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USGS1958

Periodic heat flow in a stratified medium with application to permafrost problems

Solutions to the Fourier heat equation for quasi-steady periodic flow in a stratified semi-infinite medium can be obtained readily by standard methods. The results have wide application to studies of earth-temperature variations induced by diurnal, annual, and other periodic variations in ground surface temperature. Much of the previous work on this subject has been interpreted with reference to the solution for the homogeneous case; and this can be seriously in error when applied to stratified earth materials. One application of the theory is to the important problem of determining the minimum thickness of gravel fill required to maintain the material on which it rests (the subgrade) in a perennially frozen state in permafrost areas. The results indicate that the required fill thickness is quite sensitive to the thermal properties of the subgrade. If a thin layer of material with low thermal contact coefficient, such as spruce logs, is placed between the fill and subgrade, the thickness of fill required to maintain undisturbed permafrost can be greatly reduced. The thermal properties of the soil beneath the layer supporting plant growth can exercise an important influence on the temperature in that layer. This effect, which cannot be explained by studies of the ground surface and the surficial layer, is likely to have important application to plant ecology in the Arctic.

Open-File Report↗

USGS1998

Mississippi Basin Carbon Project science plan

Understanding the carbon cycle is one of the most difficult challenges facing scientists who study the global environment. Lack of understanding of global carbon cycling is perhaps best illustrated by our inability to balance the present-day global CO 2 budget. The amount of CO 2 produced by burning fossil fuels and by deforestation appears to exceed the amount accumulating in the atmosphere and oceans. The carbon needed to balance the CO 2 budget (the so-called "missing" carbon) is probably absorbed by land plants and ultimately deposited in soils and sediments. Increasing evidence points toward the importance of these terrestrial processes in northern temperate latitudes. Thus, efforts to balance the global CO 2 budget focus particular attention on terrestrial carbon uptake in our own North American "backyard." The USGS Mississippi Basin Carbon Project conducts research on the carbon budget in soils and sediments of the Mississippi River basin. The project focuses on the effects of land-use change on carbon storage and transport, nutrient cycles, and erosion and sedimentation throughout the Mississippi River Basin. Particular emphasis is placed on understanding the interactions among changes in erosion, sedimentation, and soil dynamics. The project includes spatial analysis of a wide variety of geographic data sets, estimation of whole-basin and sub-basin carbon and sediment budgets, development and implementation of terrestrial carbon-cycle models, and site-specific field studies of relevant processes. The USGS views this project as a "flagship" effort to demonstrate its capabilities to address the importance of the land surface to biogeochemical problems such as the global carbon budget.

Open-File Report↗

USGS2022

Yucaipa valley integrated hydrological model

Introduction The hydrologic system in the Yucaipa Valley watershed (YVW) was simulated using the coupled Groundwater and Surface-water FLOW model (GSFLOW; Markstrom and others, 2008). This study uses version 2.0 of GSFLOW, which is a combination of the Precipitation-Runoff Modeling System (PRMS; Markstrom and others, 2015), and the Newton-Raphson formulation of the Modular Groundwater-Flow Model (MODFLOW-NWT; hereafter referred to as MODFLOW; Harbaugh, 2005; Niswonger and others, 2011). GSFLOW partitions the hydrologic system into three regions (fig. B1) that are linked by the exchange of unsaturated and saturated groundwater and surface water. The properties and processes within each region influence the flow of both groundwater and surface water into, out of, and within each region. The PRMS component of GSFLOW simulates Region 1, and the MODFLOW component simulates Regions 2 and 3. In the YVW, GSFLOW was applied as the simulation code and is referred to herein as the Yucaipa Integrated Hydrologic Model (YIHM; Alzraiee and others, 2022). In the YIHM, Region 1 includes the plant canopy, snowpack, and the soil zone; Region 2 includes the stream network; and Region 3 includes the subsurface beneath Regions 1 and 2 and consists of both the saturated and unsaturated zones. Soil-moisture conditions and head relations control the flow of both groundwater and surface water between regions. The maximum lateral extents of Regions 1 and 3 were defined using the surface-water drainage divides described in the “Description of Study Area” section of chapter A of this report. The boundaries for Region 2 are the lowest elevation of the streambeds, the stream channel widths, and the horizontal extent of the stream channels in the YVW. Flow across the unsaturated part of Region 3 is assumed to be vertical and does not cross the lateral boundary. To simulate hydrologic processes occurring within the YVW using GSFLOW, a model domain was defined to match the surface watershed such that the domain includes each surficial hydrologic unit coinciding (at least partially) with the Yucaipa groundwater subbasin (hereafter referred to as “Yucaipa subbasin”) as defined in California Bulletin 118 (California Department of Water Resources, 2016). The resulting simulated domain (fig. B2) includes the Yucaipa subbasin and intersects partially with parts of the San Bernardino and San Timoteo groundwater subbasins (fig. B2). The area of the active model domain in YIHM is about 121 square miles (mi2). The developed YIHM can be used to improve understanding of the hydrologic processes in YVW and to simulate future management scenarios with different climatic and anthropogenic changes.

