Linking pesticide exposure to neurodegenerative diseases: An in vitro investigation with human neuroblastoma cells

Although many organochlorine pesticides (OCPs) have been banned or restricted because of their persistence and linkage to neurodegenerative diseases, there is evidence of continued human exposure. In contrast, registered herbicides are reported to have a moderate to low level of toxicity; however, there is little information regarding their toxicity to humans or their combined effects with OCPs. This study aimed to characterize the mechanism of toxicity of banned OCP insecticides (aldrin, dieldrin, heptachlor, and lindane) and registered herbicides (trifluralin, triallate, and clopyralid) detected at a legacy contaminated pesticide manufacturing and packing site using SH-SY5Y cells. Cell viability, LDH release, production of reactive oxygen species (ROS), and caspase 3/7 activity were evaluated following 24 h of exposure to the biocides. In addition, RNASeq was conducted at sublethal concentrations to investigate potential mechanisms involved in cellular toxicity. Our findings suggested that aldrin and heptachlor were the most toxic, while dieldrin, lindane, trifluralin, and triallate exhibited moderate toxicity, and clopyralid was not toxic to SH-SY5Y cells. While aldrin and heptachlor induced their toxicity through damage to the cell membrane, the toxicity of dieldrin was partially attributed to necrosis and apoptosis. Moreover, toxic effects of lindane, trifluralin, and triallate, at least partially, were associated with ROS generation. Gene expression profiles suggested that decreased cell viability induced by most of the tested biocides was related to inhibited cell proliferation. The dysregulation of genes encoding for proteins with anti-apoptotic properties also supported the absence of caspase activation. Identified enriched terms showed that OCP toxicity in SH-SY5Y cells was mediated through pathways associated with the pathogenesis of neurodegenerative diseases. In conclusion, this study provides a basis for elucidating the molecular mechanisms of pesticide-induced neurotoxicity. Moreover, it introduced SH-SY5Y cells as a relevant in vitro model for investigating the neurotoxicity of pesticides in humans.

Herbicides and pesticides synergistically interact at low concentrations in complex mixtures

Assessing a complex mixture of pesticides at the impacted sites has been challenging for risk assessors for 50 years. The default assumption is that at low concentrations, pesticides interact additively with one another; thus, the risk posed by each component of a complex mixture could be simply added up. The EPA interaction-based hazard index (HIInteraction) modifies this assumption using a binary weight-of-evidence (BINWOE). However, data gaps often preclude HIInteraction use at most sites. This study evaluated these assumptions using the BINWOE to estimate the hazard index (HI) of select pesticide mixtures. The lack of in vivo binary interaction data led us to use a cell line, SH-SY5Y, to obtain the data necessary for the BINWOE approach. In the risk assessment, we considered the most active exposure scenario inhaling a mixture of volatile pesticides from contaminated soil and groundwater. The potential interactions between pesticides in 15 binary mixtures were investigated using the MTT assay in SH-SY5Y cells. Our findings showed that 60% of the binary mixtures elicited synergism (in at least one concentration), 27% displayed antagonism, and 13% showed additive effects in SH-SY5Y cells. Combining human safety data with in vitro interaction data indicated that adults and toddlers were at the highest risk when considering industrial and commercial land use, respectively, compared to other subpopulations. Incorporating interaction data into the risk assessment either increased the risk by up to 20% or decreased the risk by 2%, depending on the mixture. Our results demonstrate the predominant synergistic interactions, even at low concentrations, altered risk characterization at the complex operating site. Most concerning, organochlorine pesticides with the same mechanism of action did not follow dose additivity when evaluated by SH-SY5Y cell lines. Based on our observations, we caution that current HI methods based on additivity assumptions may underestimate the risk of organochlorine mixtures.

Integument colour change: Tracking delayed growth of Oppia nitens as a sub-lethal indicator of soil toxicity

Growth is an important toxicity end-point in ecotoxicology but is rarely used in soil ecotoxicological studies. Here, we assessed the growth change of Oppia nitens when exposed to reference and heavy metal toxicants. To assess mite growth, we developed an image analysis methodology to measure colour spectrum changes of the mite integument at the final developmental stage, as a proxy for growth change. We linked the values of red, green, blue, key-black, and light colour of mites to different growth stages. Based on this concept, we assessed the growth change of mites exposed to cadmium, copper, zinc, lead, boric acid, or phenanthrene at sublethal concentrations in LUFA 2.2 soil for 14 days. Sublethal effects were detected after 7 days of exposure. The growth of O. nitens was more sensitive than survival and reproduction when exposed to copper (EC50growth = 1360 mg/kg compared to EC50reproduction = 2896 mg/kg). Mite growth sensitivity was within the same order of magnitude to mite reproduction when exposed to zinc (EC50growth = 1785; EC50reproduction = 1562 mg/kg). At least 25% of sublethal effects of boric acid and phenanthrene were detected in the mites but growth was not impacted when O. nitens were exposed to lead. Consistent with previous studies, cadmium was the most toxic metal to O. nitens. The mite growth pattern was comparable to mite survival and reproduction from previous studies. Mite growth is a sensitive toxicity endpoint, ecologically relevant, fast, easy to detect, and can be assessed in a non-invasive fashion, thereby complimenting existing O. nitens testing protocols.

A shift from individual species to ecosystem services effect: Introducing the Eco-indicator Sensitivity Distribution (EcoSD) as an ecosystem services approach to redefining the Species Sensitivity Distribution (SSD) for soil ecological risk assessment

Incorporating the ecosystem services (ES) approach into soil ecological risk assessment (ERA) has been advocated over the years, but implementing the approach in ERA faces some challenges. However, several researchers have made significant efforts to the soil ERA, such as applying the Species Sensitivity Distribution (SSD) to discern chemical effects on the soil ecosystem. Despite the considerable contributions of SSD to ERA, SSD fails to relate chemical impact on individual species to ES and account for functional redundancy as well as soil ecosystem complexity. Here, we introduce the Eco-indicator Sensitivity Distribution (EcoSD). An EcoSD fits ecological functional groups and soil processes, termed "eco-indicators," instead of individual species responses to a statistical distribution. These eco-indicators are directly related to critical ecosystem functions that drive ES. We derived an EcoSD for Cadmium as a model chemical and estimated a Soil Ecosystem Protection Value (EcoPVSoil ) based on the eco-indicator data set for cadmium from the literature. The EcoSD identified nitrogen cycling as the critical process disrupted by cadmium. A key advantage of EcoSD is that it identified key ecological and chemical indicators of an ecosystem services effect. In so doing, it links chemical monitoring results to sensitive ecological functions. The estimated EcoPVSoil for Cadmium was slightly more protective of the soil ecosystem than most regional soil values derived from this study's data set and soil guideline values from the literature. Hence, EcoSD has proved to be a practical and valuable ES concept with the potential to serve as an initial step of the tiered ERA approach.

Characterization of molecular and apical effects of legacy-contaminated groundwater on early life stages of fathead minnows

Mechanistic toxicology approaches represent a promising alternative to traditional live animal testing; however, the often-noted uncertainties concerning the linkages between effects observed at molecular and apical levels curtails the adoption of such approaches. The objective of this study was to apply a novel transcriptomics tool, EcoToxChips, to characterize the effects of complex mixtures of contaminants in fish and to compare molecular response patterns to higher-level biological responses including swimming behavior, deformities, and mortality. Fathead minnow (FHM) embryos were exposed for seven days to increasing concentrations of groundwater collected from moderate (MIAZ) and high (HIAZ) industrial activity zones of a legacy contaminated site. There was a concentration-dependent disruption of photo-dependent swimming responses associated with avoidance behavior patterns and spinal deformities (HIAZ and MIAZ), and an induction of pericardial edema and mortality (HIAZ-10%). Parallel EcoToxChip analyses showed a shift from a majority of upregulated genes at lower concentrations to a majority of downregulated genes at higher concentrations for both treatment conditions. Many of the significantly differentially regulated genes were involved in biological pathways including induction of oxidative stress, activating of several metabolic processes and growth, cell death, and inhibition of signal transduction signaling processes. Several contaminants present in the groundwater mixtures could have contributed to an exceedance of antioxidant system capacities that possibly led to the deformities, altered swimming behaviours, and mortality observed in FHMs. Therefore, molecular response patterns could be linked to apical outcomes observed in this study. Overall, the results observed in this study demonstrate that transcriptomics approaches such as the EcoToxChip system could be supportive of risk assessment of complex contaminated sites.

