The Atlantic salmon genome provides insights into rediploidization.

The whole-genome duplication 80 million years ago of the common ancestor of salmonids (salmonid-specific fourth vertebrate whole-genome duplication, Ss4R) provides unique opportunities to learn about the evolutionary fate of a duplicated vertebrate genome in 70 extant lineages. Here we present a high-quality genome assembly for Atlantic salmon (Salmo salar), and show that large genomic reorganizations, coinciding with bursts of transposon-mediated repeat expansions, were crucial for the post-Ss4R rediploidization process. Comparisons of duplicate gene expression patterns across a wide range of tissues with orthologous genes from a pre-Ss4R outgroup unexpectedly demonstrate far more instances of neofunctionalization than subfunctionalization. Surprisingly, we find that genes that were retained as duplicates after the teleost-specific whole-genome duplication 320 million years ago were not more likely to be retained after the Ss4R, and that the duplicate retention was not influenced to a great extent by the nature of the predicted protein interactions of the gene products. Finally, we demonstrate that the Atlantic salmon assembly can serve as a reference sequence for the study of other salmonids for a range of purposes.

Long-term performance of three mesophilic anaerobic digesters to convert animal and agro-industrial wastes into organic fertilizer.

Few studies have investigated the performance of anaerobic digestion (AD) to convert animal and agro-industrial wastes to organic fertilizers over a long-term field conditions. This paper studied three large-scale mesophilic digesters (D1eD3) over two years for their effects on feedstocks, which were dairy manure for D1 and D2 and co-digestion mixed manure and agro-industrial wastes for D3. Hydraulic retention times (HRT) were 9 d for D1, 12 d for D2, and 34 d for D3. Digester influent and effluent samples were taken every two months from the digesters and analyzed for pH, and concentrations of total solids (TS), ammonium nitrogen (NH4-N), total Kjeldahl nitrogen (TKN), total phosphorus (TP), and eight metals. The study revealed high variability in converting feedstock in the three digesters. Compared with their respective influent, the mean digester effluent pH decreased from 7.9 by 0.6 in D1 (p < 0.01) and by 0.3 in D2 (p < 0.01), but it increased from 6.1 by 1.8 in D3 (p < 0.01). The mean digester effluent TS increased from 3.4% by 0.1% (p > 0.05) in D1, but it decreased from 4.9% by 1.3% in D2 (p < 0.05) and from 12.3% by 4.8% in D3 (p < 0.01). All three digesters significantly increased NH4-N concentrations by 21.4 e81.8% (p < 0.05), but insignificantly changed TKN and TP concentrations (p > 0.05). Effects of AD on all metal concentrations were mixed and were insignificant (p > 0.05) because of large concentration variations. However, study of a ratio quotient (q Mg ) using magnesium (Mg) as the reference discovered accumulation of NH4-N, copper, potassium, and sodium, but loss of TKN, TP, iron, manganese, zinc, and calcium during AD for D2 and D3. The impact of AD conversion was closely related with types of feedstock (on pH) and HRT (on TS and NH4-N). The results of this study can assist in developing strategies for cleaner production using AD in an environmentally sustainable manner.

Targeted gene sequencing in 6994 individuals with neurodevelopmental disorder with epilepsy.

PURPOSE: We aimed to gain insight into frequencies of genetic variants in genes implicated in neurodevelopmental disorder with epilepsy (NDD+E) by investigating large cohorts of patients in a diagnostic setting. METHODS: We analyzed variants in NDD+E using epilepsy gene panel sequencing performed between 2013 and 2017 by two large diagnostic companies. We compared variant frequencies in 6994 panels with another 8588 recently published panels as well as exome-wide de novo variants in 1942 individuals with NDD+E and 10,937 controls. RESULTS: Genes with highest frequencies of ultrarare variants in NDD+E comprised SCN1A, KCNQ2, SCN2A, CDKL5, SCN8A, and STXBP1, concordant with the two other epilepsy cohorts we investigated. In only 46% of the analyzed 262 dominant and X-linked panel genes ultrarare variants in patients were reported. Among genes with contradictory evidence of association with epilepsy, CACNB4, CLCN2, EFHC1, GABRD, MAGI2, and SRPX2 showed equal frequencies in cases and controls. CONCLUSION: We show that improvement of panel design increased diagnostic yield over time, but panels still display genes with low or no diagnostic yield. With our data, we hope to improve current diagnostic NDD+E panel design and provide a resource of ultrarare variants in individuals with NDD+E to the community.

