The clogging of fine-porosity geotextiles by soil particles is considered to be a problem in applications of these fabrics to filtering of municipal and industrial effluents. However, the clogging phenomenon can be an advantage for certain purposes, such as the creation of near-watertight membranes for sealing manure holding tanks. The conceived advantages of non-woven needle-punctured geotextiles are that they are less expensive due to lower material quantity, they are more resistant to tensile stresses compared to impermeable plastics and concrete, and they are easily installed. This thesis describes experimental work on the permeability and clogging characteristics of a Non-woven Polyester Geotextile with three different porosities (13.4, 19.5 and 26.0mum) but the same hydraulic conductivity (Kw = 10-5 m/s), when subjected to different heads of cattle slurry at 1, 2 and 4% total solids (TS) concentrations. The resulting infiltration rates were used to establish the effect of geotextile pore size and manure TS on geotextile sealing and to find the location of the seal, whether at the surface or within the geotextile. After 100 days of experimentation, the lowest infiltration rate of 1.1 L/m2/d was reached with the 13.4mum geotextile. Manure TS had a significant effect on the sealing and at least 4% TS was required to minimize the geotextile's infiltration rate. Clogging occurred within the pores, suggesting that the seal remains even after removing the manure. / This advantage can be translated into economic benefit when fun cost comparisons with sealing liners such as geomembranes and concrete are undertaken. / This research also reviews and analyzes the physical, chemical and biological processes leading to clogging of geotextiles as well as a cost-benefit comparison with the other sealing materials. The analysis concludes that clogged geotextiles are a wise choice for Canadian livestock producers.

No description available.

Gaseous ammonia emissions from livestock production are a well known source of anthropogenic ammonia emissions and have been the subject of numerous studies in Western Europe and in the United States of America. They are deemed responsible for the acidification of ecosystems. Furthermore, ammonia emissions from intensive livestock operations located in the vicinity of major cities induce favourable conditions for smog formation. Ammonia volatilization from manure also reduces its effectiveness as a fertilizer by reducing its nitrogen content, an important nutrient for plant growth. Certain technologies and structures exist to cover manure storage tanks in order to limit these ammonia losses to the atmosphere. Very few studies have been done in Canada where climate and manure management practices differ widely from those in Western Europe and in the United States of America. In this project, a measurement campaign was financed by Agriculture and Agrifood Canada on four commercial livestock production infrastructure to begin the development of national ammonia inventory. Commercial dairy and swine manure storages covered by floating geomembranes were monitored for periods exceeding six months in the Eastern Townships of Quebec. The swine manure storage emitted negligible amounts of ammonia, from 5.9 ?10[superscript -3] to 0.14 [micro]g? m[superscript -2] . s[superscript -1] over the summer time. The dairy manure storage emitted more substantial amounts of ammonia when the manure surface was frozen in winter, from 1.9 to 16 [micro]g. m[superscript -2] ? s[superscript -1], then when unfrozen, 93 to 166 [micro]g? m[superscript -2] ? s[supercript -1]. A structural difference in the covering technology at the dairy manure storage rendered it less airtight than the swine manure storage. Therefore, the efficiency of a cover to limit ammonia emissions from manure is function of its air tightness. Ammonia emission rates from two tie-stall commercial dairy buildings were also monitored in the Eastern Townships of Quebec. Ammonia emission measurements done at building A during winter 2007 ranged from 3.77 to 6.80 g ? day[superscript -1] ? animal[superscript -1] while those performed at building B during summer 2007 were higher and ranged from 11.33 to 18.20 g ? day[superscript -1] ? animal[superscript -1]. These values fall within the wide range of those published for Western Europe and the United States of America. However, unlike studies completed in Europe using similar procedures, the methods used to measure gaseous ammonia concentrations and building ventilation flow rates in this study were validated in controlled environments.

No description available.

No description available.