Scientific Investigations Report↗

USGS2012

Effects of prescribed burning on marsh-elevation change and the risk of wetland loss

Marsh-elevation change is the net effect of biophysical processes controlling inputs versus losses of soil volume. In many marshes, accumulation of organic matter is an important contributor to soil volume and vertical land building. In this study, we examined how prescribed burning, a common marsh-management practice, may affect elevation dynamics in the McFaddin National Wildlife Refuge, Texas by altering organic-matter accumulation. Experimental plots were established in a brackish marsh dominated by Spartina patens , a grass found throughout the Gulf of Mexico and Atlantic marshes. Experimental plots were subjected to burning and nutrient-addition treatments and monitored for 3.5 years (April 2005 – November 2008). Half of the plots were burned once in 2006; half of the plots were fertilized seasonally with nitrogen, phosphorus, and potassium. Before and after the burns, seasonal measurements were made of soil physicochemistry, vegetation structure, standing and fallen plant biomass, aboveground and belowground production, decomposition, and accretion and elevation change (measured with Surface Elevation Tables (SET)). Movements in different soil strata (surface, root zone, subroot zone) were evaluated to identify which processes were contributing to elevation change. Because several hurricanes occurred during the study period, we also assessed how these storms affected elevation change rates. The main findings of this study were as follows: 1. The main drivers of elevation change were accretion on the marsh surface and subsurface movement below the root zone, but the relative influence of these processes varied temporally. Prior to Hurricanes Gustav and Ike (September 2008), the main driver was subsurface movement; after the hurricane, both accretion and subsurface movement were important. 2. Prior to Hurricanes Gustav and Ike, rates of elevation gain and accretion above a marker horizon were higher in burned plots compared to nonburned plots, whereas nutrient addition had no detectable influence on elevation dynamics. 3. Burning decreased standing and fallen plant litter, reducing fuel load. Hurricanes Gustav and Ike also removed fallen litter from all plots. 4. Aboveground and belowground production rates varied annually but were unaffected by burning and nutrient treatments. 5. Decomposition (of a standard cellulose material) in upper soil layers was increased in burned plots but was unaffected by nutrient treatments. 6. Soil physicochemistry was unaffected by burning or nutrient treatments. 7. The elevation deficit (difference between rate of submergence and vertical land development) prior to hurricanes was less in burned plots (6.2 millimeters per year [mm yr -1 ]) compared to nonburned plots (7.2 mm yr -1 ). 8. Storm sediments delivered by Hurricane Ike raised elevations an average of 7.4 centimeters (cm), which countered an elevation deficit that had accrued over 11 years. Our findings provide preliminary insights into elevation dynamics occurring in brackish marshes of the Texas Chenier Plain under prescribed fire management. The results of this study indicate that prescribed burning conducted at 3- to 5-year intervals is not likely to negatively impact the long-term sustainability of S. patens -dominated brackish marshes at McFaddin National Wildlife Refuge and may offset existing elevation deficits by ≈ 1 mm yr -1 . The primary drivers of elevation change varied in time and space, leading to a more complex situation in terms of predicting how disturbances may alter elevation trajectories. The potential effect of burning on elevation change in other marshes will depend on several site-specific factors, including geomorphic/ sedimentary setting, tide range, local rate of relative sea level rise, plant species composition, additional management practices (for example, for flood control), and disturbance types and frequency (for example, hurricanes or herbivore grazing). Increasing the scope of inference would require installation of SETs in replicate marshes undergoing different prescribed fire intervals and in different geomorphic settings (with different hurricane frequencies and/or different sedimentary settings). Multiple locations along the Gulf and Atlantic coasts where prescribed fire is used as a management tool could provide the appropriate setting for these installations.

