Publications

Fen peatlands represent a globally important carbon (C) store, while also providing highly productive agricultural land. Drainage of these organic soils is required to create conditions suitable for crop growth, but this results in substantial greenhouse gas (GHG) emissions. One potential GHG mitigation option is to raise the groundwater table to reduce the duration and volume of peat exposure to aerobic conditions. However, the trade-off between maintaining food production and securing ecosystem function under a high water table (WT) presents a serious challenge for both land managers and policy makers. Therefore, we conducted a controlled mesocosm experiment to investigate the effects of WT elevation (from −50 cm to −30 cm) under three contrasting scenarios: (i) WT raised throughout the year, (ii) WT raised in the winter only, and (iii) WT raised in the growing season only. We measured GHG emissions, nitrate, ammonium and dissolved organic C concentrations in soil solution, alongside the yield of a commercially important crop (lettuce). Raising the WT throughout the year reduced lettuce yields by 37% and reduced CO2 emissions by 36% without changing the loss rates of N2O or CH4. Raising the WT only in the winter did not significantly reduce crop yield, but still suppressed CO2 emissions during the fallow period (by 30%). Raising the WT only in the growing season reduced root growth and CO2 emissions (by 27%), but had no major effect on lettuce yield. In conclusion, the present study shows that raising the groundwater table in the non-growing season reduced GHG emissions without negatively affecting lettuce yields, and may therefore represent a viable GHG mitigation option for agricultural peatlands.

No abstract is provided for this article.

No abstract is provided for this article.

An experiment was conducted to measure low amounts of total-column precipitable water vapor (PWV). Extremely dry conditions commonly occur in polar regions during the winter months. Accurate measurements of the PWV during such dry conditions are needed to improve our understanding of the regional radiation energy budgets. D. C. Jones et al. (1998) have shown that the strength associated with the 183 GHz water vapor absorption line makes radiometry in this frequency regime promising for measuring low amounts of PWV. However, retrievals using these frequencies are complicated by uncertainties in absorption models and the fact that these frequencies also respond to the vertical temperature distribution as well as to liquid and ice clouds. NASA Goddard Space Flight Center and NOAA Environmental Technology Laboratory conducted an experiment to investigate millimeter wave measurements for making ground-based estimates of PWV during dry conditions. The experiment was conducted at the DOE's North Slope of Alaska/Adjacent Arctic Ocean Cloud and Radiation Testbed site located just outside Barrow, Alaska. NASA and NOAA deployed a suite of radiometers covering 28 channels in the frequency range of 20 GHz up to 340 GHz including 8 channels around the 183 GHz water vapor absorption line.

Public toilets and bathrooms may act as a contact hub point where community transmission of SARS-CoV-2 occurs between users. The mechanism of spread would arise through three mechanisms: inhalation of faecal and/or urinary aerosol from an individual shedding SARS-CoV-2; airborne transmission of respiratory aerosols between users face-to-face or during short periods after use; or from fomite transmission via frequent touch sites such as door handles, sink taps, lota or toilet roll dispenser. In this respect toilets could present a risk comparable with other high throughput enclosed spaces such as public transport and food retail outlets. They are often compact, inadequately ventilated, heavily used and subject to maintenance and cleaning issues. Factors such as these would compound the risks generated by toilet users incubating or symptomatic with SARS-CoV-2. Furthermore, toilets are important public infrastructure since they are vital for the maintenance of accessible, sustainable and comfortable urban spaces. Given the lack of studies on transmission through use of public toilets, comprehensive risk assessment relies upon the compilation of evidence gathered from parallel studies, including work performed in hospitals and prior work on related viruses. This narrative review examines the evidence suggestive of transmission risk through use of public toilets and concludes that such a risk cannot be lightly disregarded. A range of mitigating actions are suggested for both users of public toilets and those that are responsible for their design, maintenance and management.

