Strengths and weaknesses of microarray approaches to detect Pseudo-nitzschia species in the field

The planktonic diatom genus Pseudo-nitzschia contains several genetically closely related species. Some of these can produce domoic acid, a potent neurotoxin. Thus, monitoring programs are needed to screen for the presence of these toxic species. Unfortunately, many are impossible to distinguish using light microscopy. Therefore, we assessed the applicability of microarray technology for detection of toxic and non-toxic Pseudo-nitzschia species in the Gulf of Naples (Mediterranean Sea). Here, 11 species have been detected, of which at least 5 are potentially toxic. A total of 49 genus- and species-specific DNA probes were designed in silico against the nuclear LSU and SSU rRNA of 19 species, and spotted on the microarray. The microarray was tested against total RNA of monoclonal cultures of eight species. Only three of the probes designed to be species-specific were indeed so within the limits of our experimental design. To assess the effectiveness of the microarray in detecting Pseudo-nitzschia species in environmental samples, we hybridized total RNA extracted from 11 seasonal plankton samples against microarray slides and compared the observed pattern with plankton counts in light microscopy and with expected hybridization patterns obtained with monoclonal cultures of the observed species. Presence of species in field samples generally resulted in signal patterns on the microarray as observed with RNA extracted from cultures of these species, but many a-specific signals appeared as well. Possible reasons for the numerous cross reactions are discussed. Calibration curves for Pseudo-nitzschia multistriata showed linear relationship between signal strength and cell number.     

Biologic impact on the coastal belt of the province of Venice (Italy,Northern Adriatic Sea): preliminary analysis for the characterization of the bathing water profile

Background, aim and scope  

This paper presents a preliminary study of the water profile with reference to microbiological parameters, required by Directive 2006/07/EC (European Community 2006) concerning the management of bathing water quality, in the coastal belt of the Province of Venice (Italy, Northern Adriatic Sea). A historical database has been implemented with monitoring data for the period 2000–2006 (data on rivers, bathing and marine coastal waters and on the characterization of Wastewater Treatment Plant (WWTP) discharges) from the institutional activity of Veneto Regional Environmental Prevention and Protection Agency (ARPAV). An integrated areal analysis for the microbiological investigation of homogeneous stretches along the coast of the Province of Venice was performed for a preliminary characterization of the bathing water profile considering water quality status and existing pressure sources.     

The dissemination of antibiotic resistance in various environmental objects (Russia)

Environmental objects (surface and groundwater, soil, bottom sediments, wastewater) are reservoirs in which large-scale multidirectional exchange of determinants of antibiotic resistance between clinical strains and natural bacteria takes place. The review discusses the results of studies on antibiotic-resistant bacteria (ARB) and antibiotic resistance genes (ARG) isolated from environmental objects (water, soil, sewage, permafrost) of the Russian Federation. Despite the relevance of the topic, the number of available publications examining the resistomes of Russian water bodies and soils is small. The most studied environmental objects are surface waters (rivers, lakes), permafrost deposits. Soil resistomes are less studied. Data on ARG and ARB in wastewater are the least covered in publications. In most of the studies, antibiotic resistance of isolated pure bacterial cultures was determined phenotypically. A significant number of publications are devoted to the resistance of natural isolates of Vibrio cholerae, since the lower reaches of the Volga and Don rivers are endemic to cholera. Molecular genetic methods were used in a small number of studies. Geographically, the south of the European part of Russia is the most studied. There are also publications on the distribution of ARG in water bodies of Siberia and the Russian Far East. There are practically no publications on such developed regions of Russia as the center and northwest of the European part of Russia. The territory of the country is very large, anthropogenic and natural factors in its various regions vary significantly; therefore, it seems interesting to combine all available data in one work.

     

Decomposition of hexamethylcyclotrisiloxane over solid oxides

The decomposition of hexamethylcyclotrisiloxane (HMCTS) has been studied at room temperature and in the range 473-673 K over the surface of basic (CaO, MgO) and acidic oxides (Al(2)O(3), SiO(2)). Alumina allows the complete removal of HMCTS from synthetic biogases at 673 K. A reactive adsorption occurs with surface silication and release of methane. The adsorption capacity of our alumina adsorbent (180 m(2) g(-1)), until saturation, at 673 K, is 0.31 g((HMCTS))g((Al2O3))(-1), which corresponds to one silicon atom per 9 A(2), i.e. the silication monolayer capacity. On the contrary, silica, which is an excellent adsorbent for siloxanes at room temperature, looses its adsorption ability at high temperature as it is typical of a molecular adsorption behavior. Basic oxides such as MgO and CaO have strong reactivity in decomposing siloxanes in the absence of CO(2), but loose reactivity when in contact with carbon dioxide because of surface carbonation.     