Open-File Report↗

USGS2019

A 3-year in-situ measurement of CO2 efflux in coastal wetlands: Understanding carbon loss through ecosystem respiration and its partitioning

Understanding the link between ecosystem respiration (Reco) and its influential factors is necessary to evaluate the sources of gaseous carbon loss in coastal wetlands. Seablite (Suaeda salsa Pall.) is the main vegetation type pioneering temperate coastal wetlands in northeast China, and is generally an understudied wetland type. To evaluate the influence of environmental factors on Reco, a multi-year in-situ experiment was carried out during the growing seasons of 2012 to 2014. Total CO2 efflux was measured and separated further into soil microbial and belowground root respiration (Rs + r) and plant respiration (Rplant). Reco displayed strong seasonal variation, with effluxes as high as 845 to 1150 mg CO2 m−2 h−1 during summer months and as low as 32 to 111 mg CO2 m−2 h−1 during spring (when new shoots are sprouting) and fall (when plants are senescing) months. Aboveground plant structures contributed on average 79% to total plant biomass, and accounted for most of the Reco measured; i.e., 62–96% was associated as Rplant. Plant activity was strongly seasonal, accordingly driving Reco, with 1 g of soil-emergent S. salsa biomass (dry weight) producing approximately 1.58 mg CO2 per hour toward Reco during mid-summer. When water level was below the soil surface, Rs + r was exponentially correlated to air temperature. Because Reco for S. salsa marsh in the Liaohe Delta is controlled by plant growth cycles, inundation regime, and air temperature, this finding may be applied for national carbon budget estimation purposes from S. salsa wetlands throughout Northeast China and potentially close a key gap in understanding the role of this large wetland area in contributing to respiratory CO2 emissions globally.

Wetlands↗

USGS2019

Evidence for widespread microbivory of endophytic bacteria in roots of vascularplants through oxidative degradation in root cell periplasmic spaces

In this chapter we present a hypothesis, and data supporting it, that vascular plants in diverse families possess symbiotic/endophytic bacteria that frequently vector on or within their seeds; seedlings degrade symbiotic bacteria within roots. Evidence of widespread microbivory was found in a survey for intracellular bacteria that we conducted including seedlings in 36 species of vascular plants distributed in 20 plant families. Experiments indicate that when seeds germinate, bacteria colonize seedlings and internalize into root cells where they are oxidatively-degraded in the periplasmic spaces of cells. The process of degradation of microbes in roots has been termed “rhizophagy”, and “rhizophagy cycle” or “rhizophagy symbiosis” in the case of symbiotic bacteria that alternate between a free-living soil phase and intracellular/endophytic phase. We hypothesize that microbivory could account for a significant portion of nutrients acquired by plants from soils—with one estimate suggesting that as much as 30% of the nutrients acquired by seedlings may stem from rhizophagy symbiosis. Developing a better understanding of rhizophagy symbiosis could lead to new ways to cultivate crops without reliance on excessive agrochemical applications. Learning how to manipulate rhizophagy symbiosis could result in new technologies for reducing growth of weedy or invasive plant species by inhibiting rhizophagy symbiosis.