Phosphorus Availability in Western Lake Erie Basin Drainage Waters: Legacy Evidence across Spatial Scales.

The Western Lake Erie Basin (WLEB) was inundated with precipitation during June and July 2015 (two to three times greater than historical averages), which led to significant nutrient loading and the largest in-lake algal bloom on record. Using discharge and concentration data from three spatial scales (0.18-16,000 km), we contrast the patterns in nitrate (NO-N) and dissolved reactive phosphorus (DRP) concentration dynamics and discuss potential management implications. Across all scales, NO-N concentration steadily declined with each subsequent rainfall event as it was flushed from the system. In contrast, DRP concentration persisted, even on soils at or below agronomic P levels, suggesting that legacy P significantly contributes to nutrient loads in the WLEB. These findings highlight the need to revisit current P fertility recommendations and soil testing procedures to increase P fertilizer use efficiency and to more holistically account for legacy P.

Increased Soluble Phosphorus Loads to Lake Erie: Unintended Consequences of Conservation Practices?

Cumulative daily load time series show that the early 2000s marked a step-change increase in riverine soluble reactive phosphorus (SRP) loads entering the Western Lake Erie Basin from three major tributaries: the Maumee, Sandusky, and Raisin Rivers. These elevated SRP loads have been sustained over the last 12 yr. Empirical regression models were used to estimate the contributions from (i) increased runoff from changing weather and precipitation patterns and (ii) increased SRP delivery (the combined effects of increased source availability and/or increased transport efficiency of labile phosphorus [P] fractions). Approximately 65% of the SRP load increase after 2002 was attributable to increased SRP delivery, with higher runoff volumes accounting for the remaining 35%. Increased SRP delivery occurred concomitantly with declining watershed P budgets. However, within these watersheds, there have been long-term, largescale changes in land management: reduced tillage to minimize erosion and particulate P loss, and increased tile drainage to improve field operations and profitability. These practices can inadvertently increase labile P fractions at the soil surface and transmission of soluble P via subsurface drainage. Our findings suggest that changes in agricultural practices, including some conservation practices designed to reduce erosion and particulate P transport, may have had unintended, cumulative, and converging impacts contributing to the increased SRP loads, reaching a critical threshold around 2002.

Quantifying Attachment and Antibiotic Resistance of from Conventional and Organic Swine Manure.

Broad-spectrum antibiotics are often administered to swine, contributing to the occurrence of antibiotic-resistant bacteria in their manure. During land application, the bacteria in swine manure preferentially attach to particles in the soil, affecting their transport in overland flow. However, a quantitative understanding of these attachment mechanisms is lacking, and their relationship to antibiotic resistance is unknown. The objective of this study is to examine the relationships between antibiotic resistance and attachment to very fine silica sand in collected from swine manure. A total of 556 isolates were collected from six farms, two organic and four conventional (antibiotics fed prophylactically). Antibiotic resistance was quantified using 13 antibiotics at three minimum inhibitory concentrations: resistant, intermediate, and susceptible. Of the 556 isolates used in the antibiotic resistance assays, 491 were subjected to an attachment assay. Results show that isolates from conventional systems were significantly more resistant to amoxicillin, ampicillin, chlortetracycline, erythromycin, kanamycin, neomycin, streptomycin, tetracycline, and tylosin ( < 0.001). Results also indicate that isolated from conventional systems attached to very fine silica sand at significantly higher levels than those from organic systems ( < 0.001). Statistical analysis showed that a significant relationship did not exist between antibiotic resistance levels and attachment in from conventional systems but did for organic systems ( < 0.001). Better quantification of these relationships is critical to understanding the behavior of in the environment and preventing exposure of human populations to antibiotic-resistant bacteria.

Phosphorus fate, management, and modeling in artificially drained systems.

Phosphorus (P) losses in agricultural drainage waters, both surface and subsurface, are among the most difficult form of nonpoint source pollution to mitigate. This special collection of papers on P in drainage waters documents the range of field conditions leading to P loss in drainage water, the potential for drainage and nutrient management practices to control drainage losses of P, and the ability of models to represent P loss to drainage systems. A review of P in tile drainage and case studies from North America, Europe, and New Zealand highlight the potential for artificial drainage to exacerbate watershed loads of dissolved and particulate P via rapid, bypass flow and shorter flow path distances. Trade-offs are identified in association with drainage intensification, tillage, cover crops, and manure management. While P in drainage waters tends to be tied to surface sources of P (soil, amendments or vegetation) that are in highest concentration, legacy sources of P may occur at deeper depths or other points along drainage flow paths. Most startling, none of the major fate-and-transport models used to predict management impacts on watershed P losses simulate the dominant processes of P loss to drainage waters. Because P losses to drainage waters can be so difficult to manage and to model, major investment are needed (i) in systems that can provide necessary drainage for agronomic production while detaining peak flows and promoting P retention and (ii) in models that can adequately describe P loss to drainage waters.