Sustainable farming is an integrated practice of crop and livestock production system (integrated crop-livestock system; ICLS) that aims to reduce the environmental impacts of agricultural practices while maintaining the productivity and profitability. The use of one step's byproducts by another is a crucial component of this practice. The continuity and effectiveness of sustainable farming greatly rely on deep understanding of each component and good management strategy. One essential aspect involved in all farming components is the role of microorganisms in mediating the biological processes therein. Thus, understanding the composition and activities of these communities would open up ways to engineer them and optimize the respective processes for better sustainable farming practices. The research presented in this dissertation aimed to characterize the microbial metabolism involved in the ICLS with a broader goal of manipulating these systems to improve sustainable agriculture. We focused on two systems that are widely used in the United States, and employed the analysis of 16S rRNA-V4 element for this purpose. In our first system, we characterized the rumen microbiomes of beef cattle alternately grazing nontoxic MaxQ and toxic KY-31 tall fescue pasture, to understand how these cultivars shape the rumen microbiome and identify microbial species potentially capable of degrading ergot alkaloids for better feed utilization. We found that KY-31 grazing remodeled the rumen microbiome substantially at the cellulolytic and saccharolytic guilds. It suppressed the abundances of Fibrobacter, a major ruminal cellulolytic bacterium, as well as those of Pseudobutyrivibrio and Butyrivibrio, and these losses were compensated by increased occurrences of Eubacterium species. Parts of these new communities lingered once developed, and a different guild composition surfaced upon transfer to MaxQ. We also discovered that most of the observations were not evident at the whole microbiome levels but was identified by analyzing the sessile and planktonic fractions separately. Thus, it showcased the need for analyzing sessile and planktonic segments separately while interrogating a heterogenous microbiome. Finally, we identified several potential ergovaline degrading bacteria such as Paraprevotella and Coprococcus. In our second system, we studied the microbiome composition and associated transformation pathways mediating nitrogen loss in two dairy manure storage systems, the clay-lined Earthen Pit (EP) and aboveground concrete storage tank (CS) on two commercial dairy farms, to develop strategies to minimize these losses. We first developed a catalog of the archaea and bacteria that were present therein based on the 16S rRNA-V4 amplicons from manure samples collected from several locations and depths of the storages. Then, we inferred the respective metabolic capabilities via PICRUSt2 and literature curation, and developed schemes for nitrogen and carbon transformation pathways operating at various locations of EP and CS. Our results showed that the stored manure microbiome composition was more complex and exhibited more location-to-location variation in EP compared to CS. Further, the inlet and a location with hard surface crust in EP had unique consortia. With regards to nitrogen transformation, the microbiomes in both storages had the potential to generate ammonia but lacked the organisms for oxidizing it to nitrate and further to gaseous compounds such as anammox and autotrophic nitrifiers. However, microbial conversion of nitrate to gaseous N2, NO, and N2O via denitrification and to stable ammonia via dissimilatory nitrite reduction (DNRA) seemed possible. Minor quantity of nitrate was present in manure, potentially originating from oxidative processes occurring on the barn floor. Higher prevalence of nitrate-transforming microbes at the near-surface locations and all depths of the inlet were found as a result of this instance. These findings suggested that ammonia oxidation to nitrate started on the barn floor and as manure is being stored in EP and CS, nitrate was lost to the environment via denitrification. For carbon transformation, hydrogenotrophic Methanocorpusculum species were the primary methane producers, and it exhibited higher abundance in EP. / Doctor of Philosophy / Sustainable farming is an integrated practice of crop and livestock production systems that aims to reduce the environmental impacts of agricultural practices while maintaining the productivity and profitability. The use of one step's byproducts by another such as the utilization of arable land to grow forages for livestock grazing or the use of manure as organic nitrogen amendments for crops is a crucial component of this practice. The continuity and effectiveness of sustainable farming greatly rely on deep understanding of each component and good management strategy. One essential aspect involved in all farming components is the role of microorganisms in mediating the biological processes therein. Thus, understanding the composition and activities of these communities would open up ways to engineer them and optimize the respective processes for a better sustainable farming practice. The research presented in this dissertation aimed to characterize the microbial metabolism involved in the integrated crop-livestock system with a broader goal of manipulating these to improve sustainable agriculture. We focused on two systems that are widely used in the United States, and employed bioinformatic analysis of a genetic marker for this purpose. In our first system, we characterized the rumen microbiomes of beef cattle grazing alternately on KY-31 tall fescue, a major grass used in Virginia that carry a toxin-producing fungi, and nontoxic MaxQ tall fescue pasture, to understand how these cultivars shape the rumen microbiome and identify potential microbial species capable of degrading the toxin for better feed utilization. We found that KY-31 grazing remodeled the rumen microbiome substantially, especially affecting microbes responsible for degrading cellulose and starch. Some of these communities lingered once developed, and a different microbial population surfaced upon transfer to MaxQ. Several potential toxin-degrading bacteria were also identified. In our second system, we studied the microbiome composition and associated transformation pathways mediating nitrogen loss in two dairy manure storage systems, the clay-lined Earthen Pit (EP) and aboveground concrete storage tank (CS), to develop strategies to minimize these losses. We first develop a catalog of the archaea and bacteria that were present in the manure samples collected from several locations and depths of the storages based on a genetic marker. Then, we inferred the respective metabolic capabilities and developed schemes for nitrogen and carbon transformation pathways operating at various locations of EP and CS. Our results showed that the stored manure microbiome exhibited more location-to-location variation in EP compared to CS. Oxygen exposure, continuous addition of fresh manure, and the presence of crust at the storage surface gave rise to these unique populations. With regards to nitrogen transformation, the microbiomes in both storages had the potential to generate ammonia but lacked the organisms for oxidizing it to nitrate and further to gaseous compounds. However, microbial conversion of nitrate to gaseous N2, NO, and N2O seemed possible. These observations showcased that ammonia is stable during storage. Nitrate, on the other hand, can be converted into volatile nitrogen compounds via various processes. Thus, it is imperative to limit the level of nitrate in manure prior to placement in the storage, which is potentially originating from oxidative processes occurring on the barn floor.