Book chapter↗

USGS2022

Histochemical evidence for nitrogen‐transfer Endosymbiosis in non‐photosynthetic cells of leaves and inflorescence bracts of angiosperms

We used light and confocal microscopy to visualize bacteria in leaf and bract cells of more than 30 species in 18 families of seed plants. Through histochemical analysis, we detected hormones (including ethylene and nitric oxide), superoxide, and nitrogenous chemicals (including nitric oxide and nitrate) around bacteria within plant cells. Bacteria were observed in epidermal cells, various filamentous and glandular trichomes, and other non-photosynthetic cells. Most notably, bacteria showing nitrate formation based on histochemical staining were present in glandular trichomes of some dicots (e.g., Humulus lupulus and Cannabis sativa ). Glandular trichome chemistry is hypothesized to function to scavenge oxygen around bacteria and reduce oxidative damage to intracellular bacterial cells. Experiments to assess the differential absorption of isotopic nitrogen into plants suggest the assimilation of nitrogen into actively growing tissues of plants, where bacteria are most active and carbohydrates are more available. The leaf and bract cell endosymbiosis types outlined in this paper have not been previously reported and may be important in facilitating plant growth, development, oxidative stress resistance, and nutrient absorption into plants. It is unknown whether leaf and bract cell endosymbioses are significant in increasing the nitrogen content of plants. From the experiments that we conducted, it is impossible to know whether plant trichomes evolved specifically as organs for nitrogen fixation or if, instead, trichomes are structures in which bacteria easily colonize and where some casual nitrogen transfer may occur between bacteria and plant cells. It is likely that the endosymbioses seen in leaves and bracts are less efficient than those of root nodules of legumes in similar plants. However, the presence of endosymbioses that yield nitrate in plants could confer a reduced need for soil nitrogen and constitute increased nitrogen-use efficiency, even if the actual amount of nitrogen transferred to plant cells is small. More research is needed to evaluate the importance of nitrogen transfer within leaf and bract cells of plants

Biology↗

USGS2022

Ventilation systems in wetland plant species

Molecular oxygen and carbon dioxide may be limited for aquatic plants, but they have various mechanisms for acquiring these gases from the atmosphere, soil, or metabolic processes. The most common adaptations of aquatic plants involve various aerenchymatic structures, which occur in various organs, and enable the throughflow of gases. These gases can be transferred in emergent plants by molecular diffusion, pressurized gas flow, and Venturi-induced convection. In submerged species, the direct exchange of gases between submerged above-ground tissues and water occurs, as well as the transfer of gases via aerenchyma. Photosynthetic O 2 streams to the rhizosphere, while soil CO 2 streams towards leaves where it may be used for photosynthesis. In floating-leaved plants anchored in the anoxic sediment, two strategies have developed. In water lilies, air enters through the stomata of young leaves, and streams through channels towards rhizomes and roots, and back through older leaves, while in lotus, two-way flow in separate air canals in the petioles occurs. In Nypa Steck palm, aeration takes place via leaf bases with lenticels. Mangroves solve the problem of oxygen shortage with root structures such as pneumatophores, knee roots, and stilt roots. Some grasses have layers of air on hydrophobic leaf surfaces, which can improve the exchange of gases during submergence. Air spaces in wetland species also facilitate the release of greenhouse gases, with CH 4 and N 2 O released from anoxic soil, which has important implications for global warming.

Diversity↗

USGS2022

Plant community trajectories following livestock exclusion for conservation vary and hinge on initial invasion and soil-biocrust conditions in shrub steppe

