Fragmentation of extracellular DNA by long-term exposure to radiation from uranium in aquatic environments

Persistent harmful scenarios associated with disposal of radioactive waste, high-background radiation areas and severe nuclear accidents are of great concern regarding consequences to both human health and the environment. Of particular concern is the extracellular DNA in aquatic environments contaminated by radiological substances. Strand breaks induced by radiation promote decrease in the transformation efficiency for extracellular DNA. The focus of this study is the quantification of DNA damage following long-term exposure (over one year) to low doses of natural uranium (an alpha particle emitter) to simulate natural conditions, since nothing is known about alpha radiation induced damage to extracellular DNA. A high-resolution Atomic Force Microscope was used to evaluate DNA fragments. Double-stranded plasmid pBS as a model for extracellular DNA was exposed to different amounts of natural uranium. It was demonstrated that low concentrations of U in water (50 to 150 ppm) produce appreciable numbers of double strand breaks, scaling with the square of the average doses. The importance of these findings for environment monitoring of radiological pollution is addressed.     

Utilizing pyrosequencing and quantitative PCR to characterize fungal populations among house dust samples

Molecular techniques are an alternative to culturing and counting methods in quantifying indoor fungal contamination. Pyrosequencing offers the possibility of identifying unexpected indoor fungi. In this study, 50 house dust samples were collected from homes in the Yakima Valley, WA. Each sample was analyzed by quantitative PCR (QPCR) for 36 common fungi and by fungal tag-encoded flexible (FLX) amplicon pyrosequencing (fTEFAP) for these and additional fungi. Only 24 of the samples yielded amplified results using fTEFAP but QPCR successfully amplified all 50 samples. Over 450 fungal species were detected by fTEFAP but most were rare. Twenty-two fungi were found by fTEFAP to occur with at least an average of ≥0.5% relative occurrence. Many of these fungi seem to be associated with plants, soil or human skin. Combining fTEFAP and QPCR can enhance studies of fungal contamination in homes.     

Foraminiferal biotopes and their distribution control in Ria de Aveiro (Portugal): a multiproxy approach

Ria de Aveiro, which is located in the centre of Portugal (40° 38′ N, 8° 45′ W), is a well-mixed and complex coastal lagoon that is separated from the sea by a sandy barrier and connects with the Atlantic through an artificial inlet. Tidal currents are the main factor controlling the lagoon’s hydrodynamics and, to a great extent, the sedimentary dynamic. The inner lagoonal zones receive input from several rivers and experience the pressure caused by the accumulation of organic matter and pollutants (namely, trace metals) from diverse anthropic activities. This paper is the first piece of work aiming to recognize, characterize and explain the main benthic foraminiferal biotopes in Ria de Aveiro. To provide a broad overview of this kind of setting, our results are compared to those of previous published studies conducted in similar transitional environments. The research is based on an investigation of 225 sites spread throughout this ecosystem. Utilizing a statistical approach, this study analyses the details of dead benthic foraminiferal assemblages composed of 260 taxa, the texture and composition (mineralogical and geochemical) of the sediment and physicochemical data. On the basis of the results of R-mode and Q-mode cluster analyses, several different biotopes can be defined as marsh biotope/near-marsh biotope; marginal urban/marginal urban mixing biotope; inner-outer lagoon biotope or enclosed lagoon; outer lagoon biotope, mixed sub-biotope; and outer lagoon, marine sub-biotope. These biotopes are related to foraminifera assemblages and substrate type and are influenced by local currents, water depth, chemical and physicochemical conditions, river or oceanic proximity, and anthropogenic impact, as evidenced by the mapping of the six factor loadings of the principal component analysis conducted herein. Based on a similar methodology of analysis as that applied in previous studies in the Lagoon of Venice, comparable biotypes were identified in Lagoon of Aveiro.     

Monitoring fish distributions along electrofishing segments

Electrofishing is widely used to monitor fish species composition and relative abundance in streams and lakes. According to standard protocols, multiple segments are selected in a body of water to monitor population relative abundance as the ratio of total catch to total sampling effort. The standard protocol provides an assessment of fish distribution at a macrohabitat scale among segments, but not within segments. An ancillary protocol was developed for assessing fish distribution at a finer scale within electrofishing segments. The ancillary protocol was used to estimate spacing, dispersion, and association of two species along shore segments in two local reservoirs. The added information provided by the ancillary protocol may be useful for assessing fish distribution relative to fish of the same species, to fish of different species, and to environmental or habitat characteristics.     