Surface runoff and tile drainage transport of phosphorus in the midwestern United States.

The midwestern United States offers some of the most productive agricultural soils in the world. Given the cool humid climate, much of the region would not be able to support agriculture without subsurface (tile) drainage because high water tables may damage crops and prevent machinery usage in fields at critical times. Although drainage is designed to remove excess soil water as quickly as possible, it can also rapidly transport agrochemicals, including phosphorus (P). This paper illustrates the potential importance of tile drainage for P transport throughout the midwestern United States. Surface runoff and tile drainage from fields in the St. Joseph River Watershed in northeastern Indiana have been monitored since 2008. Although the traditional concept of tile drainage has been that it slowly removes soil matrix flow, peak tile discharge occurred at the same time as peak surface runoff, which demonstrates a strong surface connection through macropore flow. On our research fields, 49% of soluble P and 48% of total P losses occurred via tile discharge. Edge-of-field soluble P and total P areal loads often exceeded watershed-scale areal loadings from the Maumee River, the primary source of nutrients to the western basin of Lake Erie, where algal blooms have been a pervasive problem for the last 10 yr. As farmers, researchers, and policymakers search for treatments to reduce P loading to surface waters, the present work demonstrates that treating only surface runoff may not be sufficient to reach the goal of 41% reduction in P loading for the Lake Erie Basin.

Effect of replacing surface inlets with blind or gravel inlets on sediment and phosphorus subsurface drainage losses.

Open surface inlets that connect to subsurface tile drainage systems provide a direct pathway for movement of sediment, nutrients, and agrochemicals to surface waters. This study was conducted to determine the reduction in drainage effluent total suspended sediment (TSS) and phosphorus (P) concentrations and loads when open surface inlets were replaced with blind (in gravel capped with 30 cm of soil) or gravel (in very coarse sand/fine gravel) inlets. In Indiana, a pair of closed depressions in adjacent fields was fitted with open inlet tile risers and blind inlets in 2005 and monitored for flow and water chemistry. Paired comparisons on a storm event basis during the growing season for years 2006 to 2013 showed that TSS loads were 40.4 and 14.4 kg ha event for tile risers and blind inlets, respectively. Total P (TP) and soluble reactive P (SRP) loads were 66 and 50% less for the blind inlets, respectively. In Minnesota, TSS and SRP concentrations were monitored for 3 yr before and after modification of 24 open inlets to gravel inlets in an unreplicated large-field on-farm study. Median TSS concentrations were 97 and 8.3 mg L and median SRP concentrations were 0.099 and 0.064 mg L for the open inlet and gravel inlet periods, respectively. Median TSS and SRP concentrations were elevated for snowmelt vs. non-snowmelt seasons for open and gravel inlets. Both replacement designs reduced suspended sediment and P concentrations and loads. The Indiana study suggests blind inlets will be effective beyond a 10-yr service life.

Phosphorus transport in agricultural subsurface drainage: a review.

Phosphorus (P) loss from agricultural fields and watersheds has been an important water quality issue for decades because of the critical role P plays in eutrophication. Historically, most research has focused on P losses by surface runoff and erosion because subsurface P losses were often deemed to be negligible. Perceptions of subsurface P transport, however, have evolved, and considerable work has been conducted to better understand the magnitude and importance of subsurface P transport and to identify practices and treatments that decrease subsurface P loads to surface waters. The objectives of this paper were (i) to critically review research on P transport in subsurface drainage, (ii) to determine factors that control P losses, and (iii) to identify gaps in the current scientific understanding of the role of subsurface drainage in P transport. Factors that affect subsurface P transport are discussed within the framework of intensively drained agricultural settings. These factors include soil characteristics (e.g., preferential flow, P sorption capacity, and redox conditions), drainage design (e.g., tile spacing, tile depth, and the installation of surface inlets), prevailing conditions and management (e.g., soil-test P levels, tillage, cropping system, and the source, rate, placement, and timing of P application), and hydrologic and climatic variables (e.g., baseflow, event flow, and seasonal differences). Structural, treatment, and management approaches to mitigate subsurface P transport-such as practices that disconnect flow pathways between surface soils and tile drains, drainage water management, in-stream or end-of-tile treatments, and ditch design and management-are also discussed. The review concludes by identifying gaps in the current understanding of P transport in subsurface drains and suggesting areas where future research is needed.

