Enteropathogen survival in soil from different land-uses is predominantly regulated by microbial community composition

peer-reviewedMicrobial enteropathogens can enter the environment via landspreading of animal slurries and manures. Biotic interactions with the soil microbial community can contribute to their subsequent decay. This study aimed to determine the relative impact of biotic, specifically microbial community structure, and physico-chemical properties associated with soils derived from 12 contrasting land-uses on enteropathogen survival. Phenotypic profiles of microbial communities (via phospholipid fatty acid (PLFA) profiling), and total biomass (by fumigation-extraction), in the soils were determined, as well as a range of physicochemical properties. The persistence of Salmonella Dublin, Listeria monocytogenes, and Escherichia coli was measured over 110 days within soil microcosms. Physicochemical and biotic data were used in stepwise regression analysis to determine the predominant factor related to pathogen-specific death rates. Phenotypic structure, associated with a diverse range of constituent PLFAs, was identified as the most significant factor in pathogen decay for S. Dublin, L. monocytogenes, non-toxigenic E. coli O157 but not for environmentally-persistent E. coli. This demonstrates the importance of entire community-scale interactions in pathogen suppression, and that such interactions are context-specific

In situ N2O emissions are not mitigated by hippuric and benzoic acids under denitrifying conditions

This research was financially supported under the National Development Plan, through the Research Stimulus Fund, administered by the Department of Agriculture, Food and the Marine (Grant numbers RSF10/RD/SC/716 and 11S138).peer-reviewedRuminant urine patches deposited onto pasture are a significant source of greenhouse gas nitrous oxide (N2O) from livestock agriculture. Increasing food demand is predicted to lead to a rise in ruminant numbers globally, which, in turn will result in elevated levels of urine-derived N2O. Therefore mitigation strategies are urgently needed. Urine contains hippuric acid and together with one of its breakdown products, benzoic acid, has previously been linked to mitigating N2O emissions from urine patches in laboratory studies. However, the sole field study to date found no effect of hippuric and benzoic acid concentration on N2O emissions. Therefore the aim of this study was to investigate the in situ effect of these urine constituents on N2O emissions under conditions conducive to denitrification losses. Unadulterated bovine urine (0 mM of hippuric acid, U) was applied, as well as urine amended with either benzoic acid (96 mM, U + BA) or varying rates of hippuric acid (8 and 82 mM, U + HA1, U + HA2). Soil inorganic nitrogen (N) and N2O fluxes were monitored over a 66 day period. Urine application resulted in elevated N2O flux for 44 days. The largest N2O fluxes accounting for between 13% (U) and 26% (U + HA1) of total loss were observed on the day of urine application. Between 0.9 and 1.3% of urine-N was lost as N2O. Cumulative N2O loss from the control was 0.3 kg N2O–N ha− 1 compared with 11, 9, 12, and 10 kg N2O–N ha− 1 for the U, U + HA1, U + HA2, and U + BA treatments, respectively. Incremental increases in urine HA or increase in BA concentrations had no effect on N2O emissions. Although simulation of dietary manipulation to reduce N2O emissions through altering individual urine constituents appears to have no effect, there may be other manipulations such as reducing N content or inclusion of synthetic inhibitory products that warrant further investigation.Department of Agriculture, Food and the Marin

Factors affecting nitrate distribution in shallow groundwater under a beef farm in South Eastern Ireland