The biogeochemical processes responsible for production and emission of ammonia from stored liquid dairy manure are governed by environmental factors (e.g. manure temperature, moisture) and manure characteristics (e.g. total ammoniacal nitrogen concentration, pH). These environmental factors and manure characteristics vary spatially as a result of spatially heterogeneous physical, chemical, and biological properties of manure. Existing process-based models used for estimating ammonia emission consider stored manure as a homogeneous system and do not consider these spatial variations leading to inaccurate estimations. In this study, a one-dimensional compartmental biogeochemical model was developed to (i) estimate spatial variation of temperature and substrate concentration (ii) estimate spatial variations and rates of biogeochemical processes, and (iii) estimate production and emission of ammonia from stored scraped liquid dairy manure. A one-dimension compartmentalized modeling approach was used whereby manure storage is partitioned into several sections in vertical domain assuming that the conditions are spatially uniform within the horizontal domain. Spatial variation of temperature and substrate concentration were estimated using established principles of heat and mass transfer. Pertinent biogeochemical processes were assigned to each compartment to estimate the production and emission of ammonia. Model performance was conducted using experimental data obtained from National Air Emissions Monitoring Study conducted by the United States Environmental Protection Agency. A sensitivity analysis was performed and air temperature, manure pH, wind speed, and manure total ammoniacal nitrogen concentration were identified as the most sensitive model inputs. The model was used to estimate ammonia emission from a liquid dairy manure storage of a dairy farm located in Rockingham and Franklin counties in Virginia. Ammonia emission was estimated under different management and weather scenarios: two different manure storage periods from November to April and May to October using historical weather data of the two counties. Results suggest greater ammonia emissions and manure nitrogen loss for the manure storage period in warm season from May to October compared to the storage period in cold season from November to April. / Ph. D. / Dairy manure is a byproduct of dairy farming that can be used as a fertilizer to provide essential plant nutrients such as nitrogen, phosphorus, and potassium. However, manure can only be applied to crop lands in a certain time of the year during growing seasons. Further, discharge of dairy manure into natural environment is prevented by the environmental regulations. Therefore, manure storage structures are used to store liquid dairy manure until time permits for land application or use for other purposes. During the storage, liquid dairy manure goes through biological, chemical, and physical processes and release manure gases that are linked to deteriorate human and animal health and contribute to environmental pollution. Ammonia is one of the manure gases released to atmosphere from stored liquid dairy manure. Furthermore, release of ammonia from stored manure reduce nitrogen content and reduce fertilizer value of stored manure. Implementing control measures to mitigate ammonia emission is necessary to prevent ammonia emission and reduce nitrogen loss from stored manure. Deciding and applying of appropriate control measures require knowledge of the rate at which ammonia emission occurs and when ammonia emission occurs. Use of process-based models is one of the less expensive and reliable method for estimating ammonia emission from stored liquid dairy manure. Process-based model is a mathematical model that simulates processes related to ammonia production and emission from stored manure. Even though, there are several process-based models available for estimating ammonia emission from stored liquid dairy manure, these models do not fully represent the actual processes and conditions relevant to production and emission of ammonia. For instance, spatial variation of temperature and total ammoniacal nitrogen concentration within stored manure is not considered in existing process-based models. Therefore, in this study a new compartmental process-based model was developed for estimating these spatial variations and production and emission of ammonia from stored liquid dairy manure. The model uses weather data and manure management information as inputs for estimating ammonia emission and nitrogen loss. The performance evaluation of the compartmental process-based model revealed that air temperature, manure pH, wind speed, manure total ammoniacal nitrogen concentration are important model inputs for estimating ammonia emission from stored liquid dairy manure. The model was used to estimate ammonia emission from a dairy farm located in Rockingham and Franklin counties in Virginia. Results suggest greater ammonia emissions and manure nitrogen loss for the manure storage period in warm season from May to October compared to the storage period in cold season from November to April.