Adjustments or complete withdrawal of livestock grazing are among the most common conservation actions in semiarid uplands, but outcomes can vary considerably with ecological context. Invasion by exotic annual grasses and the excessive wildfire they promote are increasing threats to semiarid shrub-steppe, and plant-community response to livestock exclusion in these areas may be complicated by the rapid colonization ability of invaders. We evaluated vegetation-community changes over 14-year interval (2007–2021) in a shrub-steppe landscape where a >100-year history of livestock grazing had been terminated in 1996. Field surveys revealed that bare-soil exposure decreased >20% over the 14 years owing to biomass accumulation, but this was primarily due to large increases in exotic annual “cheatgrass” ( Bromus tectorum , +1.8-fold) and the litter it produces (+1.5-fold). Soil biocrusts increased 11.9% and perennial bunchgrasses increased 3% over the 14 years. These community changes varied at the patch scale and entailed inverse relationships of (1) both cheatgrass and biocrusts to plant-community basal cover, (2) cheatgrass to both biocrusts and perennial grasses, and (3) biocrusts to cheatgrass and litter. The spatiotemporal variability in vegetation constituted changes in plant-community states, according to cluster analysis. The modeled probability of a community transitioning to a cheatgrass state was (1) strongly and positively related to the initial (2007) cover of cheatgrass in hotspots where initial cheatgrass cover was >20%, and (2) negatively related to biocrust cover where initial biocrust cover was >4% of ground area. The decision space for this landscape can be framed as a shifting from acceptance towards resisting further degradation by removing livestock and their trampling of soil surfaces and utilization of perennial herbs. However, cheatgrass appears to be the most impactful agent of change and continued invasion appears imminent. Active restoration may help resist further degradation and direct change towards tolerable conditions.

Colorado↗

USGS2022

Piñon and juniper tree removal increases available soil water, driving understory response in a sage-steppe ecosystem

Over the past century, piñon and juniper trees have encroached into sagebrush steppe lands of the interior United States, and managers have for many years removed trees to stimulate the favored understory. While consistent understory response to tree removal in these semiarid lands suggests that trees outcompete other plants for water, no studies have linked increased soil water to understory response after tree removal. We tested the hypothesis that tree removal at six sagebrush steppe sites increased soil water, leading to increased understory plant cover. Using a structural equation model, we found that before tree removal, trees suppressed shrubs (standardized coefficient [SC] = −0.87), perennial deep-rooted (SC = −0.50) and shallow-rooted bunchgrasses (SC = −0.36), but had no influence on cheatgrass. The model explained between 2% (cheatgrass) and 40% (shrubs) of pretreatment cover variation. Measurement of the same plots six years post-treatment showed that most cover variation was due directly to plant growth, with standardized coefficients between 0.51 (perennial shallow-rooted grasses) and 0.72 (cheatgrass). Competition between cheatgrass and perennial deep-rooted grasses was evident, with perennials having twice the influence on cheatgrass than vice-versa (SC = −0.24 vs. −0.11). Spring soil water (wet-degree days) increased significantly after tree removal, measured as cumulative over 6 years (SC = 0.30), and in the early Spring of year six (SC = 0.16). Treatment-induced increase of cumulative Spring wet degree-days explained variation in shrub cover at year 6 (SC = 0.12) and the increase of early Spring wet degree-days at year 6 led to increases in perennial deep-rooted grasses (SC = 0.24) and cheatgrass (SC = 0.23). We detected no influence of Spring wet degree-days on perennial shallow-rooted grasses. The post-treatment model explained between 34% (shallow-rooted perennial grasses) and 69% (deep-rooted perennial grasses) of variation in understory cover. Most variation was explained by re-measurement of the same populations, followed by treatment effects mediated through increased soil water availability, soil factors, and direct effects of the treatment itself. In conclusion, our model is consistent with the a priori hypothesis that additional wet degree-days due to tree removal is a significant mechanism behind observed increases in understory cover.

California, Idaho, Nevada, Oregon, Utah↗

USGS2009

Heavy metal distribution in soils near Palapye, Botswana: An evaluation of the environmental impact of coal mining and combustion on soils in a semi-arid region

Morupule Colliery near Palapye in eastern Botswana is the only coalmine in production in Botswana at present. Its coal is mainly used in the nearby coal-fired Morupule Power Station, which generates approximately 1,000 GWh of electricity per annum. After more than 30 years mining and more than 20 years of combustion, the sedimentation of outlet fly ash from the Morupule Power Station has increased concentrations of Cr, Ni, Zn and As by 13, 2.5, 16 and 5 ppm, respectively, in the fine portion (<53 ??m) of surface soils for approximately 9 km downwind. Elements that have higher concentrations in coal have stronger small-particle association during coal combustion and are less mobile in surface soils, thus showing stronger contaminations in surface soils around the coal-fired plant. Although the degree of contamination of Cr, Ni, Zn and As from coal combustion in the Palapye area at present is low, it is necessary to monitor concentrations of these elements in surface soils routinely in the future. This study also reveals moderate Pb and Zn contaminations in the Palapye area. The former is due to the use of leaded petroleum in motor vehicle traffic and the latter is mainly due to the use of galvanized iron sheets in construction. ?? 2009 Springer Science+Business Media B.V.