Linking niche size and phylogenetic signals to predict future soil microbial relative abundances

Bacteria provide ecosystem services (e.g., biogeochemical cycling) that regulate climate, purify water, and produce food and other commodities, yet their distribution and likely responses to change or intervention are difficult to predict. Using bacterial 16S rRNA gene surveys of 1,381 soil samples from the Biomes of Australian Soil Environment (BASE) dataset, we were able to model relative abundances of soil bacterial taxonomic groups and describe bacterial niche space and optima. Hold out sample validated hypothetical causal networks (structural equation models; SEM) were able to predict the relative abundances of bacterial taxa from environmental data and elucidate soil bacterial niche space. By using explanatory SEM properties as indicators of microbial traits, we successfully predicted soil bacterial response, and in turn potential ecosystem service response, to near-term expected changes in the Australian climate. The methods developed enable prediction of continental-scale changes in bacterial relative abundances, and demonstrate their utility in predicting changes in bacterial function and thereby ecosystem services. These capabilities will be strengthened in the future with growing genome-level data.

More than just a substrate for mites: Moss-dominated biological soil crust protected population of the oribatid mite, Oppia nitens against cadmium toxicity in soil

Metal-impacted sites often need aggressive ecorestoration strategies to restore a functional plant-soil system. The use of biological soil crusts for soil stabilization, moisture retention and C and N input in disturbed and contaminated soils is becoming a more common ecorestoration practice. Biological soil crusts comprise cyanobacteria, fungi, lichens, and bryophytes (mostly moss). Moss-dominated BSCs provide significant N mineralization rate in most terrestrial ecosystems. Oribatid mites or moss mites dominate moss-dominated BSCs and provide essential ecosystem services such as decomposition and nutrient cycling. We hypothesized that moss-dominated BSCs would create a high-quality habitat niche for O. nitens to resist Cd-induced toxicity. Adult mites were exposed to Cd for 28 days in soil with or without BSCs that were aged for eight months. Cadmium toxicity to mites in soil without BSCs was 1.7 and 5.4times greater than in soil with BSCs, respectively for the mites reproduction and instantaneous population growth rate (PGR_i). The moss-dominated BSC did not reduce Cd bioavailability in the mites but increased the mite's resilience to Cd toxicity, likely mediated by the trophic transfer of calcium from the BSC to the mites. Our work identifies a second mechanistic avenue by which BSCs are useful for ecorestoration, i.e., the improvement of soil invertebrate physiology to resist metal stress.

Positron-emitting radiotracers spatially resolve unexpected biogeochemical relationships linked with methane oxidation in Arctic soils

Arctic soils are marked by cryoturbic features, which impact soil-atmosphere methane (CH₄ ) dynamics vital to global climate regulation. Cryoturbic diapirism alters C/N chemistry within frost boils by introducing soluble organic carbon and nutrients, potentially influencing microbial CH₄ oxidation. CH₄ oxidation in soils, however, requires a spatio-temporal convergence of ecological factors to occur. Spatial delineation of microbial activity with respect to these key microbial and biogeochemical factors at relevant scales is experimentally challenging in inherently complex and heterogeneous natural soil matrices. This work aims to overcome this barrier by spatially linking microbial CH₄ oxidation with C/N chemistry and metagenomic characteristics. This is achieved by using positron-emitting radiotracers to visualize millimeter-scale active CH₄ uptake areas in Arctic soils with and without diapirism. X-ray absorption spectroscopic speciation of active and inactive areas shows CH₄ uptake spatially associates with greater proportions of inorganic N in diapiric frost boils. Metagenomic analyses reveal Ralstonia pickettii associates with CH₄ uptake across soils along with pertinent CH₄ and inorganic N metabolism associated genes. This study highlights the critical relationship between CH₄ and N cycles in Arctic soils, with potential implications for better understanding future climate. Furthermore, our experimental framework presents a novel, widely applicable strategy for unraveling ecological relationships underlying greenhouse gas dynamics under global change.

Brassica napus Bacterial Assembly Processes Vary with Plant Compartment and Growth Stage but Not between Lines

Holobiont bacterial community assembly processes are an essential element to understanding the plant microbiome. To elucidate these processes, leaf, root, and rhizosphere samples were collected from eight lines of Brassica napus in Saskatchewan over the course of 10 weeks. We then used ecological null modeling to disentangle the community assembly processes over the growing season in each plant part. The root was primarily dominated by stochastic community assembly processes, which is inconsistent with previous studies that suggest of a highly selective root environment. Leaf assembly processes were primarily stochastic as well. In contrast, the rhizosphere was a highly selective environment. The dominant rhizosphere selection process leads to more similar communities. Assembly processes in all plant compartments were dependent on plant growth stage with little line effect on community assembly. The foundations of assembly in the leaf were due to the harsh environment, leading to dominance of stochastic effects, whereas the stochastic effects in the root interior likely arise due to competitive exclusion or priority effects. Engineering canola microbiomes should occur during periods of strong selection assuming strong selection could promote beneficial bacteria. For example, engineering the microbiome to resist pathogens, which are typically aerially born, should focus on the flowering period, whereas microbiomes to enhance yield should likely be engineered postflowering as the rhizosphere is undergoing strong selection. IMPORTANCE In order to harness the microbiome for more sustainable crop production, we must first have a better understanding of microbial community assembly processes that occurring during plant development. This study examines the bacterial community assembly processes of the leaf, root, and rhizosphere of eight different lines of Brassica napus over the growing season. The influence of growth stage and B. napus line were examined in conjunction with the assembly processes. Understanding what influences the assembly processes of crops might allow for more targeted breeding efforts by working with the plant to manipulate the microbiome when it is undergoing the strongest selection pressure.

A sustainable colloidal material with sorption and nutrient-supply capabilities for in situ groundwater bioremediation

Microbial degradation of subsurface organic contaminants is often hindered by the low availability of both contaminants and nutrients, especially phosphorus (P). The use of activated carbon and traditional P fertilizers to overcome these challenges has proved ineffective; therefore, we sought to find an innovative and effective solution. By heating bone meal-derived organic residues in water in a closed reactor, we synthesized nonporous colloids composed of aromatic and aliphatic structures linked to P groups. X-ray absorption near edge spectroscopy analysis revealed that the materials contain mostly bioavailable forms of P (i.e., adsorbed P and magnesium-bearing brushite). The capacity of the materials to adsorb organic contaminants was investigated using benzene and batch isotherm experiments. The adsorption isotherms were fitted to the linearized Freundlich model; isotherm capacity (logK_F ) values for the materials ranged between 1.6 and 2.8 μg g^-1 . These results indicate that the colloidal materials have a high affinity for organic contaminants. This, coupled with their possession of bioavailable P, should make them effective amendments for in situ groundwater bioremediation. Also, the materials' chemical properties suggest that they are not recalcitrant, implying that they will not become potential contaminants when released into the environment.

The role of monodentate tetrahedral borate complexes in boric acid binding to a soil organic matter analogue

Boron is an essential plant micronutrient responsible for several important functions. Boron availability in soils may be influenced by binding with soil organic matter (SOM), particularly with aromatic diol and polyphenol groups on SOM. The mechanism by which aromatic diols bind boron, however, remains unclear. The objective of this work is to further investigate interaction between boric acid and varying concentrations of an aromatic, polyphenolic SOM analogue (tannic acid at 5, 10 and 20 g L^-1) from pH = 5-9. UV/Visible spectroscopy showed boric acid enhanced tannic acid deprotonation at pH = 7.0 and 9.0, resulting in singly deprotonated tannic acid subunits. Attenuated total reflectance-Fourier transform infrared spectroscopy (ATR-FTIR) showed boric acid/tannic acid binding for all concentrations at pH = 7 and 9, whereas binding at pH = 5.0 was observed only at 20 g L^-1 tannic acid. Uncomplexed boron species were not evident at pH = 9.0, but were detectable at pH = 7.0 at lower tannic acid concentrations and prevalent at pH = 5.0, qualitatively indicating binding affinity increases from pH = 5.0 to 9.0. ATR-FTIR results indicated tetrahedral coordination of boron upon complexation to tannic acid with a monodentate mechanism. These results collectively highlight a transition of solution planar boric acid to a tetrahedral, monodentate coordination with a single phenol group in tannic acid polyphenols. This contrasts with previous spectroscopic studies, which indicated bidentate tetrahedral or monodentate trigonal planar orientations prevail at aromatic diol sites. This work presents a previously unobserved boric acid coordination mechanism to an SOM analogue and, therefore, may better inform prediction and modeling of boron behavior in soils.