Water chemistry in 179 randomly selected Swedish headwater streams related to forest production,clear-felling and climate

From a policy perspective, it is important to understand forestry effects on surface waters from a landscape perspective. The EU Water Framework Directive demands remedial actions if not achieving good ecological status. In Sweden, 44 % of the surface water bodies have moderate ecological status or worse. Many of these drain catchments with a mosaic of managed forests. It is important for the forestry sector and water authorities to be able to identify where, in the forested landscape, special precautions are necessary. The aim of this study was to quantify the relations between forestry parameters and headwater stream concentrations of nutrients, organic matter and acid-base chemistry. The results are put into the context of regional climate, sulphur and nitrogen deposition, as well as marine influences. Water chemistry was measured in 179 randomly selected headwater streams from two regions in southwest and central Sweden, corresponding to 10 % of the Swedish land area. Forest status was determined from satellite images and Swedish National Forest Inventory data using the probabilistic classifier method, which was used to model stream water chemistry with Bayesian model averaging. The results indicate that concentrations of e.g. nitrogen, phosphorus and organic matter are related to factors associated with forest production but that it is not forestry per se that causes the excess losses. Instead, factors simultaneously affecting forest production and stream water chemistry, such as climate, extensive soil pools and nitrogen deposition, are the most likely candidates The relationships with clear-felled and wetland areas are likely to be direct effects.     

Wasteload Allocation Using Wastewater Treatment and Flow Augmentation

A Wasteload allocation model, named Cost-Flow-Augmentation Model involving wastewater treatment and flow augmentation as a method of pollution abatement has been developed. The cost functions for wastewater treatment were developed as power functions of biochemical oxygen demand (BOD) removal using the regression module of the SPSS10 software. The cost function for flow augmentation was also developed using a regression between cost of dam/barrage and corresponding flow released from upstream reservoir for downstream water quality improvement. The response of wasteloads and flow augmentation on the water quality was quantified in terms of transfer coefficient calculated using the QUAL2E water quality simulation model. The performance of these models is demonstrated on the 22-km-long Delhi stretch of river Yamuna, India. Optimal solutions of the formulated models were obtained using the Web-based interactive non-differentiable interactive multiobjective bundle-based optimization system software. The optimal solutions obtained reveal that flow augmentation is not an economically feasible pollution abatement option for the Delhi stretch of river Yamuna.     

A survey on the utility of the USEPA CADDIS stressor identification procedure

The Environmental Protection Agency (EPA) has made available on the worldwide web a systematic stream stressor identification procedure, the “Causal Analysis/Diagnosis Decision Information System” or CADDIS. We report here the results of a survey of regulators and scientists in 11 states who use CADDIS or another stressor identification procedure in their work. The 13 survey questions address guidelines as to what impairment scenarios to approach with stressor identification, what information is needed to perform stressor identification, and what the stakeholder role is in performing stressor identification. At the time of this survey (the summer of 2009), the EPA CADDIS website was less commonly used among the state regulators surveyed than the published EPA stressor identification document on which it is based. The respondents generally find the EPA stressor identification procedure useful and capable of being adapted to their individual needs. Survey respondents all use stressor identification in their Total Maximum Daily Load work, but also in a wide variety of other applications. All the “types of evidence” included in the CADDIS stressor identification procedure are used by the practitioners surveyed with the exception of the results of ecological simulation models. While the CADDIS documentation encourages the involvement of stakeholders in stressor identification, most respondents do not assemble stakeholder teams of local officials and citizens to participate in stressor analyses.     

Metals in water, sediments, and biota of an offshore oil exploration area in the Potiguar Basin, Northeastern Brazil