peer-reviewedGroundwater contamination was characterised using a methodology which combines shallow groundwater geochemistry data from 17 piezometers over a 2 yr period in a statistical framework and hydrogeological techniques. Nitrate–N (NO3-N) contaminant mass flux was calculated across three control planes (rows of piezometers) in six isolated plots. Results showed natural attenuation occurs on site although the method does not directly differentiate between dilution and denitrification. It was further investigated whether NO3-N concentration in shallow groundwater (<5 m below ground level) generated from an agricultural point source on a 4.2 ha site on a beef farm in SE Ireland could be predicted from saturated hydraulic conductivity (Ksat) measurements, ground elevation (m Above Ordnance Datum), elevation of groundwater sampling (screen opening interval) (m AOD) and distance from a dirty water point pollution source. Tobit regression, using a background concentration threshold of 2.6 mg NO3-N L−1 showed, when assessed individually in a step wise procedure, Ksat was significantly related to groundwater NO3-N concentration. Distance of the point dirty water pollution source becomes significant when included with Ksat in the model. The model relationships show areas with higher Ksat values have less time for denitrification to occur, whereas lower Ksat values allow denitrification to occur. Areas with higher permeability transport greater NO3-N fluxes to ground and surface waters. When the distribution of Cl− was examined by the model, Ksat and ground elevation had the most explanatory power but Ksat was not significant pointing to dilution having an effect. Areas with low NO3 concentration and unaffected Cl− concentration points to denitrification, low NO3 concentration and low Cl− chloride concentration points to dilution and combining these findings allows areas of denitrification and dilution to be inferred. The effect of denitrification is further supported as mean groundwater NO3-N was significantly (P < 0.05) related to groundwater N2/Ar ratio, redox potential (Eh), dissolved O2 and N2 and was close to being significant with N2O (P = 0.08). Calculating contaminant mass flux across more than one control plane is a useful tool to monitor natural attenuation. This tool allows the identification of hot spot areas where intervention other than natural attenuation may be needed to protect receptors.Research Stimulus Fund, Department of Agriculture Fisheries and Food (Ireland

Determination and Occurrence of Phenoxyacetic Acid Herbicides and Their Transformation Products in Groundwater Using Ultra High Performance Liquid Chromatography Coupled to Tandem Mass Spectrometry

This research is funded by the National Development Plan, through the Research Stimulus Fund, administered by the Department of Agriculture, Food and Marine (RS-544) and the Teagasc Walsh Fellowship Scheme.peer-reviewedA sensitive method was developed and validated for ten phenoxyacetic acid herbicides, six of their main transformation products (TPs) and two benzonitrile TPs in groundwater. The parent compounds mecoprop, mecoprop-p, 2,4-D, dicamba, MCPA, triclopyr, fluroxypr, bromoxynil, bentazone, and 2,3,6-trichlorobenzoic acid (TBA) are included and a selection of their main TPs: phenoxyacetic acid (PAC), 2,4,5-trichloro-phenol (TCP), 4-chloro-2-methylphenol (4C2MP), 2,4-dichlorophenol (DCP), 3,5,6-trichloro-2-pyridinol (T2P), and 3,5-dibromo-4-hydroxybenzoic acid (BrAC), as well as the dichlobenil TPs 2,6-dichlorobenzamide (BAM) and 3,5-dichlorobenzoic acid (DBA) which have never before been determined in Irish groundwater. Water samples were analysed using an efficient ultra-high performance liquid chromatography (UHPLC) method in an 11.9 min separation time prior to detection by tandem mass spectrometry (MS/MS). The limit of detection (LOD) of the method ranged between 0.00008 and 0.0047 µg·L−1 for the 18 analytes. All compounds could be detected below the permitted limits of 0.1 µg·L−1 allowed in the European Union (EU) drinking water legislation [1]. The method was validated according to EU protocols laid out in SANCO/10232/2006 with recoveries ranging between 71% and 118% at the spiked concentration level of 0.06 µg·L−1. The method was successfully applied to 42 groundwater samples collected across several locations in Ireland in March 2012 to reveal that the TPs PAC and 4C2MP were detected just as often as their parent active ingredients (a.i.) in groundwater

Predicting soil moisture conditions for arable free draining soils in Ireland under spring cereal crop production

peer-reviewedTemporal prediction of soil moisture and evapotranspiration has a crucial role in agricultural and environmental management. A lack of Irish models for predicting evapotranspiration and soil moisture conditions for arable soils still represents a knowledge gap in this particular area of Irish agro-climatic modelling. The soil moisture deficit (SMD) crop model presented in this paper is based on the SMD hybrid model for Irish grassland (Schulte et al., 2005). Crop and site specific components (free-draining soil) have been integrated in the new model, which was calibrated and tested using soil tension measurements from two experimental sites located on a well-drained soil under spring barley cultivation in south-eastern Ireland. Calibration of the model gave an R2 of 0.71 for the relationship between predicted SMD and measured soil tension, while model testing yielded R2 values of 0.67 and 0.65 (two sites). The crop model presented here is designed to predict soil moisture conditions and effective drainage (i.e., leaching events). The model provided reasonable predictions of soil moisture conditions and effective drainage within its boundaries, i.e., free-draining land used for spring cereal production under Irish conditions. In general, the model is simple and practical due to the small number of required input parameters, and due to model outputs that have good practical applicability, such as for computing the cumulative amount of watersoluble nutrients leached from arable land under spring cereals in free-draining soils

