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.     

Impact of wastewater treatment plant discharge of lidocaine, tramadol, venlafaxine and their metabolites on the quality of surface waters and groundwater

The presence of the anesthetic lidocaine (LDC), the analgesic tramadol (TRA), the antidepressant venlafaxine (VEN) and the metabolites O-desmethyltramadol (ODT) and O-desmethylvenlafaxine (ODV) was investigated in wastewater treatment plant (WWTP) effluents, in surface waters and in groundwater. The analytes were detected in all effluent samples and in only 64% of the surface water samples. The mean concentrations of the analytes in effluent samples from WWTPs with wastewater from only households and hospitals were 107 (LDC), 757 (TRA), 122 (ODT), 160 (VEN) and 637 ng L(-1) (ODV), while the mean concentrations in effluents from WWTPs treating additionally wastewater from pharmaceutical industries as indirect dischargers were for some pharmaceuticals clearly higher. WWTP effluents were identified as important sources of the analyzed pharmaceuticals and their metabolites in surface waters. The concentrations of the compounds found in surface waters ranged from 相似文献   

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.     

Attribution of Carbon Dioxide Fluxes to Crop Types in a Heterogeneous Agricultural Landscape of Argentina

The increasing proportion of agricultural lands worldwide makes it necessary to intensify the research concerning the carbon exchange at agricultural sites. In order to determine the Net Ecosystem Exchange (NEE) in an agricultural landscape in the province of Buenos Aires, Argentina, we carried out eddy covariance measurements with a flux tower, which was placed between two agricultural fields. Therefore, the measured CO₂ flux represents the accumulated flux from both areas, i.e., from different crop types. We here present an analysis method which attributes the flux to the two crop types. For this analysis, we applied the Hsieh footprint model to identify the contributing source area to the flux measurement. We then applied a multiple regression analysis to calculate the NEE in the growing season 2011/2012 for each field separately. The pronounced differences in the time courses of the CO₂ fluxes in the two fields can be explained by the different sowing times and different growth stages of both cultivations. The time courses furthermore show that the CO₂ uptake of the plants was strongly affected by the drought which lasted from December 2011 to January 2012. For the growth cycle of maize (216 days), the NEE was ?240 g C m^?2 and for the growth cycle of soybean (154 days) ?231 g C m^?2. In order to obtain the NEE of a complete agricultural cycle (from harvest to harvest), we also considered the NEE of autumn and winter 2011. Uncertainties of the spatially partitioned NEE are quantified and discussed.     

Biomonitoring of polychlorinated biphenyls (PCBs) in heavily polluted aquatic environment in different fish species

The distribution and concentrations of polychlorinated biphenyls (PCBs) were determined in fish species (European perch Perca fluviatilis, northern pike Esox lucius, pike perch Sander lucioperca, wels catfish Silirus glanus, common carp Cyprinus carpio, European eel Anguilla anguilla, freshwater bream Abramis brama, goldfish Carassius auratus, and roach Rutilus rutilus) in a heavily polluted water reservoir Zemplínska ?írava (Slovakia). The study performed at two different time points 5?years apart (2004 and 2009) revealed serious PCB contamination of fish muscle tissue and significant interspecies as well as tissue-specific differences in PCB uptake by fish. Total PCBs broadly correlated with the trophic position of individual fish species within a food chain (P??0.05). The study has shown that the kind of fish, its feeding habit, and specific conditions of the habitat are mutually interrelated factors that are responsible for significant variations in fish body burdens. A tendency to PCB biomagnification was also proved in some fish species of this water reservoir.     

Large and mesoscale meteo-oceanographic patterns in local responses of biogeochemical concentrations

Investigations surrounding the variability of productivity in upwelling regions are necessary for a better understanding the physical-biological coupling in these regions by monitoring systems of environmental impacts according to the needs of the regional coastal management. Using a spatial and temporal database from National Centers for Environmental Prediction (NCEP) and National Center for Atmospheric (NCAR) Research reanalysis, Quick Scatterometer vector wind, and surface stations from the Southeast coast of Brazil, we investigate the meteorological influences due to the large-scale systems in the variability of the nutrient and larvae concentration, and chlorophyll a, describing statistically relationships between them in upwelling regions. In addition, we used multivariate analysis, such as PCA and clustering to verify spatial and temporal variances and describe more clear the structure and composition of the ecosystem. Correlation matrix analyses were applied for different water masses present in the study area to identify the relations between physical and biogeochemical parameters in a region, where frequently upwelling occur. Statistical approaches and seasonal variability show that the period of November to March is more sensitive to nutrients (1.20?mg/m(3) for chlorophyll a, 2.20?μmol/l for total nitrogen and 5.5?ml/l for DO) and larvae concentrations (120 org/m(3) for most of the larvae, except for cirripedia that presented values around 370 org/m(3)) relating to the influence of large and mesoescale meteorological patterns. The spatial and temporal variables analyzed with multivariate approach show meaningful seasonality variance of the physical and biological samples, characterizing the principal components responsible for this variance in spring and summer (upwelling period), emphasizing the monitoring of species as crustaceans and mussels that are present in the local economy. Then, the spring and summer season are characterized by high productivity due to the occurrence of upwelling in this period.     