Applicability of models to predict phosphorus losses in drained fields: a review.

Most phosphorus (P) modeling studies of water quality have focused on surface runoff loses. However, a growing number of experimental studies have shown that P losses can occur in drainage water from artificially drained fields. In this review, we assess the applicability of nine models to predict this type of P loss. A model of P movement in artificially drained systems will likely need to account for the partitioning of water and P into runoff, macropore flow, and matrix flow. Within the soil profile, sorption and desorption of dissolved P and filtering of particulate P will be important. Eight models are reviewed (ADAPT, APEX, DRAINMOD, HSPF, HYDRUS, ICECREAMDB, PLEASE, and SWAT) along with P Indexes. Few of the models are designed to address P loss in drainage waters. Although the SWAT model has been used extensively for modeling P loss in runoff and includes tile drain flow, P losses are not simulated in tile drain flow. ADAPT, HSPF, and most P Indexes do not simulate flow to tiles or drains. DRAINMOD simulates drains but does not simulate P. The ICECREAMDB model from Sweden is an exception in that it is designed specifically for P losses in drainage water. This model seems to be a promising, parsimonious approach in simulating critical processes, but it needs to be tested. Field experiments using a nested, paired research design are needed to improve P models for artificially drained fields. Regardless of the model used, it is imperative that uncertainty in model predictions be assessed.

Mapping and sequencing of structural variation from eight human genomes.

Genetic variation among individual humans occurs on many different scales, ranging from gross alterations in the human karyotype to single nucleotide changes. Here we explore variation on an intermediate scale--particularly insertions, deletions and inversions affecting from a few thousand to a few million base pairs. We employed a clone-based method to interrogate this intermediate structural variation in eight individuals of diverse geographic ancestry. Our analysis provides a comprehensive overview of the normal pattern of structural variation present in these genomes, refining the location of 1,695 structural variants. We find that 50% were seen in more than one individual and that nearly half lay outside regions of the genome previously described as structurally variant. We discover 525 new insertion sequences that are not present in the human reference genome and show that many of these are variable in copy number between individuals. Complete sequencing of 261 structural variants reveals considerable locus complexity and provides insights into the different mutational processes that have shaped the human genome. These data provide the first high-resolution sequence map of human structural variation--a standard for genotyping platforms and a prelude to future individual genome sequencing projects.

Heavy metals concentration in soils across the conterminous USA: Spatial prediction, model uncertainty, and influencing factors.

Assessment and proper management of sites contaminated with heavy metals require precise information on the spatial distribution of these metals. This study aimed to predict and map the distribution of Cd, Cu, Ni, Pb, and Zn across the conterminous USA using point observations, environmental variables, and Histogram-based Gradient Boosting (HGB) modeling. Over 9180 surficial soil observations from the Soil Geochemistry Spatial Database (SGSD) (n = 1150), the Geochemical and Mineralogical Survey of Soils (GMSS) (n = 4857), and the Holmgren Dataset (HD) (n = 3400), and 28 covariates (100 m × 100 m grid) representing climate, topography, vegetation, soils, and anthropic activity were compiled. Model performance was evaluated on 20 % of the data not used in calibration using the coefficient of determination (R2), concordance correlation coefficient (ρc), and root mean square error (RMSE) indices. Uncertainty of predictions was calculated as the difference between the estimated 95 and 5 % quantiles provided by HGB. The model explained up to 50 % of the variance in the data with RMSE ranging between 0.16 (mg kg-1) for Cu and 23.4 (mg kg-1) for Zn, respectively. Likewise, ρc ranged between 0.55 (Cu) and 0.68 (Zn), respectively, and Zn had the highest R2 (0.50) among all predictions. We observed high Pb concentrations near urban areas. Peak concentrations of all studied metals were found in the Lower Mississippi River Valley. Cu, Ni, and Zn concentrations were higher on the West Coast; Cd concentrations were higher in the central USA. Clay, pH, potential evapotranspiration, temperature, and precipitation were among the model's top five important covariates for spatial predictions of heavy metals. The combined use of point observations and environmental covariates coupled with machine learning provided a reliable prediction of heavy metals distribution in the soils of the conterminous USA. The updated maps could support environmental assessments, monitoring, and decision-making with this methodology applicable to other soil databases, worldwide.