Modelling tritium and phosphorus transport by preferential flow in structured soil

Subsurface solute transport through structured soil is studied by model interpretation of experimental breakthrough curves from tritium and phosphorus tracer tests in three intact soil monoliths. Similar geochemical conditions, with nearly neutral pH, were maintained in all the experiments. Observed transport differences for the same tracer are thus mainly due to differences in the physical transport process between the different monoliths. The modelling is based on a probabilistic Lagrangian approach that decouples physical and chemical mass transfer and transformation processes from pure and stochastic advection. Thereby, it enables explicit quantification of the physical transport process through preferential flow paths, honouring all independently available experimental information. Modelling of the tritium breakthrough curves yields a probability density function of non-reactive solute travel time that is coupled with a reaction model for linear, non-equilibrium sorption–desorption to describe the phosphorus transport. The tritium model results indicate that significant preferential flow occurs in all the experimental soil monoliths, ranging from 60–100% of the total water flow moving through only 25–40% of the total water content. In agreement with the fact that geochemical conditions were similar in all experiments, phosphorus model results yield consistent first-order kinetic parameter values for the sorption–desorption process in two of the three soil monoliths; phosphorus transport through the third monolith cannot be modelled because the apparent mean transport rate of phosphorus is anomalously rapid relative to the non-adsorptive tritium transport. The occurrence of preferential flow alters the whole shape of the phosphorus breakthrough curve, not least the peak mass flux and concentration values, and increases the transported phosphorus mass by 2–3 times relative to the estimated mass transport without preferential flow in the two modelled monoliths.     

Towards better water governance in river basins: some lessons learned from the Volga

This article focuses on the problems of water governance at a river basin level, and on the role of institutional coordination, participation and partnerships between multiple stakeholders towards sustainable water management. Its approach presupposes that institutional capacity building, strengthening coordination between government institutions (vertical and horizontal), on the one hand, and broadening participation and consolidating partnerships between public, private and civil society actors, on the other hand, is among effective tools in integrated water resource management in river basins. It explores environmental challenges, problems, emerging trends and recent institutional innovations in the Volga basin in Russia—the largest river basin in Europe. Transfer and adaptation of good practices in good water governance between the EU and Russia are discussed. This article presents some research findings and lessons learned from practice by the EC international project ‘CABRI—Cooperation along a big river: Institutional coordination among stakeholders for environmental risk management in the Volga basin’, which is assessed as one of the selected success stories of the European research.’     

Prenatal diagnosis of Crigler–Najjar syndrome type I by single-strand conformation polymorphism (SSCP)

Crigler–Najjar syndrome type I (CN-I) is a rare and severe inherited disorder of bilirubin metabolism, caused by the total deficiency of bilirubin-UDP-glucuronosyltransferase (UGT) activity. Enzymatic diagnosis cannot be performed in chorionic villi or amniocytes as UGT is not active in these tissues. The cloning of the UGT1 gene and the identification of disease-causing mutations have led to the possibility of performing DNA-based diagnosis. Here we report DNA-based prenatal diagnosis of CN-I in two Tunisian families in whom CN-I patients were diagnosed. As we had previously shown that CN-I was, in Tunisia, associated with homozygosity for the Q357R mutation within the UGT1 gene, we were able to detect this mutation in both families and to show that it was easily recognized by single-strand conformation polymorphism (SSCP) analysis. In both cases, SSCP analysis of fetal DNA showed that the fetus was heterozygous for the Q357R mutation. In one family, the pregnancy was carried to term and a healthy baby was born, whereas, in the other family, the pregnancy is still continuing. Thus the prenatal diagnosis of CN-I is possible, provided disease-causing mutations have been identified. SSCP analysis of DNA prepared either from amniocytes or from chorionic villi is a simple, reliable and fast method for prenatal diagnosis. Copyright © 2002 John Wiley & Sons, Ltd.     

Age dependence of potentially toxic elements (Sb,Cd, Pb,Ag) in human liver tissue from paediatric subjects

Toxic elements are present at low concentrations in the environment. This work was undertaken to investigate the age dependence of the liver content of selected elements in paediatric populations, as an index of internal exposure. Liver samples were collected at autopsy from 157 subjects, aged < 1 day to 6 years, as part of investigations on a possible role of Sb compounds in sudden infant death syndrome (SIDS). In addition to Sb, the concentrations of Ag, Cd and Pb were also determined by inductively coupled plasma mass spectrometry on the remaining digest. Comparison of 95% confidence intervals of the median concentrations of the four elements suggested that there were no differences between the two categories of cause of death, SIDS or those who had died of an identified disease. Cadmium, lead and antimony median concentrations were lower than corresponding values observed in adult populations. Silver concentrations were significantly higher at birth and decreased with age. Cadmium levels were almost negligible in neonates and infants, but increased in older children. The finding of non-negligible concentrations of both Ag and Pb in neonatal liver provides further direct evidence that these elements cross the human placental barrier. The reported data, by far the largest collection observed in subjects less than 1 year old, are the result of exposure, during pregnancy and in early childhood, to present levels of these elements in the environment. They can serve as a reference to compare post-mortem values from individuals or groups of subjects in this age range when an exposure risk is suspected and to highlight trends in human exposure.     

Interview with the mayor of Curitiba on habitat II

The objectives of Habitat II were (1) in the long term to arrest the deterioration of human settlements and create the conditions to achieve improvement in the environment on a sustainable basis, and (2) to adopt a general statement on principles and related Global Action Plan to guide national and international efforts in the next two decades. We have asked the Mayor of Curitiba, Brazil Rafael Greca de Macedo to comment on the conference results. Curitiba is one of the most known example of urban ecological planning.