Environmental Geochemistry and Health↗

USGS2017

Stable isotopic composition of perchlorate and nitrate accumulated in plants: Hydroponic experiments and field data

Natural perchlorate (ClO 4 − ) in soil and groundwater exhibits a wide range in stable isotopic compositions (δ 37 Cl, δ 18 O, and Δ 17 O), indicating that ClO 4 − may be formed through more than one pathway and/or undergoes post-depositional isotopic alteration. Plants are known to accumulate ClO 4 − , but little is known about their ability to alter its isotopic composition. We examined the potential for plants to alter the isotopic composition of ClO 4 − in hydroponic and field experiments conducted with snap beans ( Phaseolus vulgaris L.). In hydroponic studies, anion ratios indicated that ClO 4 − was transported from solutions into plants similarly to NO 3 − but preferentially to Cl − (4-fold). The ClO 4 − isotopic compositions of initial ClO 4 − reagents, final growth solutions, and aqueous extracts from plant tissues were essentially indistinguishable, indicating no significant isotope effects during ClO 4 − uptake or accumulation. The ClO 4 − isotopic composition of field-grown snap beans was also consistent with that of ClO 4 − in varying proportions from irrigation water and precipitation. NO 3 − uptake had little or no effect on NO 3 − isotopic compositions in hydroponic solutions. However, a large fractionation effect with an apparent ε ( 15 N/ 18 O) ratio of 1.05 was observed between NO 3 − in hydroponic solutions and leaf extracts, consistent with partial NO 3 − reduction during assimilation within plant tissue. We also explored the feasibility of evaluating sources of ClO 4 − in commercial produce, as illustrated by spinach, for which the ClO 4 − isotopic composition was similar to that of indigenous natural ClO 4 − . Our results indicate that some types of plants can accumulate and (presumably) release ClO 4 − to soil and groundwater without altering its isotopic characteristics. Concentrations and isotopic compositions of ClO 4 − and NO 3 − in plants may be useful for determining sources of fertilizers and sources of ClO 4 − in their growth environments and consequently in food supplies.

Science of the Total Environment↗

USGS2025

Patterns of water-extractable soil organic matter in the US Great Plains: Insights from the Haas Soil Archive

Novel approaches that are fast and sensitive are needed to evaluate soil change and integrate soil ecosystem properties. Carbon (C) and nitrogen (N) extracted from soil with water are associated with plant nutrients and microbial activity but information about change over time in the US Great Plains is sparse. We used cool (20°C) and hot (80°C) water extracts from historic (1947) and contemporary (2018) soil samples collected at Moccasin, MT; Akron, CO; and Big Spring, TX; to examine changes to labile C and N and optical properties after 71 years of dryland cropping. Concentrations of C and N extracted with cool water decreased between 1947 and 2018 in surface (0–15.2 cm) samples from Moccasin, by 52% and 35%, and Big Spring, by 37% and 32%, but remained unchanged at Akron. Conversely, net (hot−cool) extractable C did not change at Moccasin or Big Spring but increased at Akron by 26%. Net extractable N decreased at Moccasin by 22% but did not change elsewhere. Sequential principal component analysis and stepwise discriminant analysis identified three important optical properties. Values of SUVA 254 (where SUVA 254 is the specific ultraviolet absorbance at 254 nm) in extracts did not change at Moccasin between 1947 and 2018 but increased at Akron, indicating increased aromaticity. Conversely, SUVA 254 decreased at Big Spring. Values for Sag 350–400 (where Sag 350–400 is the slope from a nonlinear fit of an exponential function to the absorption spectrum over the wavelength range from 350 to 400 nm), inversely related to extract molecular weight and aromaticity, decreased at Moccasin but not elsewhere. The proportion of recalcitrant to labile compounds, C:T (where C:T is the ratio of fluorescence intensity from Peak C [ex340/em440] to Peak T [ex275/em340]), increased in extracts from all sites but especially at Akron. Together, these methods provided insights into soil change while conserving samples.