The LTAR-integrated grazing land common experiment at the Texas Gulf.

Extreme weather and climate events have become more frequent and directly affect the ecological structure and function of integrated grazing lands. While the Great Plains have experienced a long history of regular disturbances from drought and floods, grazing, and fires, the increased frequency and magnitude of these disturbances can reduce ecological resilience, largely depending on management practices. Alternative strategies designed to adaptively manage grazing land resources based on the ecology of the system should increase the resistance and resilience to disturbances when compared to prevailing practices. Determining the ecologic and economic value of alternative strategies will require long-term evaluations across large spatial scales. The Long-Term Agroecosystem Research Network has been established to evaluate the differences between alternative and prevailing practices among 18 strategically located sites and across decadal time scales throughout the continental United States. A key integrated grazing land site within this network is the Texas Gulf located at the Riesel Watersheds in the Blackland Prairie of Central Texas. At this study site, the differences between alternative and prevailing grazing management strategies are now being evaluated. The alternative strategy was designed using a combination of knowledge of the site and species ecology with modern-day tools and technologies. Alternatively, the prevailing practice implements a conventional year-round continuous grazing system with heavy reliance on hay and supplemental protein during winter. Results will provide grazing land managers with economically viable adaptive management choices for increasing ecological resilience following extreme and frequent disturbance events.

The LTAR Cropland Common Experiment at the Texas Gulf.

Texas Gulf is one of the 18 regional sites that is part of the USDA-ARS Long-Term Agroecosystem Research (LTAR) Network and focuses on cropland and integrated grazing land research in Central Texas, addressing challenges posed by soil characteristics, climate variability, and urbanization. This paper provides brief site descriptions of the two Cropland Common Experiments being conducted in the Texas Gulf LTAR region, emphasizing conservation tillage practices and precision agriculture techniques. The plot-scale study is located in Temple, TX, at the USDA-ARS Grassland, Soil and Water Research Laboratory and examines conventional tillage, strip tillage, and no tillage practices. The field-scale study, located in Riesel, TX, at the USDA-ARS Riesel Watersheds, assesses the impact of no tillage, cover crops, fertility management, adaptive management, and precision conservation on crop yield, profitability, and environmental footprint. Key measurements include soil and plant analyses, greenhouse gas fluxes, runoff water quantity and quality, and field operations recorded with precision agriculture equipment. Despite challenges posed by urban encroachment, future research aims to incorporate new technologies, such as unmanned ground vehicles, to enhance sustainability and productivity of the agricultural landscape. These experiments provide valuable insights for stakeholders, contributing to the development of sustainable agricultural practices tailored to the unique challenges within the Texas Gulf LTAR region.

Evolution of genes and genomes on the Drosophila phylogeny.

Comparative analysis of multiple genomes in a phylogenetic framework dramatically improves the precision and sensitivity of evolutionary inference, producing more robust results than single-genome analyses can provide. The genomes of 12 Drosophila species, ten of which are presented here for the first time (sechellia, simulans, yakuba, erecta, ananassae, persimilis, willistoni, mojavensis, virilis and grimshawi), illustrate how rates and patterns of sequence divergence across taxa can illuminate evolutionary processes on a genomic scale. These genome sequences augment the formidable genetic tools that have made Drosophila melanogaster a pre-eminent model for animal genetics, and will further catalyse fundamental research on mechanisms of development, cell biology, genetics, disease, neurobiology, behaviour, physiology and evolution. Despite remarkable similarities among these Drosophila species, we identified many putatively non-neutral changes in protein-coding genes, non-coding RNA genes, and cis-regulatory regions. These may prove to underlie differences in the ecology and behaviour of these diverse species.

Phosphorus sorption and desorption as affected by long-term cover cropping at two soil surface depths.

Phosphorus (P) loss from agricultural land is a persistent environmental challenge, and a better understanding of the impact of continuous cover crops (CCs) growth on soil P sorption and desorption characteristics is needed to inform mitigation strategies. This study investigated the impact of CC species on soil P pools, sorption characteristics, and dissolved reactive P (DRP) after 9 yr. Soil samples were collected at 0-to-2- and 2-to-4-cm soil depths from a silty clay loam Mollisol. Treatments included cereal rye (Secale cereal L.; CR), annual ryegrass (Lolium multiflorum, AR), oats/radish (Avena sativa L./Raphanus sativus L.; OR), and no CC (CN). A sorption experiment was done with varying P concentrations for 24 h equilibration, and sorption parameters were estimated using the Langmuir model. The DRP was estimated using sequential soil extraction by 0.01 M CaCl2 for 5 h. Long-term CC significantly decreased P sorption maximum but increased binding energy relative to CN. Annual ryegrass significantly decreased soil water extractable P, Mehlich 3 P, and degree of P saturation relative to OR and CN at the 0-to-2-cm depth. Annual ryegrass and CR significantly decreased desorbed DRP by an average of 42 and 45% relative to CN and OR, respectively, at the 0-to-2-cm depth. These results demonstrated that long-term grass species decreased the concentrations of labile P pools and desorbed DRP at the soil runoff interaction zone. Therefore, planting of AR and CR should be promoted in fields susceptible to runoff DRP losses.