Soil Buffering Capacity Can Be Used To Optimize Biostimulation of Psychrotrophic Hydrocarbon Remediation

Effective bioremediation of hydrocarbons requires innovative approaches to minimize phosphate precipitation in soils of different buffering capacities. Understanding the mechanisms underlying sustained stimulation of bacterial activity remains a key challenge for optimizing bioremediation-particularly in northern regions. Positron emission tomography (PET) can trace microbial activity within the naturally occurring soil structure of intact soils. Here, we use PET to test two hypotheses: (1) optimizing phosphate bioavailability in soil will outperform a generic biostimulatory solution in promoting hydrocarbon remediation and (2) oligotrophic biostimulation will be more effective than eutrophic approaches. In so doing, we highlight the key bacterial taxa that underlie aerobic and anaerobic hydrocarbon degradation in subarctic soils. In particular, we showed that (i) optimized phosphate bioavailability outperformed generic biostimulatory solutions in promoting hydrocarbon degradation, (ii) oligotrophic biostimulation is more effective than eutrophic approaches, and (iii) optimized biostimulatory solutions stimulated specific soil regions and bacterial consortia. The knowledge gleaned from this study will be crucial in developing field-scale biodegradation treatments for sustained stimulation of bacterial activity in northern regions.

Is assuming additivity of single-metal toxicity thresholds a conservative approach to assessing risk of ecotoxicity from elevated soil concentrations of cobalt, copper, and nickel at contaminated sites?

Multiple metal-impacted soils are often realistic scenarios for risk assessments, but tools to address these are currently lacking. The objective of this work was to evaluate whether assuming concentration addition (CA) of metal mixture effects was conservative for prospective risk assessment of soils that were elevated mainly in Ni and Cu and somewhat with Co, Pb, or As. Observed whole mixture toxicity for field soils with aged metal mixtures was compared to the expected whole mixture toxicity, assuming additivity of prospective single-metal thresholds ("toxic units") for the mixture components. Bioavailability-adjusted single-metal toxicity thresholds expected for those field soils were the median hazard concentration affecting 5% of species (HC5-50) from the predicted no-effect concentration (PNEC) calculator and calculated from the species-specific dose-response multiple linear relationships (MLRs), all from the European Union Registration, Evaluation, Authorisation and Restriction of Chemicals (EU REACH) dossiers for metals. Generic single-metal toxicity thresholds were based on Canadian Council of Ministers of the Environment soil quality guidelines (CCME SQGs) for agricultural soils. Observed toxicity thresholds were from the community-based risk assessments conducted for Port Colborne and Sudbury, Ontario, Canada. Mostly, prospective single-metal toxicity thresholds were protective relative to the observed toxicity, although that was species or ecological process dependent. The bioavailability-adjusted single-metal thresholds were less conservative than the CCME SQG method, even though the former is based on site-specific EC10 values, and the latter is based on generic EC25 values. When within-site variability in soil properties was used to calculate the 5^th and 95^th CI for the HC5 sum of toxic units (∑TUs), CA was conservative for far fewer endpoints. In addition, the prospective ∑TUs were more conservative predictions of the observed whole mixture toxicities for Port Colborne soils than for Sudbury soils. The most appropriate balance of accuracy and conservatism for identifying low-level risk of the whole mixtures in these soils appeared to be the bioavailability-adjusted HC5-50, which was applicable to many endpoints and 2 quite different exposure concentration ratios. Integr Environ Assess Manag 2021;17:753-766. © 2020 SETAC.

Does habitat quality matter to soil invertebrates in metal-contaminated soils?

This study investigated the influence of habitat quality (HQ) on the reproduction and bioenergetics (energy reserve and metabolic enzyme activities) of the oribatid mite, Oppia nitens, in response to cadmium (Cd). In the baseline toxicity test, Cd elevated the carbohydrate reserve of adult mites at intermediate Cd concentrations (88 and 175 mg Cd kg^-1) but without a change in lipid and protein reserve across 0-700 mg Cd kg^-1. The activities of glucose metabolism enzymes, glucose-6-phosphate dehydrogenase (G6PDH) and pyruvate kinase (PK) were inhibited in the mites at 700 mg Cd kg^-1. Adult mites reared in high HQ soils had higher reproduction relative to mites from low HQ soils when exposed to Cd in OECD soil, but there was no difference in bioenergetics between mites from low and high HQ soils. Hence, HQ significantly (p = 0.024) influenced the reproduction of mites (i.e., juvenile production) irrespective of the Cd concentration in the OECD soil but did not significantly affect the bioenergetics of the mites. We suggest that habitat quality's effect could be more significant than metal concentration on the biological fitness (juvenile production) of O. nitens in metal-contaminated soils.

From the Outside in: An Overview of Positron Imaging of Plant and Soil Processes

Positron-emitting nuclides have long been used as imaging agents in medical science to spatially trace processes non-invasively, allowing for real-time molecular imaging using low tracer concentrations. This ability to non-destructively visualize processes in real time also makes positron imaging uniquely suitable for probing various processes in plants and porous environmental media, such as soils and sediments. Here, we provide an overview of historical and current applications of positron imaging in environmental research. We highlight plant physiological research, where positron imaging has been used extensively to image dynamics of macronutrients, signalling molecules, trace elements, and contaminant metals under various conditions and perturbations. We describe how positron imaging is used in porous soils and sediments to visualize transport, flow, and microbial metabolic processes. We also address the interface between positron imaging and other imaging approaches, and present accompanying chemical analysis of labelled compounds for reviewed topics, highlighting the bridge between positron imaging and complementary techniques across scales. Finally, we discuss possible future applications of positron imaging and its potential as a nexus of interdisciplinary biogeochemical research.

An intensive multilocation temporal dataset of fungal and bacterial communities in the root and rhizosphere of Brassica napus

The plant microbiome has been recently recognized as a plant phenotype to help in the food security of the future population. However, global plant microbiome datasets are insufficient to be used effectively for breeding this new generation of crop plants. We surveyed the diversity and temporal composition of bacterial and fungal communities in the root and rhizosphere of Brassica napus, the world's second largest oilseed crop, weekly in eight diverse lines at one site and every three weeks in sixteen lines, at three sites in 2016 and 2017 in the Canadian Prairies. We sequenced the bacterial 16S ribosomal RNA gene generating a total of 127.7 million reads and the fungal internal transcribed spacer (ITS) region generating 113.4 million reads. 14,944 unique fungal amplicon sequence variants (ASV) were detected, with an average of 43 ASVs per root and 105 ASVs per rhizosphere sample. We detected 10,882 unique bacterial ASVs with an average of 249 ASVs per sample. Temporal, site-to-site, and line-driven variability were key determinants of microbial community structure. This dataset is a valuable resource to systematically extract information on the belowground microbiome of diverse B. napus lines in different environments, at different times in the growing season, in order to adapt effective varieties for sustainable crop production systems.

Single metal and metal mixture toxicity of five metals to Oppia nitens in five different Canadian soils

Metal mixture toxicity across soil types is a daunting challenge to risk assessment. Here, we evaluated metal mixture toxicity in Oppia nitens, using ten fixed metal mixture ratios in five Canadian soils that closely matched some of the EU PNEC reference soils. Soils were dosed with five metals (Cu, Zn, Pb, Co, Ni) as single metals (ten concentrations) and as mixtures (eight concentrations). Synchronized adult mites were exposed to metals, with survival and reproduction assessed after 28 days. We found out that (i) the differences among soils in mite sensitivity and single metals were not consistent when mites were exposed to metal mixtures, (ii) assuming concentration addition, the mixture interaction factor (MIF) showed that single metal low effect levels excessively underestimated low level metal mixture effects (iii) Zn emerged as a protective metal in most mixtures, and (iv) Soil properties such as CEC, independent of effects on metal speciation, explained more of the variation than measured metals. This study suggests that metal risk assessment should be done on a case by case basis. Further work is needed to ensure that by protecting soil-dwelling organisms from single metals, the risk from metal mixtures is appropriately protected for.