A methodology to identify representative configurations of sensors for monitoring soil moisture

Soil moisture is the key link among hydroecological compartments, responding dynamically to sequences of atmospheric processes and management conditions and modulating physical, chemical, and biological processes in the soil. Currently, there are a variety of monitoring techniques to measure, directly or indirectly, the soil moisture. However, some practical issues remain open like the definition a priori of the number, location and depth of the monitoring points, and the impact of failing or poor performance soil moisture sensors. Here, we present a set of techniques, namely Δθ time series, wavelet filtering, and time stability, to identify representative points and monitoring depths through an analysis of hourly soil moisture time series for different configuration of the monitoring network. We used real data from a monitoring network consisting of seven monitoring points, each one with four EC-5 probes (Decagon Devices Inc., Pullman, WA) at 20, 40, 60, and 100?cm. The use of simple time series of Δθ allowed us to assess the spatiotemporal influence of the monitoring points, while the wavelet periodograms allowed us to get insight about the response of the monitoring points at different time scales. Both methods are easy to implement or adapt to specific conditions, being coherent to the results derived from time stability analysis. For our case study, we concluded that we could reallocate 16 sensors (out of 28) without a significant loss of information. However, the final decision strongly relies on a deep knowledge of the site features and the objectives of the monitoring network.     

Potential effects on the marine environment of dredging of the Bonny channel in the Niger Delta

This study is an assessment of the possible effects of the dredging project on the water quality of the surrounding environment. Water quality data for the Bonny offshore river were collected. The parameters assessed were temperature, dissolved oxygen (DO), pH, biochemical oxygen demand (BOD), total dissolved solids (TDS), total suspended solids (TSS), nitrogen as nitrate, and phosphate. The concentrations of TDS, TSS, and nitrate far exceeded the permissible standard. There were significant differences between the dry and rainy season values of BOD5, TDS, TSS, nitrate, and phosphate. Also, the sediment physicochemical analysis indicated the presence of heavy metals such as Pb, Fe, Cd, Zn, Cr, and elements such as Ca, K, and Na. Following an assessment of the potential impact of the project using interaction matrix and checklist questionnaires, results showed that the major physicochemical parameters influenced by dredging are DO, TDS, TSS, heavy metals and calcium, potassium, and sodium. Mitigation measures for eliminating or reducing the negative impacts of dredging are presented.     

Groundwater contamination evolution in the Guadiamar and Agrio aquifers after the Aznalcóllar spill: assessment and environmental implications

In 1998, the Agrio and Guadiamar rivers underwent an enormous environmental disaster caused by the rupture of the Aznalcóllar tailings dam and the release of 6 hm³ of pyrite sludge and acidic water. Both rivers run over recent alluvial materials which form a small-sized aquifer which is however important because underground water feeds the flow of the rivers. This work analyzes the state of groundwater 10 years after the spill. Before the dam failure, this aquifer was already contaminated in the zone nearest to the mine, to which the impact of the spill was added. Contamination levels in the alluvial aquifer of the Agrio River have decreased remarkably. However, they are still important, with acidic pH values and high concentrations of toxic elements (maximum values of 16 mg/L of Zn and 15 mg/L of Al). There are also important levels of contamination in the Guadiamar alluvial area closest to the mine, as well as in specific zones located further south. The concentration of toxic elements is mainly controlled by pH. The evolution of contaminant levels show a sharp decrease after the first years following the spill, followed by a subsequent stabilization. It is necessary to take measures for the recovery of the aquifer because, otherwise, groundwater will continue contributing contaminants into the Agrio and Guadiamar rivers.     

Tidally driven N, P, Fe and Mn exchanges in salt marsh sediments of Tagus estuary (SW Europe)

Short-sediment cores and flooding water were collected at 0, 5, 15, 25 and 50?min of tidal inundation in the two sites colonised by pure stands of Spartina maritima (low marsh) and Sarcocornia fruticosa (high marsh) from the Rosário salt marsh (Tagus estuary, SW Europe). Concentrations of NH (4) (+) , NO (3) (-) +?NO (2) (-) and HPO (4) (2-) , Fe and Mn were measured in tidal flooding water and pore water. Flooding water is enriched in nutrients, particularly ammonium due to local discharge of untreated urban effluents. Nevertheless, NH (4) (+) and NO (3) (-) +?NO (2) (-) concentrations in flooding waters at t?=?5?min (NH (4) (+) =?246?±?7?μM, NO (3) (-) +?NO (2) (-) =?138?±?1?μM for S. fruticosa and NH (4) (+) =?256?±?8?μM, NO (3) (-) +?NO (2) (-) =?138?±?1?μM for S. maritima) rose sharply at both vegetated sites. An increase was also registered for HPO (4) (2-) and total dissolved Fe although the subsequent decrease was smoother. Advective transport induced by the two daily pulses of inundation is several orders of magnitude higher than the diffusive fluxes during submerged periods. In addition, solutes are exported from the sediment with the inundation and imported in submerged periods. The exported amount of inorganic nitrogen during tidal inundation (export of 3,200?μmol?N?m(-2)?day(-1)to the water column), is not counterbalanced by the sink of -290?μmol?N?m(-2)?day(-1) occurred during the submerged period.