Connecting soil characteristics to edge-of-field water quality in Ohio.

Soil health and water quality improvement are major goals of sustainable agricultural management systems, yet the connections between soil health and water quality impacts remain unclear. In this study we conducted an initial exploratory assessment of the relationships between soil chemical, physical, and biological properties and edge-of-field water quality across a network of 40 fields in Ohio, USA. Discharge, dissolved reactive P (DRP), total P (TP), and nitrate (NO3 ) losses associated with precipitation events via surface runoff and tile drainage were monitored. Agronomic soil tests and a suite of soil health indicators were measured, then predictive relationships between the field average soil properties and tile drainage and surface runoff discharge and DRP, TP, and nitrate loads were explored with random forest and multiple linear regression approaches. Among the soil health indicators, water extractable C and N were consistently found to be positively related to tile nitrate loads, but other soil health indicators had little or inconsistent importance for water quality impacts. Several other soil properties were important predictors, particularly soil P pools for surface and tile DRP and TP losses as well as Mehlich-3 (M3) extractable Fe and Al for surface and tile discharge. Thus, we did not observe strong evidence that soil health was associated with improved edge-of-field water quality across the edge-of-field monitoring network. However, additional studies are needed to definitively test the relationships between a broader array of soil health metrics and water quality outcomes.

Uncertainty in phosphorus fluxes and budgets across the US long-term agroecosystem research network.

Phosphorus (P) budgets can be useful tools for understanding nutrient cycling and quantifying the effectiveness of nutrient management planning and policies; however, uncertainties in agricultural nutrient budgets are not often quantitatively assessed. The objective of this study was to evaluate uncertainty in P fluxes (fertilizer/manure application, atmospheric deposition, irrigation, crop removal, surface runoff, and leachate) and the propagation of these uncertainties to annual P budgets. Data from 56 cropping systems in the P-FLUX database, which spans diverse rotations and landscapes across the United States and Canada, were evaluated. Results showed that across cropping systems, average annual P budget was 22.4 kg P ha-1 (range = -32.7 to 340.6 kg P ha-1 ), with an average uncertainty of 13.1 kg P ha-1 (range = 1.0-87.1 kg P ha-1 ). Fertilizer/manure application and crop removal were the largest P fluxes across cropping systems and, as a result, accounted for the largest fraction of uncertainty in annual budgets (61% and 37%, respectively). Remaining fluxes individually accounted for <2% of the budget uncertainty. Uncertainties were large enough that determining whether P was increasing, decreasing, or not changing was inconclusive in 39% of the budgets evaluated. Findings indicate that more careful and/or direct measurements of inputs, outputs, and stocks are needed. Recommendations for minimizing uncertainty in P budgets based on the results of the study were developed. Quantifying, communicating, and constraining uncertainty in budgets among production systems and multiple geographies is critical for engaging stakeholders, developing local and national strategies for P reduction, and informing policy.

The development of alum rates to enhance the remediation of phosphorus in fluvial systems following manure spills.

Following the remediation of animal manure spills that reach surface waters, contaminated streambed sediments are often left in place and become a source for internal phosphorus (P) loading within the stream in subsequent flow. The objective of this study was to develop treatment rates and combinations of alum and CaCO(3) to mitigate P from contaminated sediments of different particle size distributions following a manure spill. Sediment specific alum and CaCO(3) treatment rates were developed based upon the resultant alum treatment ranges established for each sediment type. Clay loam sediments required 54% more alum to mitigate P desorption relative to sediments that contain at least 60% sand. Amending sediments with the highest rates of alum/alum + CaCO(3), resulted in a 98-100% reduction in P desorption and a similar water column pH for all sediments types. Observations from this study demonstrated the effectiveness of alum/alum + CaCO(3) to increase P retention in sediments following a manure spill.