Inclusion of molecular descriptors in predictive models improves pesticide soil-air partitioning estimates

The soil-air exchange of pesticides is one potential fate and exposure pathways, and this process is generally thought to be governed by soil properties and environmental conditions. The experimental determination of soil-air partitioning coefficient (Ksa) is laborious and costly and typically, Ksa's are predicted from a semiempirical or a simple linear regression approach with soil and environmental variables. Here we developed a model that combined linear regression of soil, environmental and molecular parameters with the quantitative structural-property relationship (QSPR) to predict Ksa for pesticides. The values of theoretical descriptors of pesticides were calculated and the best descriptors selected using the Boruta Algorithm. Seventy-six experimental logKsa values for 17 pesticides were used in model development. Multiple linear regression (MLR) with a soil (organic carbon fraction), physicochemical (octanol-air partitioning coefficient), environmental (temperature and humidity) and molecular descriptor (Gmin, a 2D E-state molecular parameter), called as MLR-QSPR combined model exhibited better predictability (adj. r² = 0.95) of logKsa compared to MLR (adj. r² = 0.87) or QSPR (adj. r² = 0.82) itself. MLR-QSPR also showed the best performance in five-fold cross-validation (adj. r² = 0.94) and test set verification (adj. r² = 0.96). The developed model was validated and characterized by the applicability domain. Results showed that the proposed MLR-QSPR approach is highly predictive and statistically robust with >95% of predictions within ±0.5 log unit of the measured Ksa. Therefore, this approach can be used in estimating the soil-air partitioning of pesticides to better predict it's fate and transport in environments.

An intensive multilocation temporal dataset of fungal communities in the root and rhizosphere of Brassica napus

The plant microbiome has been recently recognized as a plant phenotype to help in the food security of the future population. However, global plant microbiome datasets are insufficient to be used effectively for breeding this new generation of crop plants. We surveyed the diversity and temporal composition of fungal communities in the root and rhizosphere of Brassica napus, the world's second largest oilseed crop, weekly in eight diverse lines at one site and every three weeks in sixteen lines, at three sites in 2016 and 2017 in the Canadian Prairies. 14,944 unique amplicon sequence variants (ASV) were detected based on the internal transcribed spacer region, with an average of 43 ASVs per root and 105 ASVs per rhizosphere sample. Temporal, site-to-site, and line-driven variability were key determinants of fungal community structure. This dataset is a valuable resource to systematically extract information on the belowground microbiome of diverse B. napus lines in different environments, at different times in the growing season, in order to adapt effective varieties for sustainable crop production systems.

Uptake, toxicity, and maternal transfer of cadmium in the oribatid soil mite, Oppia nitens: Implication in the risk assessment of cadmium to soil invertebrates

Cadmium (Cd) is a heavy metal of concern in contaminated sites because of its high toxicity to soil biota and humans. Typically, Cd exposure is thought to be dominated by dissolved Cd in soil pore water and, thus, dermal uptake. In this study, we investigated the uptake, toxicity, and maternal transfer of Cd in a standard soil invertebrate, the oribatid mite (Oppia nitens), which is common to boreal and temperate ecozones. We found total soil Cd predicted Cd uptake in adult and juvenile O. nitens with no significant uptake from pore water by juvenile mites. Cadmium significantly inhibited juvenile production and recruitment as well as reduced adult fecundity. Adult O. nitens maternally transferred 39-52% of their Cd body burden to juveniles (tritonymphs) while the maternally-acquired Cd accounted for 41% of the juvenile internal Cd load. Our results suggest that dermal adsorption of metal ions is not important for O. nitens and that maternal transfer of Cd in soil invertebrates has ecological and toxicological implications for populations of soil invertebrates. Maternal transfer should be incorporated as a criterion in setting environmental soil quality guidelines (SQG_E) for cadmium and other non-essential heavy metals.

A survey of invasive plants on grassland soil microbial communities and ecosystem services

Invasive plants can cause changes in the structure and function of the ecosystem being invaded. Any changes in ecosystem diversity and community composition will likely alter ecosystem services provided by that ecosystem. However, how these ecosystem services may change is poorly understood. To elucidate how these ecosystem services will change with invasion, we sampled 561 plots undergoing invasion by smooth brome (Bromus inermis) and four other invasive species at a native Rough Fescue prairie located near Saskatoon, Saskatchewan, Canada. Soil and plant surveys were undertaken weekly for 26 weeks between May of 2014 and November of 2014, or the growing season. We measured a suite of ecosystem services, including greenhouse gasses, extracellular enzyme function, forage production, glyphosate degradation and decomposition. Furthermore, soil physical and chemical properties were measured, and soil bacterial and fungal communities were sequenced. This is a large and multifaceted dataset with complex temporal and spatial attributes which can be used to answer numerous questions regarding the functioning of prairie ecosystems and how invasive species will impact that functioning.

Measurement(s)	invasive species • native species • ecosystem decay • greenhouse gas • DNA
Technology Type(s)	Survey • monitoring device • DNA sequencing
Factor Type(s)	geographic location • sampling date
Sample Characteristic - Environment	prairie • soil
Sample Characteristic - Location	Saskatoon

Machine-accessible metadata file describing the reported data: 10.6084/m9.figshare.11898213

Methodology and validation of a new tandem mass spectrometer method for the quantification of inorganic and organic 18O-phosphate species

Phosphorus (P) fertilizers are crucial to achieve peak productivity in agricultural systems. However, the fate of P fertilizers via microorganism incorporation and the exchange processes between soil pools is not well understood. 18Oxygen-labelled phosphate (18O- Pi) can be tracked as it cycles through soil systems. Our study describes biological and geochemical P dynamics using a tandem mass spectrometry (MS/MS) method for the absolute quantification of 18O- Pi. Soil microcosms underwent three treatments: (i) 18O- Pi, (ii) unlabelled phosphate (16O- Pi) or (iii) Milli-Q control, dissolved in a bio-stimulatory solution. During a 6-week series the microcosms were sampled to measure P by Hedley sequential fractionation and DNA extraction samples digested to 3'-deoxynucleoside 5'-monophosphates (dNMP). A MS/MS attached to a HPLC analyzed each P-species through collision-induced dissociation. The resin-extractable and bicarbonate 18O- Pi and 16O- Pi fractions displayed similar precipitation and adsorption-desorption trends. Biotic activity measured in the NaOH and dNMP fractions rapidly delabelled 18O- Pi; however, the MS/MS measured some 18O that remained between the P backbone and deoxyribose sugars. After 6 weeks, the 18O- Pi had not reached the HCl soil pool, highlighting the long-term nature of P movement. Our methodology improves on previous isotopic tracking methods as endogenous P does not dilute the system, unlike 32P techniques, and measured total P is not a ratio, dissimilar from natural abundance techniques. Measuring 18O- Pi using MS/MS provides information to enhance land sustainability and stewardship practices regardless of soil type by understanding both the inorganic movement of P fertilizers and the dynamic P pool in microbial DNA.

Oppia nitens C.L. Koch, 1836 (Acari: Oribatida): Current Status of Its Bionomics and Relevance as a Model Invertebrate in Soil Ecotoxicology

The oribatid soil mite Oppia nitens C.L. Koch, 1836, is a model microarthropod in soil ecotoxicity testing. This species has a significant role in supporting soil functions and as a suitable indicator of soil contamination. Despite its significance to the environment and to ecotoxicology, however, very little is known of its biology, ecology, and suborganismal responses to contaminants in the soil. In the present review, we present detailed and critical insights into the biology and ecology of O. nitens in relation to traits that are crucial to its adaptive responses to contaminants in soil. We used a species sensitivity distribution model to rank the species sensitivity to heavy metals (cadmium and zinc) and neonicotinoids (imidacloprid and thiacloprid) compared with other standardized soil invertebrates. Although the International Organization for Standardization and Environment and Climate Change Canada are currently standardizing a protocol for the use of O. nitens in soil toxicity testing, we believe that O. nitens is limited as a model soil invertebrate until the molecular pathways associated with its response to contaminants are better understood. These pathways can only be elucidated with information from the mites' genome or transcriptome, which is currently lacking. Despite this limitation, we propose a possible molecular pathway to metal tolerance and a putative adverse outcome pathway to heavy metal toxicity in O. nitens. Environ Toxicol Chem 2019;38:2593-2613. © 2019 SETAC.