Effect of Agricultural Practices on Nitrate Leaching

Teagasc wishes to acknowledge with gratitude funding from the 2000-2006 EPA RTDI programme in financing this research project.End of project reportA farm-scale study, carried out at Teagasc, Moorepark (Curtin’s farm), examined the effect of four managements (treatments) on nitrate-nitrogen (NO3-N) leaching over the period 2001-`05. Leaching was measured in these treatments: (T1) plots receiving dirty water and N fertilizer which were grazed; (T2) 2-cut silage and grazing plots receiving slurry and fertilizer N; (T3) grazed plots receiving fertilizer N and (T4) 1-cut silage and grazing plots receiving slurry and fertilizer N. The soil is a free-draining sandy loam overlying Karstic fissured limestone. The mean direct N inputs (kg/ha) for T1-T4 in 2001-`04 were 311, 309, 326, 331, respectively, with stocking rates (LU/ha) of 2.12 - ~2.47. Eight ceramic cups per plot, in 3 replicate plots of each treatment, were used to collect water, on a weekly basis, from 1.0 m deep using 50 kPa suction. There were 33, 37, 26 and 24 sampling dates in the 4 years, respectively. The NO3-N and NH4-N concentrations (mg/l) were determined in the water samples. The annual average and weekly concentration of these parameters was statistically analysed for all years, using a repeated measures analysis. The aggregated data were not normally distributed. There was an interaction between treatment and year (p<0.001). Significant differences (p=0.05) in NO3-N concentrations showed between the treatments in years 1, 2, 4 but not in year 3. For the NH4-N data there was no interaction between treatment and year, p=0.12, or main effect of treatment, p=0.54 but there were differences between years, p=0.01. Mean weekly concentrations were analysed separately for each year. For NO3-N, in years 1, 2 and 4 there was an interaction between treatment and week (p<0.001). With NH4-N, there was an interaction between treatment and week in all 4 years. Dirty water was significantly higher than grazed and 1 cut silage in NO3-N concentrations in year 1; in year 2, dirty water and 2 cut silage were significantly higher than the other treatments while in year 4, dirty water and grazed were significantly higher than the other two treatments. The overall four-year weighted mean NO3-N and NH4-N concentrations were 8.2 and 0.297 mg/l. The NCYCLE (UK) model was adapted for Irish conditions as NCYCLE_IRL. The NCYCLE empirical approach proved to be suitable to predict N fluxes from Irish grassland systems in most situations. Experimental data appeared to agree quite well, in most cases, with the outputs from NCYCLE_IRL. The model was not capable of predicting data from some of the leaching experiments, which suggests that the observed leaching phenomena in these experiments could be governed by non-average conditions or other parameters not accounted for in NCYCLE_IRL. An approach that took into account denitrification, leaching and herbage yield would probably explain the differences found. NCYCLE_IRL proved to be a useful tool to analyse N leaching from grazed and cut grassland systems in Ireland.Environmental Protection Agenc

Exploring the relationship between groundwater geochemical factors and denitrification potentials on a dairy farm in southeast Ireland