Metal concentrations were evaluated in water, bottom sediments, and biota in four field campaigns from 2002 to 2004 in the Potiguar Basin, northeastern Brazil, where offshore oil exploration occurs. Analyses were performed by inductively coupled plasma mass spectrometry and inductively coupled plasma optical emission spectrometry. Total metal concentrations in water (dissolved?+?particulate) and sediments were in the range expected for coastal and oceanic areas. Abnormally high concentrations in waters were only found for Ba (80 μg?l^?1) and Mn (12 μg?l^?1) at the releasing point of one of the outfalls, and for the other metals, concentrations in water were found in stations closer to shore, suggesting continental inputs. In bottom sediments, only Fe and Mn showed abnormal concentrations closer to the effluent releasing point. Metal spatial distribution in shelf sediments showed the influence of the silt–clay fraction distribution, with deeper stations at the edge of the continental shelf, which are much richer in silt–clay fraction showing higher concentrations than shallower sediments typically dominated by carbonates. Metal concentrations in estuarine (mollusks and crustaceans) and marine (fish) organisms showed highest concentrations in oysters (Crassostrea rhizophorae). Fish tissues metal concentrations were similar between the continental shelf influenced by the oil exploration area and a control site. The results were within the range of concentrations reported for pristine environments without metals contamination. The global results suggest small, if any, alteration in metal concentrations due to the oil exploration activity in the Potiguar Basin. For monitoring purposes, the continental inputs and the distribution of the clay–silt fraction need to be taken into consideration for interpreting environmental monitoring results.     

Analysis of long-term water quality for effective river health monitoring in peri-urban landscapes—a case study of the Hawkesbury–Nepean river system in NSW, Australia

The Hawkesbury–Nepean River (HNR) system in South-Eastern Australia is the main source of water supply for the Sydney Metropolitan area and is one of the more complex river systems due to the influence of urbanisation and other activities in the peri-urban landscape through which it flows. The long-term monitoring of river water quality is likely to suffer from data gaps due to funding cuts, changes in priority and related reasons. Nevertheless, we need to assess river health based on the available information. In this study, we demonstrated how the Factor Analysis (FA), Hierarchical Agglomerative Cluster Analysis (HACA) and Trend Analysis (TA) can be applied to evaluate long-term historic data sets. Six water quality parameters, viz., temperature, chlorophyll-a, dissolved oxygen, oxides of nitrogen, suspended solids and reactive silicates, measured at weekly intervals between 1985 and 2008 at 12 monitoring stations located along the 300 km length of the HNR system were evaluated to understand the human and natural influences on the river system in a peri-urban landscape. The application of FA extracted three latent factors which explained more than 70 % of the total variance of the data and related to the ‘bio-geographical’, ‘natural’ and ‘nutrient pollutant’ dimensions of the HNR system. The bio-geographical and nutrient pollution factors more likely related to the direct influence of changes and activities of peri-urban natures and accounted for approximately 50 % of variability in water quality. The application of HACA indicated two major clusters representing clean and polluted zones of the river. On the spatial scale, one cluster was represented by the upper and lower sections of the river (clean zone) and accounted for approximately 158 km of the river. The other cluster was represented by the middle section (polluted zone) with a length of approximately 98 km. Trend Analysis indicated how the point sources influence river water quality on spatio-temporal scales, taking into account the various effects of nutrient and other pollutant loads from sewerage effluents, agriculture and other point and non-point sources along the river and major tributaries of the HNR. Over the past 26 years, water temperature has significantly increased while suspended solids have significantly decreased (p?<?0.05). The analysis of water quality data through FA, HACA and TA helped to characterise the key sections and cluster the key water quality variables of the HNR system. The insights gained from this study have the potential to improve the effectiveness of river health-monitoring programs in terms of cost, time and effort, particularly in a peri-urban context.     

A geographical approach to tracking Escherichia coli and other water quality constituents in a Texas coastal plains watershed

Diffuse sources of surface water pathogens and nutrients can be difficult to isolate in larger river basins. This study used a geographical or nested approach to isolate diffuse sources of Escherichia coli and other water quality constituents in a 145.7-km² river basin in south central Texas, USA. Average numbers of E. coli ranged from 49 to 64,000 colony forming units (CFU) per 100 mL depending upon season and stream flow over the 1-year sampling period. Nitrate-N concentrations ranged from 48 to 14,041 μg?L^?1 and orthophosphate-P from 27 to 2,721 μg?L^?1. High concentrations of nitrate-N, dissolved organic nitrogen, and orthophosphate-P were observed downstream of waste water treatment plants but E. coli values were higher in a watershed draining an older part of the city. Total urban land use explained between 56 and 72 % of the variance in mean annual E. coli values (p?<?0.05) in nine hydrologically disconnected creeks. Of the types of urban land use, commercial land use explained most of the variance in E. coli values in the fall and winter. Surface water sodium, alkalinity, and potassium concentrations in surface water were best described by the proportion of commercial land use in the watershed. Based on our nested approach in examining surface water, city officials are able to direct funding to specific areas of the basin in order to mitigate high surface water E. coli numbers and nutrient concentrations.