The forgotten role of toxicodynamics: How habitat quality alters the mite, Oppia nitens, susceptibility to zinc, independent of toxicokinetics

Soil habitat quality is thought to influence metal toxicity via changes in speciation and thereby toxicokinetics. Here, we assessed the toxicokinetic and toxicodynamic effects of habitat quality on mite, Oppia nitens when exposed to zinc (Zn) contaminated soils. Forty-seven soils were ranked into three habitat qualities; high, medium, and low based on biological reproduction of Folsomia candida, Enchytraeus crypticus, and Elymus lanceolatus. From the 47 soils, eighteen soils (comprising of six soils from each habitat quality) were randomly selected and dosed with field relevant concentrations of Zn. Mite survival and reproduction were assessed after 28 days. Total Zn, bioaccessible Zn, Zn bioavailability, Zn body burden, lactate dehydrogenase activity (LDH) and glucose-6-phosphate dehydrogenase (G6PDH) activities of the mites were determined. Zinc toxicity and potency were much less in the high compared to low quality soils and the mites in the high habitat quality soils tolerated higher zinc body burdens (2040 ± 130 μg/g b.w) than the lower habitat quality (1180 ± 310 μg/g b.w). Lower LDH activity (20 ± 2 μU mg^-1) in the high quality soils compared to lower quality soils (50 ± 8 μU mg^-1) suggested that there was less stress in the high habitat quality mites. Despite changes in speciation across habitat qualities, bioavailability of zinc was similar (∼20%) irrespective of habitat quality. Our results suggest that the influence of soil properties on survival is modulated by toxicodynamics rather than toxicokinetics. Restoring habitat quality may be more important for soil invertebrate protection than metal concentration at contaminated sites.

Assessing Space, Time, and Remediation Contribution to Soil Pollutant Variation near the Detection Limit Using Hurdle Models to Account for a Large Proportion of Nondetectable Results

Many emerging, and some legacy, pollutants pose risks to humans and ecosystems near the detection limits (DL) of existing analytical systems. As a result, site assessments and management options are often presented with data sets that are sparse, highly skewed, and left-censored. Existing analysis methods are unable to differentiate effects of treatment from covariates, such as space, obscuring influences of site management. As a case study, we computed the mean and variance of censored soil benzene data across four sites over a three year period by gamma distribution with a maximum likelihood. Further, a combined hurdle model to accommodate left-censored concentrations was applied to analyze factors affecting benzene variation. This approach allowed us to assess the success and spatial dependency of a biostimulatory solution in reducing benzene concentrations at very low concentrations. Benzene concentrations decreased due to the addition of biostimulatory solution and spatial effects, but the detection of soil benzene after biostimulation was highly spatially dependent. By combining computed values for censored observations estimated by the hurdle-gamma model and uncensored observations, we can get the pseudocomplete data sets. The combined model is ideally suited to evaluate existing and emerging pollutants, that pose risks to humans and ecosystems but are typically at or near analytical detection limits.

Advancing soil ecological risk assessments for petroleum hydrocarbon contaminated soils in Canada: Persistence, organic carbon normalization and relevance of species assemblages

Sediment toxicity studies and ecological risk assessments on organic contaminants routinely apply organic carbon normalization to toxicity data; however, no studies examine its potential for use in soils with petroleum hydrocarbon (PHC) contamination. Limited studies in soil ecotoxicology assess the influence of species assemblages used in species sensitivity distribution construction on the resulting guideline designated to of soil dwelling organisms. Canadian regulations utilize more conservative approaches to deriving guidelines with soil ecotoxicology data compared to the rest of the world, so we investigated the impact of these on soil invertebrates in a variety of field soils. In addition to toxicity, the persistence of a medium PHC mixture was also assessed in the field soils to determine the duration of toxic effects. We found organic matter influenced PHC toxicity to soil invertebrates, but persistence was influenced more by soil cation exchange capacity. Incorporating organic carbon normalization into species sensitivity distribution curves provided a higher level of protection to soil dwelling receptors in low organic matter soils as well as reduce the variability of PHC soil toxicity data. Soil remediation guidelines derived for protection of soil dwelling organisms using a diverse species assemblage provided similar levels of protection as guidelines developed with test species specific for remote, forested land uses in Canada. We conclude that: (i) Canadian hazard concentration values for PHC contamination of soils should be revisited as they may not be protective and (ii) that soil PHC guidelines for protection of soil dwelling organisms should be expressed as carbon normalized values.

The Charosphere Promotes Mineralization of 13C-Phenanthrene by Psychrotrophic Microorganisms in Greenland Soils

When soil is frozen, biochar promotes petroleum hydrocarbon (PHC) degradation, yet we still do not understand why. To investigate microbial biodegradation activity under frozen conditions, we placed 60-μm mesh bags containing 6% (v/v) biochar created from fishmeal, bonemeal, bone chip, or wood into PHC-contaminated soil, which was then frozen to -5°C. This created three soil niches: biochar particles, the charosphere (biochar-contiguous soil), and bulk soil outside of the bags. After 90 d, C-phenanthrene mineralization reached 55% in bonemeal biochar and 84% in bone chip biochar charosphere soil, compared with only 43% in bulk soil and 13% in bone chip biochar particles. Soil pH remained near neutral in bone chip and bonemeal biochar treatments, unlike wood biochar, which increased alkalinity and likely made phosphate unavailable for microorganisms. Generally, charosphere soil had higher aromatic degradative gene abundances than bulk soil, but gene abundance was not directly linked to C-phenanthrene mineralization. In bone chip biochar-amended soils, phosphate successfully predicted microbial community composition, and abundances of and increased in charosphere soil. Biochar effects on charosphere soil were dependent on feedstock material and suggest that optimizing the charosphere in bone-derived biochars may increase remediation success in northern regions.

Protecting vulnerable individuals in a population: is the avoidance response of juvenile soil invertebrates more sensitive than the adults response?

Juveniles are generally considered more sensitive to contaminants than adults. However, it is unknown if the behavioral responses of juvenile soil invertebrates is different than the adults. The absence of juvenile or adult soil invertebrates in contaminated soils due to avoidance adversely impacts the soil quality. Here, we assessed the avoidance response in two life stages (juvenile and adult) of three standardized soil toxicity test invertebrates (Folsomia candida, Enchytraeus crypticus and Eisenia fetida) exposed to phenanthrene, copper and sodium chloride contaminated soil. Interestingly, we found the juvenile's avoidance response could be more sensitive, less sensitive and the same as the adult's avoidance response, depending on the contaminant and test species. The juvenile avoidance response of E. fetida to sodium chloride, and E. crypticus and E. fetida to copper was more sensitive than the adult's response. In contrast, the avoidance response of juvenile F. candida to sodium chloride was less sensitive than the adult's response. No life stage differences were observed in the avoidance response of E. crypticus individuals exposed to sodium chloride, F. candida individuals exposed to copper and E. fetida individuals exposed to phenanthrene. Although life stage differences in avoidance responses were evident for some species and contaminants, it was not consistent. In terms of avoidance, the assumptions that juveniles are the most sensitive individuals in a population is not always true.