Detection of viruses in the environment is heavily dependent on PCR-based approaches that require reference sequences for primer design. While this strategy can accurately detect known viruses, it will not find novel genotypes or emerging and invasive viral species. In this study, we investigated the use of viromics, i.e., high-throughput sequencing of the biosphere's viral fraction, to detect human-/animal-pathogenic RNA viruses in the Conwy river catchment area in Wales, United Kingdom. Using a combination of filtering and nuclease treatment, we extracted the viral fraction from wastewater and estuarine river water and sediment, followed by high-throughput RNA sequencing (RNA-Seq) analysis on the Illumina HiSeq platform, for the discovery of RNA virus genomes. We found a higher richness of RNA viruses in wastewater samples than in river water and sediment, and we assembled a complete norovirus genotype GI.2 genome from wastewater effluent, which was not contemporaneously detected by conventional reverse transcription-quantitative PCR (qRT-PCR). The simultaneous presence of diverse rotavirus signatures in wastewater indicated the potential for zoonotic infections in the area and suggested runoff from pig farms as a possible origin of these viruses. Our results show that viromics can be an important tool in the discovery of pathogenic viruses in the environment and can be used to inform and optimize reference-based detection methods provided appropriate and rigorous controls are included. IMPORTANCE Enteric viruses cause gastrointestinal illness and are commonly transmitted through the fecal-oral route. When wastewater is released into river systems, these viruses can contaminate the environment. Our results show that we can use viromics to find the range of potentially pathogenic viruses that are present in the environment and identify prevalent genotypes. The ultimate goal is to trace the fate of these pathogenic viruses from origin to the point where they are a threat to human health, informing reference-based detection methods and water quality management.

The aim of this study was to determine if domestic cooking practices can reduce concentrations of norovirus (NoV) and F-specific RNA (FRNA) bacteriophage in experimentally contaminated mussels.Mussels (n = 600) contaminated with NoV and FRNA bacteriophage underwent four different cooking experiments performed in triplicate at ~70°C and >90°C. Concentrations of infectious FRNA bacteriophage (using a plaque assay) were compared with concentrations of FRNA bacteriophage and NoV determined using a standardised RT-qPCR. Initial concentrations of infectious FRNA bacteriophage (7·05 log10 PFU g(-1) ) in mussels were not significantly reduced in simmering water (~70°C); however, cooking at higher temperatures (>90°C) reduced infectious FRNA bacteriophage to undetected levels within 3 min. Further investigation determined the time required for a 1-log reduction of infectious FRNA bacteriophage at 90°C to be 42 s therefore a >3-log reduction in infectious virus can be obtained by heating mussel digestive tissue to 90°C for 126 s.Domestic cooking practices based on shell opening alone do not inactivate infectious virus in mussels, however, cooking mussels at high temperatures is effective to reduce infectious virus concentrations and the risk of illness in consumers.The data will contribute towards evidence-based cooking recommendations for shellfish to provide a safe product for human consumption.

Plants can directly affect nitrogen (N) transformation processes at the micro-ecological scale when soil comes into contact with roots. Due to the methodol

Extremely dry conditions commonly occur in polar regions during the winter months. Accurate measurements of the precipitable water vapor (PWV) during such dry conditions are needed to improve our understanding of the regional radiation energy budgets. The strength associated with the 183-GHz water vapor absorption line makes radiometry in this frequency regime promising for measuring low amounts of PWV. However, retrievals using these frequencies are complicated by the uncertainties in the absorption models and the fact that these frequencies also respond to the vertical temperature distribution as well as liquid and ice clouds. Pacific Northwest National Laboratory and the U.S. Department of Energy (DOE) Atmospheric Radiation Measurement (ARM) Program sponsored National Aeronautics and Space Administration (NASA) Goddard Space Flight Center and National Oceanic and Atmospheric Administration (NOAA) Environmental Technology Laboratory to conduct an experiment to investigate the application of millimeter wave radiometry for making ground-based estimates of PWV during the dry conditions. The data set obtained during this experiment is applicable to assessing the potential limitations of millimeter-wave radiometry to retrieving very low amounts of PWV. The data are also valuable for studying discrepancies in the different absorption models for water vapor, oxygen, and super cooled liquid water. In this paper, an overview of the experiment is presented, a summary of the data collected is given, and single-channel clear-air retrievals are shown.

