surrogate deposition surfaces in this hot and arid environment. The extent of urban enhancement of cations and oC inputs to desert ecosystems appears to be restricted to the urbanized metropolitan area rather than extending far downwind, although a low number of sites make it difficult to resolve this spatial pattern. Nevertheless, wet and dry inputs may be important for biogeochemical cycles in nutrient and carbon-poor desert ecosystems within and near arid cities.

Forecasting relative impacts of land use on anadromous fish habitat to guide conservation planning.

Land use change can adversely affect water quality and freshwater ecosystems, yet our ability to predict how systems will respond to different land uses, particularly rural-residential development, is limited by data availability and our understanding of biophysical thresholds. In this study, we use spatially explicit parcel-level data to examine the influence of land use (including urban, rural-residential, and vineyard) on salmon spawning substrate quality in tributaries of the Russian River in California. We develop a land use change model to forecast the probability of losses in high-quality spawning habitat and recommend priority areas for incentive-based land conservation efforts. Ordinal logistic regression results indicate that all three land use types were negatively associated with spawning substrate quality, with urban development having the largest marginal impact. For two reasons, however, forecasted rural-residential and vineyard development have much larger influences on decreasing spawning substrate quality relative to urban development. First, the land use change model estimates 10 times greater land use conversion to both rural-residential and vineyard compared to urban. Second, forecasted urban development is concentrated in the most developed watersheds, which already have poor spawning substrate quality, such that the marginal response to future urban development is less significant. To meet the goals of protecting salmonid spawning habitat and optimizing investments in salmon recovery, we suggest investing in watersheds where future rural-residential development and vineyards threaten high-quality fish habitat, rather than the most developed watersheds, where land values are higher.

The globalization of nitrogen deposition: consequences for terrestrial ecosystems.

The sources and distribution of anthropogenic nitrogen (N), including N fertilization and N fixed during fossil-fuel combustion, are rapidly becoming globally distributed. Responses of terrestrial ecosystems to anthropogenic N inputs are likely to vary geographically. In the temperate zone, long-term N inputs can lead to increases in plant growth and also can result in over-enrichment with N, eventually leading to increased losses of N via solution leaching and trace-gas emissions, and in some cases, to changes in species composition and to ecosystem decline. However, not all ecosystems respond to N deposition similarly; their response depends on factors such as successional state, ecosystem type, N demand or retention capacity, land-use history, soils, topography, climate, and the rate, timing, and type of N deposition. We point to some of the conditions under which anthropogenic impacts can be significant, some of the factors that control variations in response, and some areas where uncertainty is large due to limited information.