Colorado, Kansas, Montana, Nebraska, New Mexico, N↗

USGS2016

Soil microbial community profiles and functional diversity in limestone cedar glades

Rock outcrop ecosystems, such as limestone cedar glades (LCGs), are known for their rare and endemic plant species adapted to high levels of abiotic stress. Soils in LCGs are thin (< 25 cm), soil-moisture conditions fluctuate seasonally between xeric and saturated, and summer soil temperatures commonly exceed 48 °C. The effects of these stressors on soil microbial communities (SMC) remain largely unstudied, despite the importance of SMC-plant interactions in regulating the structure and function of terrestrial ecosystems. SMC profiles and functional diversity were characterized in LCGs using community level physiological profiling (CLPP) and plate-dilution frequency assays (PDFA). Most-probable number (MPN) estimates and microbial substrate-utilization diversity (H) were positively related to soil thickness, soil organic matter (OM), soil water content, and vegetation density, and were diminished in alkaline soil relative to circumneutral soil. Soil nitrate showed no relationship to SMCs, suggesting lack of N-limitation. Canonical correlation analysis indicated strong correlations between microbial CLPP patterns and several physical and chemical properties of soil, primarily temperature at the ground surface and at 4-cm depth, and secondarily soil-water content, enabling differentiation by season. Thus, it was demonstrated that several well-described abiotic determinants of plant community structure in this ecosystem are also reflected in SMC profiles.

Tennessee↗

USGS2009

DayCent-Chem simulations of ecological and biogeochemical processes of eight mountain ecosystems in the United States

Atmospheric deposition of nitrogen (N) and sulfur (S) cause complex responses in ecosystems, from fertilization to forest ecosystem decline, freshwater eutrophication to acidification, loss of soil base cations, and alterations of disturbance regimes. DayCent-Chem, an ecosystem simulation model that combines ecosystem nutrient cycling and plant dynamics with aqueous geochemical equilibrium calculations, was developed to address ecosystem responses to combined atmospheric N and S deposition. It is unique among geochemically-based models in its dynamic biological cycling of N and its daily timestep for investigating ecosystem and surface water chemical response to episodic events. The model was applied to eight mountainous watersheds in the United States. The sites represent a gradient of N deposition across locales, from relatively pristine to N-saturated, and a variety of ecosystem types and climates. Overall, the model performed best in predicting stream chemistry for snowmelt-dominated sites. It was more difficult to predict daily stream chemistry for watersheds with deep soils, high amounts of atmospheric deposition, and a large degree of spatial heterogeneity. DayCent-Chem did well in representing plant and soil carbon and nitrogen pools and fluxes. Modeled stream nitrate (NO 3 - ) and ammonium (NH 4 + ) concentrations compared well with measurements at all sites, with few exceptions. Simulated daily stream sulfate (SO 4 2- ) concentrations compared well to measured values for sites where SO 4 2- deposition has been low and where SO 4 2- adsorption/desorption reactions did not seem to be important. The concentrations of base cations and silica in streams are highly dependent on the geochemistry and weathering rates of minerals in each catchment, yet these were rarely, if ever, known. Thus, DayCent-Chem could not accurately predict weathering products for some catchments. Additionally, few data were available for exchangeable soil cations or the magnitude of base cation deposition as a result of dry and fog inputs. The uncertainties related to weathering reactions, deposition, soil cation exchange capacity, and groundwater contributions influenced how well the simulated acid neutralizing capacity (ANC) and pH estimates compared to observed values. Daily discharge was well represented by the model for most sites. The chapters of this report describe the parameterization for each site and summarize model results for ecosystem variables, stream discharge, and stream chemistry. This intersite comparison exercise provided insight about important and possibly not well understood processes.