Multigenerational exposure of populations of Oppia nitens to zinc under pulse and continuous exposure scenarios

Current soil remediation guidelines for metals reflect single-generation laboratory studies, but in the field, organisms are exposed to metals for more than one generation. The present study assessed the multigenerational effect of zinc (Zn) on Oppia nitens under a pulse or continuous exposure scenario. Synchronized adult mites (parents) were exposed to 6 concentrations of Zn in a field soil. For the pulse exposure, juveniles of parent mites from 3 of the 6 concentrations (105, 158, 237, 335, 553, and 800 mg/kg) were kept in clean media and reared until the third generation. At every generation, the sensitivity of the mites to Zn was tested in a dose-response manner. For the continuous exposure, the mites produced from the parents were re-exposed to the same concentration as their parents. According to critical-level estimates like the median effect concentration, all populations of the F2 and F3 generation mites in the pulse exposure were less sensitive to Zn than the parents and were protected at 250 mg/kg of Zn (Canadian Council of Ministers of the Environment [2018] soil quality guideline). However, the mite generations of the continuous exposure remained as sensitive as the parent generation and were not protected by the Zn guideline level. The Zn niche width narrowed considerably for all continuously exposed mite populations, indicating that they were more sensitive than the parent. Our results show that Zn has a deleterious multigenerational effect on continuously exposed populations of mites. Environ Toxicol Chem 2019;38:896-904. © 2019 SETAC.

Effects of chemical speciation on the bioaccessibility of zinc in spiked and smelter-affected soils

Previous studies have suggested that understanding soil metal speciation, rather than relying solely on total metal content, can improve the accuracy and utility of contaminated site risk assessments. Because soil properties and reaction time can alter metal speciation, speciation should influence metal bioaccessibility. For example, under gastrointestinal conditions, it is expected that metal species will differ in bioaccessibility depending on their stability in acidic pH environments. We studied the links between metal speciation and bioaccessibility. A combination of synchrotron-based X-ray diffraction and X-ray absorption near edge structure (XANES) was used to identify the zinc (Zn) speciation in spiked and smelter-affected soils. After conducting in vitro digestion tests on the soil samples, XANES and linear combination fitting were carried out on the residual pellets to identify the species of Zn that remained after digesting the soils in the simulated gastric and duodenal fluids. The metal species that were not present in the residual pellets were inferred to have been dissolved and, thus, more bioaccessible. Sphalerite (ZnS), ZnO, and outer-sphere Zn contributed more to Zn bioaccessibility than franklinite (ZnFe₂ O₄ ) and Zn incorporated into a hydroxy interlayer mineral (Zn-HIM). The bioaccessibility of Zn-aluminum layered double hydroxides (Zn-Al-LDH) was found to be inversely proportional to its residence time in soil. It was also observed that the relatively high pH of the duodenum favors metal reprecipitation and readsorption, leading to a reduction in bioaccessible metal concentration. These results imply that metal speciation mainly controls metal bioaccessibility. Environ Toxicol Chem 2019;38:448-459. © 2018 SETAC.

Soil invertebrate avoidance behavior identifies petroleum hydrocarbon contaminated soils toxic to sensitive plant species

In recent years, laboratory soil toxicity testing has advanced with the introduction of ecologically relevant boreal forest soil invertebrate and plant species, as well as increased adoption of avoidance toxicity tests. In this study, we investigated the toxicity of a binary petroleum hydrocarbon (PHC) mixture to six agronomic and boreal forest plant species (Elymus lanceolatus, Lactuca sativa, Medicago sativa, Raphanus sativus, Pinus banksiana and Picea glauca) and the avoidance response of five soil invertebrate species (Eisenia fetida, Enchytraeus crypticus, Folsomia candida, Oppia nitens and Hypoaspis aculeifer). We assessed concentration addition and independent action mixture toxicity reference models, with potential interactions, using observed responses from the mixture and individual component toxicity endpoints from literature. Our key finding was soil invertebrate avoidance of PHC-contaminated soil was in the similar range of growth measurements for plant species sensitive to PHC-contaminated soils. This study further supports the inclusion of avoidance tests in toxicity test batteries for assessing PHC toxicity as invertebrate avoidance response appears to be linked to plant growth and informative of plant habitat quality.

Linking Herbicide Dissipation to Soil Ecological Risk along Transmission Rights-of-Way in the Yukon Territory, Canada

In the Yukon Territory, transmission rights-of-way (ROWs) are managed using brushing and mowing techniques alone. When cut, target species such as Michx. and spp. grow rapidly shortening maintenance cycles. Long-term vegetation control may be improved by integrating herbicide application. However, prior to implementation, the dissipation and toxicity of herbicides in northern latitudes needed to be assessed. The dissipation of Garlon XRT (triclopyr) and Arsenal Powerline (imazapyr) in soils was assessed at five ROW locations representative of the main ecoregion types where ROWs occur within the Yukon Territory. Soils from four sites were collected at 1, 30, and 365 d after treatment to determine persistence of herbicides for each of three application methods (backpack spraying, cut stump, and point injection). Increased sampling intervals were added to better determine the dissipation rate of each herbicide in Yukon Territory soils. Soil dissipation data were linked to a series of standardized toxicity tests, including three soil invertebrates (, , and ). Additionally, the dissipation of both herbicides from the target species L. was assessed at one site. Herbicide residues persisted in soils for longer than 365 d after treatment and longer than 30 d after treatment in . However, concentrations were below the concentration that would affect 25% of the invertebrate species tested. Weight of evidence and toxic exposure ratios were used to characterize the risks associated with herbicide application in northern latitudes and provided both qualitative and quantitative means to communicate the results to the public.

Petroleum hydrocarbon mixture toxicity and a trait-based approach to soil invertebrate species for site-specific risk assessments

Although petroleum hydrocarbons released to the environment typically occur as mixtures, petroleum hydrocarbon remediation guidelines often reflect individual substance toxicity. It is well documented that groups of aliphatic petroleum hydrocarbons act via the same mechanism of action (nonpolar narcosis) and, theoretically, concentration addition mixture toxicity principles apply. To assess this theory, 10 standardized acute and chronic soil invertebrate toxicity tests on a range of organisms (Eisenia fetida, Lumbricus terrestris, Enchytraeus crypticus, Folsomia candida, Oppia nitens, and Hypoaspis aculeifer) were conducted with a refined petroleum hydrocarbon binary mixture. Reference models for concentration addition and independent action were applied to the mixture toxicity data with consideration of synergism, antagonism, and dose level toxicity. Both concentration addition and independent action, without further interactions, provided the best fit with observed response to the mixture. Individual fraction effective concentration values were predicted from optimized, fitted reference models. Concentration addition provided a better estimate than independent action of individual fraction effective concentrations based on comparison with available literature and species trends observed in toxic responses to the mixture. Interspecies differences in standardized laboratory soil invertebrate species responses to petroleum hydrocarbon-contaminated soil was reflected in unique traits. Diets that included soil, large body size, permeable cuticle, low lipid content, lack of ability to molt, and no maternal transfer were traits linked to a sensitive survival response to petroleum hydrocarbon-contaminated soil in laboratory tests. Traits linked to sensitive reproduction response in organisms tested were long life span and small clutch size. By deriving single-fraction toxicity endpoints considerate of mixtures, we can reduce the resources and time required to conduct site-specific risk assessments for the protection of a soil organism's exposure pathway. Environ Toxicol Chem 2018;37:2222-2234. © 2018 SETAC.

In vitro prediction of polycyclic aromatic hydrocarbon bioavailability of 14 different incidentally ingested soils in juvenile swine

Predicting mammalian bioavailability of PAH mixtures from in vitro bioaccessibility results has proven to be an elusive goal. In an attempt to improve in vitro predictions of PAH soil bioavailability we investigated how energetic input influences PAH bioaccessibility by using a high and low energetic shaking method. Co-inertia analysis (COIA), and Structural Equation Modeling (SEM) were also used to examine PAH-PAH interactions during ingestion. PAH bioaccessibility was determined from 14 historically contaminated soils using the fed organic estimation of the human simulation test (FOREhST) with inclusion of a silicone rod as a sorption sink and compared to bioavailability estimates from the juvenile swine model. Shaking method significantly affected PAH bioaccessibility in the FOREhST model, with PAH desorption from the high energy FOREhST almost an order of magnitude greater compared to the low energy FOREhST. PAH-PAH interactions significantly influenced PAH bioavailability and when these interactions were used in a linear model, the model predicted benzo(a)anthracene bioavailability with an slope of 1 and r² of 0.66 and for benzo(a)pyrene bioavailability has a slope of 1 and r² of 0.65. Lastly, to confirm the effects as determined by COIA and SEM, we spiked low levels of benzo(a)anthracene into historically contaminated soils, and observed a significant increase in benzo(a)pyrene bioaccessibility. By accounting for PAH interactions, and reducing the energetics of in vitro extractions, we were able to use bioaccessibility to predict bioavailability across 14 historically contaminated soils. Our work suggests that future work on PAH bioavailability and bioaccessibility should focus on the dynamics of how the matrix of PAHs present in the soil interact with mammalian systems. Such interactions should not only include the chemical interactions discussed here but also the interactions of PAH mixtures with mammalian uptake systems.