Elevated atmospheric CO2 induced reductions in litter quality can adversely affect earthworms. However, this understanding is based on laboratory rather than field research and relates to single earthworm and tree species. Here earthworm populations were investigated under Alnus glutinosa, Betula pendula, and Fagus sylvatica in a Free Air Carbon dioxide Enrichment field experiment. Litters from this experiment were also fed to Lumbricus terrestris L. at two rates with live weight change and cast properties assessed. Elevated CO2 (580ppmv) reduced litter N (−12%) with a corresponding increase in C:N ratio, especially for A. glutinosa. In the field, elevated CO2 caused a shift in overall population composition, mainly characterised by reduced anecic biomass (–25%); endogeic and epigeic species were less affected. CO2 effects on total biomass were most pronounced for A. glutinosa (e.g. field total biomass −47% vs. −11% overall). Growth of L. terrestris was lower when fed elevated CO2 litter (−18%), although increased inputs of A. glutinosa litter mitigated this effect. In mesocosms, fresh cast respiration was lower (−14%) for elevated CO2 litter, an effect more pronounced for A. glutinosa (−24%). When normalised for C content, elevated CO2 effects on cast respiration were again negative and most marked for A. glutinosa litter. Litter N concentration, and possibly ease of litter mineralisation were factors affecting litter resource quality Litter N and P concentrations varied with A. glutinosa > B. pendula > F. sylvatica; F. sylvatica had the highest cellulose content. Field earthworm biomass was higher under A. glutinosa compared with B. pendula and F. sylvatica (+17 and +70%, respectively); live weight increased with A. glutinosa litter in the feeding trial almost three times more than for B. pendula, whereas it decreased for F. sylvatica. Cast respiration was highest for A. glutinosa, intermediate for B. pendula (ca. −36%) and lowest for F. sylvatica (ca. −78%). Earthworm responses to elevated CO2 were complex, being characteristic of individual tree and earthworm species; responses were more adverse for trees with higher quality litter and for anecic earthworms.

The discharge of wastewater-derived viruses in aquatic environments impacts catchment-scale virome composition and is a potential hazard to human health. Here, we used viromic analysis of RNA and DNA virus-like particle preparations to track virus communities entering and leaving wastewater treatment plants and the connecting river catchment system and estuary. We found substantial viral diversity and geographically distinct virus communities associated with different wastewater treatment plants. River and estuarine water bodies harboured more diverse viral communities in downstream locations, influenced by tidal movement and proximity to wastewater treatment plants. Shellfish and beach sand were enriched in viral communities when compared with the surrounding water, acting as entrapment matrices for virus particles. We reconstructed >40,000 partial viral genomes into 10,149 species-level groups, dominated by dsDNA and (+)ssRNA bacteriophages (Caudovirales and Leviviridae). We identified 73 (partial) genomes comprising six families that could pose a risk to human health; Astroviridae, Caliciviridae (sapovirus), Picornaviridae (cocksackievirus), Reoviridae (rotavirus), Parvoviridae and Circoviridae. Based on the pattern of viral incidence, we observe that wastewater-derived viral genetic material is commonly deposited in the environment, but due to fragemented nature of these viral genomes, the risk to human health is low, and is more likely driven by community transmission, with wastewater-derived viruses subject to cycles of dilution, enrichment and virion degradation influenced by local geography, weather events and tidal effects. Our data illustrate the utility of viromic analyses for wastewater- and environment-based epidemiology, and we present a conceptual model for the circulation of viruses in a freshwater catchment.