Scientific Investigations Report↗

USGS2007

Genotype, soil type, and locale effects on reciprocal transplant vigor, endophyte growth, and microbial functional diversity of a narrow sagebrush hybrid zone in Salt Creek Canyon, Utah

When addressing the nature of ecological adaptation and environmental factors limiting population ranges and contributing to speciation, it is important to consider not only the plant's genotype and its response to the environment, but also any close interactions that it has with other organisms, specifically, symbiotic microorganisms. To investigate this, soils and seedlings were reciprocally transplanted into common gardens of the big sagebrush hybrid zone in Salt Creek Canyon, Utah, to determine location and edaphic effects on the fitness of parental and hybrid plants. Endophytic symbionts and functional microbial diversity of indigenous and transplanted soils and sagebrush plants were also examined. Strong selection occurred against the parental genotypes in the middle hybrid zone garden in middle hybrid zone soil; F1 hybrids had the highest fitness under these conditions. Neither of the parental genotypes had superior fitness in their indigenous soils and habitats; rather F1 hybrids with the nonindigenous maternal parent were superiorly fit. Significant garden-by-soil type interactions indicate adaptation of both plant and soil microorganisms to their indigenous soils and habitats, most notably in the middle hybrid zone garden in middle hybrid zone soil. Contrasting performances of F1 hybrids suggest asymmetrical gene flow with mountain, rather than basin, big sagebrush acting as the maternal parent. We showed that the microbial community impacted the performance of parental and hybrid plants in different soils, likely limiting the ranges of the different genotypes.

Utah↗

USGS2017

Disease protection and allelopathic interactions of seed-transmitted endophytic pseudomonads of invasive reed grass ( Phragmites australis )

Background and aims Non-native Phragmites australis (haplotype M) is an invasive grass that decreases biodiversity and produces dense stands. We hypothesized that seeds of Phragmites carry microbes that improve seedling growth, defend against pathogens and maximize capacity of seedlings to compete with other plants. Methods We isolated bacteria from seeds of Phragmites , then evaluated representatives for their capacities to become intracellular in root cells, and their effects on: 1.) germination rates and seedling growth, 2.) susceptibility to damping-off disease, and 3.) mortality and growth of competitor plant seedlings (dandelion ( Taraxacum officionale F. H. Wigg) and curly dock ( Rumex crispus L.)). Results Ten strains (of 23 total) were identified and characterized; seven were identified as Pseudomonas spp. Strains Sandy LB4 ( Pseudomonas fluorescens ) and West 9 ( Pseudomonas sp.) entered root meristems and became intracellular. These bacteria improved seed germination in Phragmites and increased seedling root branching in Poa annua . They increased plant growth and protected plants from damping off disease. Sandy LB4 increased mortality and reduced growth rates in seedlings of dandelion and curly dock. Conclusions Phragmites plants associate with endophytes to increase growth and disease resistance, and release bacteria into the soil to create an environment that is favorable to their seedlings and less favorable to competitor plants.

Plant and Soil↗

USGS2016

Disentangling the complexities of how legumes and their symbionts regulate plant nitrogen access and storage

Nitrogen (N) availability strongly inﬂuences the structure and function of ecosystems (e.g. Vitousek & Howarth, 1991), but only a relatively small number of microbial groups have the ability to convert the N 2 in our atmosphere into biologically available forms.This process, N 2 ﬁxation, is the dominant source of new N to the biosphere outside of anthropogenic inputs (Vitousek et al., 2013).Some N 2 -ﬁxing microorganisms live independently on plant leaves, on decomposing organic material, and in soil (Reed et al.,2011), while others have co-evolved with a few higher plant taxa to form symbioses that ﬁx N 2 in root nodules (e.g. Sprent & Raven,1985). The relationship between these legumes and their root nodule symbionts (rhizobia) is one of the most well studied plant –microbe symbioses. Yet, many important questions about the controls, interactions, and implications of legume N 2 ﬁxation remain unanswered. In this issue of New Phytologist (pp. 690–699),Wolf, Funk, & Menge elegantly address a fundamental set of questions about N 2 ﬁxation in their examination of how herbaceous legumes, their symbionts, and external N availability interact to govern legume access and storage of N.

New Phytologist↗