NOTICE: this is the author’s version of a work that was accepted for publication in the journal Ecological Engineering. Changes resulting from the publishing process, such as peer review, editing, corrections, structural formatting, and other quality control mechanisms may not be reflected in this document. Changes may have been made to this work since it was submitted for publication. A definitive version was subsequently published in Ecological Engineering, volume 37, issue 9, September 2011, 1304-1313. DOI: 10.1016/j.ecoleng.2011.03.025peer-reviewedNitrate (NO3−) loss from agriculture to shallow groundwater and transferral to sensitive aquatic ecosystems is of global concern. Denitrifying bioreactor technology, where a solid carbon (C) reactive media intercepts contaminated groundwater, has been successfully used to convert NO3− to di-nitrogen (N2) gas. One of the challenges of groundwater remediation research is how to track denitrification potential spatially and temporally within reactive media and subsoil. First, using δ15N/δ18O isotopes, eight wells were divided into indicative transformational processes of ‘nitrification’ or ‘denitrification’ wells. Then, using N2/argon (Ar) ratios these wells were divided into ‘low denitrification potential’ or high denitrification potential’ categories. Secondly, using falling head tests, the saturated hydraulic conductivity (Ksat) in each well was estimated, creating two groups of ‘slow’ (0.06 m day−1) and ‘fast’ (0.13 m day−1) wells, respectively. Thirdly, two ‘low denitrification potential’ wells (one fast and one slow) with high NO3− concentration were amended with woodchip to enhance denitrification. Water samples were retrieved from all wells using a low flow syringe to avoid de-gassing and analysed for N2/Ar ratio using membrane inlet mass spectrometry. Results showed that there was good agreement between isotope and chemical (N2/Ar ratio and dissolved organic C (DOC)) and physio-chemical (dissolved oxygen, temperature, conductivity and pH) parameters. To explain the spatial and temporal distribution of NO3− and other parameters on site, the development of predictive models using the available datasets for this field site was examined for NO3−, Cl−, N2/Ar and DOC. Initial statistical analysis was directed towards the testing of the effect of woodchip amendment. The analysis was formulated as a repeated measures analysis of the factorial structure for treatment and time. Nitrate concentrations were related to Ksat and water level (p < 0.0001 and p = 0.02, respectively), but did not respond to woodchip addition (p = 0.09). This non-destructive technique allows elucidation of denitrification potential over time and could be used in denitrifying bioreactor technology to assess denitrification hotspots in reactive media, while developing a NO3− spatial and temporal predictive model for bioreactor site specific conditions

The effect of renovation of long-term temperate grassland on N2O emissions and N leaching from contrasting soils

pre-printRenovation of long-term grassland is associated with a peak in soil organic N mineralisation which, coupled with diminished plant N uptake can lead to large gaseous and leaching N losses. This study reports on the effect of ploughing and subsequent N fertilisation on the N2O emissions and DON/NO3− leaching, and evaluates the impact of ploughing technique on the magnitude and profile of N losses. This study was carried out on isolated grassland lysimeters of three Irish soils representing contrasting drainage properties (well-drained Clonakilty, moderately-drained Elton and poorly-drained Rathangan). Lysimeters were manually ploughed simulating conventional (CT) and minimum tillage (MT) as two treatments. Renovation of grassland increased N2O flux to a maximum of 0.9 kg N2O–N ha− 1 from poorly-drained soil over four days after treatment. Although there was no difference between CT and MT in the post-ploughing period, the treatment influenced subsequent N2O after fertiliser applications. Fertilisation remained the major driver of N losses therefore reducing fertilisation rate post-planting to account for N mineralised through grassland renovation could reduce the losses in medium to longer term. Leaching was a significant loss pathway, with the cumulative drainage volume and N leached highly influenced by soil type. Overall, the total N losses (N2O + N leached) were lowest from poorly and moderately draining soil and highest for the well draining soil, reflecting the dominance of leaching on total N losses and the paramount importance of soil properties

Carbon and nitrogen dynamics: Greenhouse gases in groundwater beneath a constructed wetland treating municipal wastewater

Conference oral presentationConstructed wetlands (CW) act as nitrogen (N) sinks and reactors facilitating a number of physical, chemical and biological processes. The N removal efficiency of through-flowing water in such systems when used to treat municipal wastewater is variable. Their overall removal efficiencies do not specifically explain which N species have been removed by physical attenuation, and by biological assimilation or transformation to other forms. A wider understanding of how N removal occurs would help elucidate how losses of N and associated gases from CW impact on water and air quality. The objective of this study is to investigate the C and N cycling processes in the porewater of soils immediately adjacent, up-gradient and down- gradient to helophyte —vegetated CW cells

Leaching of N compounds from swards used for dairying that are N based and irrigated with dirty water/slurry.

End of Project ReportA study was carried out to investigate nitrate leaching on a dairy farm in Co. Cork. The farm had a history of high nitrate-N in borehole waters and the study aimed to elucidate the causative factors for this. Physical and chemical data regarding the soils, the hydrology, and the N input/output balances were determined and collated. Results showed that nitrate-N concentrations > the EU maximum allowable concentration (MAC) of 11.3 mg/l for drinking water occurred in soil drainage from the light textured soils studied due to a large imbalance between N inputs and outputs. High fertiliser N usage, animal manure and dirty water applications, atmospheric N depositions and soil organic N mineralisation in combination produced these results . While it is recognised that nitrate leaching will vary in amount from year to year the lessons from the study are clear - light textured soils that are used for intensive dairying and which receive high inputs of N are prone to release drainage water high in nitrate.European Union Structural Funds (EAGGF