Who Is the Rock Miner and Who Is the Hunter? The Use of Heavy-Oxygen Labeled Phosphate (P18O4) to Differentiate between C and P Fluxes in a Benzene-Degrading Consortium

Phosphorus availability and cycling in microbial communities is a key determinant of bacterial activity. However, identifying organisms critical to P cycling in complex biodegrading consortia has proven elusive. Here we assess a new DNA stable isotope probing (SIP) technique using heavy oxygen-labeled phosphate (P¹⁸O₄) and its effectiveness in pure cultures and a nitrate-reducing benzene-degrading consortium. First, we successfully labeled pure cultures of Gram-positive Micrococcus luteus and Gram-negative Bradyrhizobium elkanii and separated isotopically light and heavy DNA in pure cultures using centrifugal analyses. Second, using high-throughput amplicon sequencing of 16S rRNA genes to characterize active bacterial taxa (¹³C-labeled), we found taxa like Betaproteobacteria were key in denitrifying benzene degradation and that other degrading (nonhydrocarbon) inactive taxa (P¹⁸O₄-labeled) like Staphylococcus and Corynebacterium may promote degradation through production of secondary metabolites (i.e., "helper" or "rock miner" bacteria). Overall, we successfully separated active and inactive taxa in contaminated soils, demonstrating the utility of P¹⁸O₄-DNA SIP for identifying actively growing bacterial taxa. We also identified potential "miner" bacteria that choreograph hydrocarbon degradation by other microbes (i.e., the "hunters") without directly degrading contaminants themselves. Thus, while several taxa degrade benzene under denitrifying conditions, microbial benzene degradation may be enhanced by both direct degraders and miner bacteria.

Chemical speciation and fate of tripolyphosphate after application to a calcareous soil

Adsorption and precipitation reactions often dictate the availability of phosphorus in soil environments. Tripolyphosphate (TPP) is considered a form of slow release P fertilizer in P limited soils, however, investigations of the chemical fate of TPP in soils are limited. It has been proposed that TPP rapidly hydrolyzes in the soil solution before adsorbing or precipitating with soil surfaces, but in model systems, TPP also adsorbs rapidly onto mineral surfaces. To study the adsorption behavior of TPP in calcareous soils, a short-term (48 h) TPP spike was performed under laboratory conditions. To determine the fate of TPP under field conditions, two different liquid TPP amendments were applied to a P limited subsurface field site via an in-ground injection system. Phosphorus speciation was assessed using X-ray absorption spectroscopy, total and labile extractable P, and X-ray diffraction. Adsorption of TPP to soil mineral surfaces was rapid (< 48 h) and persisted without fully hydrolyzing to ortho-P. Linear combination fitting of XAS data indicated that the distribution of adsorbed P was highest (~ 30-40%) throughout the site after the first TPP amendment application (high water volume and low TPP concentrations). In contrast, lower water volumes with more concentrated TPP resulted in lower relative fractions of adsorbed P (15-25%), but a significant increase in total P concentrations (~ 3000 mg P kg soil) and adsorbed P (60%) directly adjacent to the injection system. This demonstrates that TPP application increases the adsorbed P fraction of calcareous soils through rapid adsorption reactions with soil mineral surfaces.

Citrate Addition Increased Phosphorus Bioavailability and Enhanced Gasoline Bioremediation

Phosphorus (P) bioavailability often limits gasoline biodegradation in calcareous cold-region soils. One possible method to increase P bioavailability in such soils is the addition of citrate. Citrate addition at the field scale may increase hydrocarbon degradation by: (i) enhancing inorganic and organic P dissolution and desorption, (ii) increasing hydrocarbon bioavailability, and/or (iii) stimulating microbial activity. Alternatively, citrate addition may inhibit activity due to competitive effects on carbon metabolism. Using a field-scale in situ biostimulation study, we evaluated if citrate could stimulate gasoline degradation and what the dominant mechanism of this stimulation will be. Two large bore injectors were constructed at a site contaminated with gasoline, and a biostimulation solution of 11 mM MgSO, 1 mM HPO, and 0.08 mM HNO at pH 6.5 in municipal potable water was injected at ∼5000 L d for about 4 mo. Following this, 10 mM citric acid was incorporated into the existing biostimulation solution and the site continued to be stimulated for 8 mo. After citrate addition, the bioavailable P fraction in groundwater and soil increased. Iron(II) groundwater concentrations increased and corresponded to decreases in benzene, toluene, ethylbenzene, xylenes (BTEX) in groundwater, as well as a decrease in F1 in the soil saturated zone. Overall, citrate addition increased P bioavailability and may stimulate anaerobic microbial activity, resulting in accelerated anaerobic gasoline bioremediation in cold-region calcareous soils.

Assessing human metal accumulations in an urban superfund site

Butte, Montana is part of the largest superfund site in the continental United States. Open-pit mining continues in close proximity to Butte's urban population. This study seeks to establish baseline metal concentrations in the hair and blood of individuals living in Butte, MT and possible routes of exposure. Volunteers from Butte (n=116) and Bozeman (n=86) were recruited to submit hair and blood samples and asked to complete a lifestyle survey. Elemental analysis of hair and blood samples was performed by ICP-MS. Three air monitors were stationed in Butte to collect particulate and filters were analyzed by ICP-MS. Soil samples from the yards of Butte volunteers were quantified by ICP-MS. Hair analysis revealed concentrations of Al, As, Cd, Cu, Mn, Mo, and U to be statistically elevated in Butte's population. Blood analysis revealed that the concentration of As was also statistically elevated in the Butte population. Multiple regression analysis was performed for the elements As, Cu, and Mn for hair and blood samples. Soil samples revealed detectable levels of As, Pb, Cu, Mn, and Cd, with As and Cu levels being higher than expected in some of the samples. Air sampling revealed consistently elevated As and Mn levels in the larger particulate sampled as compared to average U.S. ambient air data.

Application Method and Biochar Type Affect Petroleum Hydrocarbon Degradation in Northern Landfarms

To integrate biochar as a practical and successful remedial amendment at northern landfarms, components of its formulation and application must be optimized for site-specific environmental conditions. Different biochar amendments were applied to petroleum hydrocarbon (PHC)-contaminated soil at two northern field sites (Iqaluit and Whitehorse) and in a laboratory study at -5°C to determine the effects of application method (injection or incorporation) and biochar type (wood, fishmeal, bonemeal, and/or compost) on PHC degradation and associated soil properties. Incorporation decreased F2 (equivalent C-C) and F3 (equivalent C-C) PHC concentrations in soil after 31 d, whereas injection did not decrease PHC concentrations until Day 334. Bonemeal-derived biochar selectively stimulated F3-PHC degradation in frozen soil over 90 d under controlled laboratory conditions. In the field, there was little difference in PHC degradation between biochar types and the fertilizer control. Incorporation also increased NO availability, and in field trials, all biochars increased NO availability relative to the fertilizer control, whereas the effects of biochars on NH and PO were variable. Aromatic functional gene abundance was enhanced when treatments were incorporated, compared with when injected. In field trials, 6% Zakus wood plus fertilizer inhibited aliphatic and aromatic gene abundance. Liquid water content increased in incorporated treatments, specifically those amended with fishmeal biochar. Incorporation was the most successful application method for these northern soils, and although biochar amendments are not clearly effective in reducing PHC concentrations, there is evidence to suggest it can beneficially influence soil properties and PHC degradation under specific environmental conditions.