Within months of the COVID-19 pandemic being declared on March 20, 2020, novel, more infectious variants of SARS-CoV-2 began to be detected in geospatially distinct regions of the world. With international travel being a lead cause of spread of the disease, the importance of rapidly identifying variants entering a country is critical. In this study, we utilized wastewater-based epidemiology (WBE) to monitor the presence of variants in wastewater generated in managed COVID-19 quarantine facilities for international air passengers entering the United Kingdom. Specifically, we developed multiplex reverse transcription quantitative PCR (RT-qPCR) assays for the identification of defining mutations associated with Beta (K417N), Gamma (K417T), Delta (156/157DEL), and Kappa (E154K) variants which were globally prevalent at the time of sampling (April to July 2021). The assays sporadically detected mutations associated with the Beta, Gamma, and Kappa variants in 0.7%, 2.3%, and 0.4% of all samples, respectively. The Delta variant was identified in 13.3% of samples, with peak detection rates and concentrations observed in May 2021 (24%), concurrent with its emergence in the United Kingdom. The RT-qPCR results correlated well with those from sequencing, suggesting that PCR-based detection is a good predictor for variant presence; although, inadequate probe binding may lead to false positive or negative results. Our findings suggest that WBE coupled with RT-qPCR may be used as a rapid, initial assessment to identify emerging variants at international borders and mass quarantining facilities. IMPORTANCE With the global spread of COVID-19, it is essential to identify emerging variants which may be more harmful or able to escape vaccines rapidly. To date, the gold standard to assess variants circulating in communities has been the sequencing of the S gene or the whole genome of SARS-CoV-2; however, that approach is time-consuming and expensive. In this study, we developed two duplex RT-qPCR assays to detect and quantify defining mutations associated with the Beta, Gamma, Delta, and Kappa variants. The assays were validated using RNA extracts derived from wastewater samples taken at quarantine facilities. The results showed good correlation with the results of sequencing and demonstrated the emergence of the Delta variant in the United Kingdom in May 2021. The assays developed here enable the assessment of variant-specific mutations within 2 h after the RNA extract was generated which is essential for outbreak rapid response.

The rhizosphere is the most dynamic hotspot of microbial activity in the soil. Despite these dynamics, the spatial pattern of many rhizosphere properties may remain stable because they are continuously reproduced in the changing environment. Low substrate concentration can strongly reduce the rate response of an enzymatic reaction subjected to increased temperature and is recognized as a canceling effect on enzyme temperature sensitivity. Carbon input from rhizodeposits affects C availability in the rhizosphere, and thus the enzyme activities responsible for organic matter decomposition, and their temperature sensitivities, upset the dynamics and stability of biochemical processes in the rhizosphere. However, it is unclear whether a canceling effect occurs in the rhizosphere. We studied temperature effects on chitinase and phosphatase during rice (Oryza sativa L.) growth at 18 and 25 °C. The spatial distribution of enzyme activities was imaged using soil zymography and showed that the overall activities of these enzymes increased with temperature but decreased with rice growth. The temporal dynamics of hotspot areas were enzyme-specific. During growing days 14–30, hotspot areas decreased from 2-2.5% to 0.3–0.5% for chitinase, but increased from 2% to 6–7% for phosphatase. The distribution pattern of both enzymes shifted from being dispersed throughout the soil to being associated with the roots. For the first time, we showed the extent of rhizosphere enzyme activity in paddy soil and demonstrated that it is temporally stationary and independent of temperature. However, the temperature sensitivity of enzyme activities declined radically (Q 10∼1.3–1.4) at the root surface compared to that of bulk soil (Q 10 ∼1). We conclude that the spatio-temporal pattern of rhizosphere enzymatic hotspots is mainly affected by plant growth. High temperature sensitivity (Q 10 > 1) at the root-soil interface for the tested enzymes revealed that warming will lead to faster nutrient mobilization in the rhizosphere than in root-free soil.

Due to the introduction of the European Union Landfill Directive, composting has become a potentially viable disposal route for some organic wastes. As waste-derived compost is frequently added to soil to improve soil quality, it is important to quantify the environmental risk posed by potentially toxic elements contained within it. Here we used a sequential chemical extraction procedure to investigate the temporal dynamics of heavy metals (Cu, Zn, Pb and Ni) during the co-composting of biosolids, deinking paper fibre and green waste. Overall, composting over 26weeks reduced the availability of Ni, had no effect on Pb and slightly increased the availability of Cu and Zn. We conclude that although the total Cu and Ni concentrations in the compost exceed legislative guidelines for land application, due to their recalcitrant nature within the compost, this compost posed very little threat to soil or plant quality if used in agriculture or land restoration.