Loss of nitrogen (N) from dairy manure during storage is an issue of economic, environmental, and social concern for farming communities. The lost N 1) decreases the value of manure as a fertilizer and is an economic loss because supplemental inorganic N fertilizer is purchased to meet N needs on farms; 2) produces the potential pollution for water and air systems, thereby damaging the associated ecosystems; 3) causes challenges to human health. Thus, it is vital to manage and use N in an efficient and eco-friendly manner. N mineralization is a pathway in the N cycle, which converts organic N to inorganic N that is more susceptible to loss. The objective of this study was to conduct lab-scale experiments to assess the effects of temperature, manure solids content, using manure seed and autoclave sterilization operation at the start of storage, and storage time on the N mineralization and the associated microbial community during the storage of liquid dairy manure. Manure scrapped from the barn floor of a commercial dairy farm and diluted to make experimental stocks with high (46 to 78 g/L) and low (19 to 36 g/L) total solids (TS), to simulate what is typically transported to the manure storage pit was used. The manure was incubated in the laboratory at three temperatures (10, 20, and 30°C) for two storage periods (60 and 180 days). Manure samples were taken at different storage time for analyses. The results showed that temperature and using sterilization operation at the start of storage had significant effects on N mineralization for both storage periods (p < 0.05). The highest N mineralization rate occurred at 30℃, which rate constant (k) was 0.096 week-1. While, the lowest N mineralization occurred at 10℃, and its corresponding k was 0.013 week-1. The concentrations of mineralized N (Nm) with non-sterilized (R) manure were significantly higher than that with sterilized (R0) manure (p < 0.05). Compared to that with high TS (H) manure, the concentrations of Nm were significantly higher with low TS (L) manure after 180-d storage (p < 0.05). Raw manure augmented with manure seed (MS) had significantly higher Nm than the manure seed only (SO) (p < 0.05). In order to investigate the changes of microbial community in manure, samples were collected on days 0, 30, 90, and 180 for the 180-d storage experiment, and days 0, 30, and 60 for the 60-d storage experiment, and then manure DNA under different condition was successfully extracted from collected samples and used for 16S rRNA sequencing. This study provided a more comprehensive understanding of the impact factors for manure storage, and was expected to clarify the relationship between N mineralization and the associated microbial community. / Master of Science / Loss of nitrogen (N) from dairy manure during storage is rooted in the process of degradation via microbial activities. During storage of dairy manure, up to 60% of N can be lost to the environment (the air, rivers, groundwater, etc.), causing damages such as global warming and water pollution. However, it is challenging to manage and reduce the N lost during manure storage because of lack of comprehensive knowledge of the complex microbial activities in manure storage structures. Thus, the long-term goal of this study is to discern the interactions of the physical, chemical, and microbial processes that affect the N transformation. The generated information will help to mitigate/minimize the loss of nitrogenous gases during storage of dairy manure. The specific objectives included: 1) to evaluate the effects of selected factors (including storage time, temperature, manure solids content, using manure seed and sterilization operation at the beginning of storage) on N mineralization during storage of liquid dairy manure and determine the associated N mineralization rate; 2) to reveal the microbial communities in stored liquid dairy manure under different conditions (listed above). The outcome of this study could be used to refine N mineralization input parameter of manure storage submodules of the process-based models such as Manure DeNitrification-DeComposition model (Manure-DNDC) and Integrated Farm System Model (IFSM) with the goal to improve their accuracy of estimating or accounting for the fate or cycling of N in dairy manure during storage.