Archaea and bacteria mediate the effects of native species root loss on fungi during plant invasion

Although invasive plants can drive ecosystem change, little is known about the directional nature of belowground interactions between invasive plants, native roots, bacteria, archaea and fungi. We used detailed bioinformatics and a recently developed root assay on soils collected in fescue grassland along a gradient of smooth brome (Bromus inermis Leyss) invasion to examine the links between smooth brome shoot litter and root, archaea, bacteria and fungal communities. We examined (1) aboveground versus belowground influences of smooth brome on soil microbial communities, (2) the importance of direct versus microbe-mediated impacts of plants on soil fungal communities, and (3) the web of roots, shoots, archaea, bacteria and fungi interactions across the A and B soil horizons in invaded and non-invaded sites. Archaea and bacteria influenced fungal composition, but not vice versa, as indicated by redundancy analyses. Co-inertia analyses suggested that bacterial-fungal variance was driven primarily by 12 bacterial operational taxonomic units (OTUs). Brome increased bacterial diversity via smooth brome litter in the A horizon and roots in the B horizon, which then reduced fungal diversity. Archaea increased abundance of several bacterial OTUs, and the key bacterial OTUs mediated changes in the fungi's response to invasion. Overall, native root diversity loss and bacterial mediation were more important drivers of fungal composition than were the direct effects of increases in smooth brome. Critically, native plant species displacement and root loss appeared to be the most important driver of fungal composition during invasion. This causal web likely gives rise to the plant-fungi feedbacks, which are an essential factor determining plant diversity in invaded grassland ecosystems.

Petroleum hydrocarbon remediation in frozen soil using a meat and bonemeal biochar plus fertilizer

Petroleum hydrocarbon (PHC) degradation slows significantly during the winter which substantially increases the time it takes to remediate soil in Arctic landfarms. The aim of this laboratory trial was to assess the potential of a meat and bonemeal (MBM) biochar to stimulate PHC degradation in contaminated soil collected from Iqaluit, Canada. Over 90 days, 3% (w/w) MBM biochar significantly increased F3- (equivalent nC₁₆-C₃₄) PHC degradation rate constants (k) in frozen soils when compared to the fertilizer (urea and monoammonium phosphate) control. Taking into consideration extensive variability within treatments and negative k values, this difference may not reflect significant remediation. Decreasing C₁₇/Pr and C₁₈/Ph ratios in the frozen soil suggest that this reduction is a result of microbial degradation rather than volatilization. Amendment type and application rate affected the immediate abiotic losses of F2 and F3-PHC in sterile soils, with the greatest losses occurring in compost-amended treatments in the first 24 h. In frozen soils, MBM biochar was found to increase liquid water content (θ_liquid) but not nutrient supply rates. Under frozen but not thawed conditions, genes for aromatic (C2,3O and nahAc) but not aliphatic (alkB) PHC degradation increased over time in both biochar-amended and control treatments but total viable PHC-degrading populations only increased in biochar-amended soils. Based on these results, it is possible that PHC degradation in biochar-amended soils is active and even enhanced under frozen conditions, but further investigation is required.

Is received dose from ingested soil independent of soil PAH concentrations?-Animal model results

Polycyclic aromatic hydrocarbon (PAH) bioavailability from ingested soils will vary between soils; however, the nature of this variation is not well characterized. A juvenile swine model was used to link external exposure to internal benzo[a]pyrene (BaP) and anthracene exposure following oral PAH ingestion of 27 different impacted site soils, soots, or spiked artificial soils. Internal exposure of BaP and anthracene, represented by area under the plasma-time curve, did not relate to soil concentration in impacted site soils, but did relate in spiked artificial soil. Point of departure modeling identified soil PAH concentrations greater than 1900 mg kg(-1) as the point where area under the curve becomes proportional to external dose. A BaP internal exposure below 1900 mg kg(-1) had an upper 95% confidence interval estimate of 33% of external exposure. Weak relationships between soil:simulated gastrointestinal fluid PAH partitioning and area under the curve values suggest that differences in internal PAH exposure between soils may not be dominated by differences in PAH partitioning. The data seem to best support exposure assessment assuming constant internal PAH exposure below soil concentrations of 1900 mg kg(-1) . However, because constant internal exposure would challenge several existing paradigms, a bioavailability estimate of 33% of the external exposure is suggested as a likely workable solution. Environ Toxicol Chem 2016;35:2261-2269. © 2016 SETAC.

Total Phosphate Influences the Rate of Hydrocarbon Degradation but Phosphate Mineralogy Shapes Microbial Community Composition in Cold-Region Calcareous Soils

Managing phosphorus bioaccessibility is critical for the bioremediation of hydrocarbons in calcareous soils. This paper explores how soil mineralogy interacts with a novel biostimulatory solution to both control phosphorus bioavailability and influence bioremediation. Two large bore infiltrators (1 m diameter) were installed at a PHC contaminated site and continuously supplied with a solution containing nutrients and an electron acceptor. Soils from eight contaminated sites were prepared and pretreated, analyzed pretrial, spiked with diesel, placed into nylon bags into the infiltrators, and removed after 3 months. From XAS, we learned that three principal phosphate phases had formed: adsorbed phosphate, brushite, and newberyite. All measures of biodegradation in the samples (in situ degradation estimates, mineralization assays, culturable bacteria, catabolic genes) varied depending upon the soil's phosphate speciation. Notably, adsorbed phosphate increased anaerobic phenanthrene degradation and bzdN catabolic gene prevalence. The dominant mineralogical constraints on community composition were the relative amounts of adsorbed phosphate, brushite, and newberyite. Overall, this study finds that total phosphate influences microbial community phenotypes whereas relative percentages of phosphate minerals influences microbial community genotype composition.

Predicting Polycyclic Aromatic Hydrocarbon Bioavailability to Mammals from Incidentally Ingested Soils Using Partitioning and Fugacity

Soil and dust ingestion is one of the major human exposure pathways to contaminated soil; however, pollutant transfer from ingested substances to humans cannot currently be confidently predicted. Soil polycyclic aromatic hydrocarbon (PAH) bioavailability is likely dependent upon properties linked to chemical potential and partitioning such as fugacity, fugacity capacity, soil organic carbon, and partitioning to simulated intestinal fluids. We estimated the oral PAH bioavailability of 19 historically contaminated soils fed to juvenile swine. Between soils, PAH blood content, with the exception of benzo(a)pyrene, was not linked to fugacity. In contrast, between individual PAHs, using partitioning explained PAH blood content (area under the curve = 0.47 log fugacity + 0.34, r(2) = 0.68, p < 0.005, n = 14). Soil fugacity capacity predicts PAH soil concentration with an average slope of 0.30 (μg PAH g(-1) soil) Pa(-1) and r(2)'s of 0.61-0.73. Because PAH blood content was independent of soil concentration, soil fugacity correlated to PAH bioavailability via soil fugacity's link to soil concentration. In conclusion, we can use fugacity to explain PAH uptake from a soil into blood. However, something other than partitioning is critical to explain the differences in PAH uptake into blood between soils.

Archaeal ammonia oxidizers respond to soil factors at smaller spatial scales than the overall archaeal community does in a high Arctic polar oasis

Archaea are ubiquitous and highly abundant in Arctic soils. Because of their oligotrophic nature, archaea play an important role in biogeochemical processes in nutrient-limited Arctic soils. With the existing knowledge of high archaeal abundance and functional potential in Arctic soils, this study employed terminal restriction fragment length polymorphism (t-RFLP) profiling and geostatistical analysis to explore spatial dependency and edaphic determinants of the overall archaeal (ARC) and ammonia-oxidizing archaeal (AOA) communities in a high Arctic polar oasis soil. ARC communities were spatially dependent at the 2-5 m scale (P < 0.05), whereas AOA communities were dependent at the ∼1 m scale (P < 0.0001). Soil moisture, pH, and total carbon content were key edaphic factors driving both the ARC and AOA community structure. However, AOA evenness had simultaneous correlations with dissolved organic nitrogen and mineral nitrogen, indicating a possible niche differentiation for AOA in which dry mineral and wet organic soil microsites support different AOA genotypes. Richness, evenness, and diversity indices of both ARC and AOA communities showed high spatial dependency along the landscape and resembled scaling of edaphic factors. The spatial link between archaeal community structure and soil resources found in this study has implications for predictive understanding of archaea-driven processes in polar oases.