Adjusting the effect of seasonal variability in the bioassessment of streams

Bioassessment tools should distinguish between the effects of anthropogenic degradation in communities and natural temporal changes. The present study tests the influence of natural seasonal variability on macroinvertebrate stream communities assessed by a predictive model (PORTRIV) and a multimetric index (IPtI) calibrated for spring. The scores of PORTRIV decreased significantly between spring and autumn, and between spring and winter (ca. 37 to 53 %, respectively), while those of IPtI did not change significantly between seasons. For non-reference samples, the results of the predictive model also indicate no significant differences. A correction factor (CF) was calculated to adjust the existing differences in the model assessments between seasons, based on the percentage of variation of reference site scores from spring to autumn and winter. After the application of the CF to the OE50 scores of spring reference samples, the differences were no longer significant. Independent reference validation sites confirmed this tendency. This method has the advantage of avoiding large efforts required for the construction of databases from other seasons and the development of new models to allow the assessment of streams in seasons other than spring. Further tests with models developed in regions with more marked seasonal changes should be done to confirm its wider applicability.     

Arsenic speciation for the phytoremediation by the Chinese brake fern, Pteris vittata

Arsenic (As) speciation for the phytoremediation by the Chinese brake fern was studied. In particular, the mechanism of how plants induce compounds containing thiol (SH) and proteins by As exposure in terms of the relationship between As and phosphate uptaken into plant cells was examined. Pteris vittata callus could efficiently reduce As(V) to As(III) by the rapid introduction of reductase and synthesize thiols leading to phytochelatins production. Furthermore, Pteris vittata could control phosphate concentration in the cells corresponding to the concentration of arsenite and arsenate. To our best knowledge, this is the first report to show the mechanisms of such high As tolerance of Pteris vittata using their callus in terms of in vitro approach for the analysis of As speciation and metabolism route.     

Field-breeding birds on organic and conventional arable farms in the Netherlands

In this study territory densities of field-breeding farmland birds were compared on pairwise-selected organic and conventional arable farms for two years. Differences in territory densities between the two farm types were explained examining the effects of three factors on territory densities: (1) non-crop habitats, (2) crop types and (3) within-crop factors. In both years, densities of most species did not differ between organic and conventional farms. Only skylark and lapwing were more abundant on organic farms, but only skylarks showed a consistent pattern over both years. Differences in crop types grown between the two systems were the only explaining factor for differences in densities of skylark. For lapwing, the difference was only partly due to differences in crop type, but differences in within-crop factors (probably as a result of crop management) were likely to have had an effect as well. There were no significant differences in abundance of non-crop habitats between the two farming systems, so this could not explain differences in territory densities.     

Socioeconomic potential of carbon sequestration through agroforestry in the West African Sahel

The recognition of agroforestry as a greenhouse-gas mitigation strategy under the Kyoto Protocol to the United Nations Framework Convention on Climate Change (UNFCCC) offers an opportunity to agroforestry practitioners to benefit from the global Carbon (C) credit market. Our knowledge on this important topic from the semiarid regions such as the West African Sahel (WAS) is, however, very limited. In order to fill this gap, this study was undertaken in the Ségou region of Mali (annual temperature, 29°C; annual rainfall, 300–700 mm in 60 to 90 days), focusing on two improved agroforestry systems (live fence and fodder bank) along with traditional parkland agroforestry systems of the region. A cost–benefit analysis was conducted to assess the economic profitability and risks associated with the systems considering them as 25-year projects and their potential for participation in C credit market. The traditional systems had high C stock in their biomass and soil, but little potential for sequestering additional C; on the other hand, the improved systems had low C stock, but high sequestration potential. For the standard size live fence (291 m) and fodder bank (0.25 ha) projects, the estimated net present values (NPV) were $ 96.0 and $158.8 without C credit sale, and $109.9 and $179.3 with C sale, respectively. From the C sale perspective, live fence seemed less risky and more profitable than fodder bank. Carbon credit sale is likely to contribute to economic development of the subsistence farmers in the WAS.

Runoff and sediment losses from 27 upland catchments in Southeast Asia: Impact of rapid land use changes and conservation practices

Rapid changes in upland farming systems in Southeast Asia generated predominantly by increased population pressure and ‘market forces’ have resulted in widespread land degradation that has been well documented at the plot scale. Yet, the links between agricultural activities in the uplands and downstream off-site effects remain largely unknown because of the difficulties in transferring results from plots to a larger scale. Many authors have thus pointed out the need for long-term catchment studies. The objective of this paper is to summarize the results obtained by the Management of Soil Erosion Consortium (MSEC) over the last 5 years from 27 catchments in five countries (Indonesia, Laos, Philippines, Thailand, and Vietnam). The purpose of the study was to assess the impacts of cultivation practices on annual runoff and erosion rates. Initial surveys in each catchment included topography, soils and land use. Monitoring included climatic, hydrologic and erosion (total sediment yield including bed load and suspended sediment load) data, land use and crop yields, and farmers’ income. In addition, new land management options were introduced through consultations with farmers and evaluated in terms of runoff and erosion. These included tree plantations, fruit trees, improved fallow with legumes, maize intercropped with legumes, planted fodder, native grass strips and agro-ecological practices (direct sowing and mulch-based conservation agriculture). Regressions analyses showed that runoff during the rainy season, and normalized runoff flow coefficient based on erosive rainfall during the rainy season (rainfall with intensity exceeding 25 mm h⁻¹) increase with the percentage of the catchment covered by maize. Both variables decrease with increasing soil depth, standard deviation of catchment slope (that reflects terrain roughness), and the percentages of the catchment covered by fallow (regular and improved), tree plantations and planted fodder. The best predictors of sediment yield were the surface percentages of maize, Job's tears, cassava and footpaths. The main conclusions generated from this study were: (i) soil erosion is predominantly influenced by land use rather than environmental characteristics not only at the plot scale but also at the catchment scale; (ii) slash-and-burn shifting cultivation with sufficiently long rotations (1 year of cultivation, 8 years of fallow) is too often unjustly blamed for degradation; (iii) in its place, continuous cropping of maize and cassava promotes high rates of soil erosion at the catchment scale; (iv) conservation technologies are efficient in reducing runoff and total sediment yield at the catchment scale; (v) the adoption of improved soil management technologies by upland farmers is not a function of the degree of intensification of their farming system and/or of their incomes. The results suggest that if expansion of maize and cassava into already degraded upland systems were to occur due to increased demand for biofuels, there is a risk of higher runoff and sediment generation. A failure to adopt appropriate land use management strategies will result in further rapid resource degradation with negative impacts to downstream communities.     

Use of the chemical cleavage of mismatch method for prenatal deficiency diagnosis of alpha-1-antitrypsin

The most common mutation in alpha-1-antitrypsin deficiency, conversion of a G to an A at base 9989 (PI-Z), was detected with the chemical cleavage of mismatch method, demonstrating the power of the method for prenatal diagnosis. Exon V of the gene was amplified using the polymerase chain reaction and heteroduplexes were formed to test for the presence of the mutation. The predicted C mismatch was readily detectable with hydroxylamine, and by making the probe from the chorionic villus sample it was possible to determine that the fetus was heterozygous, not homozygous, for the mutation.     

Optimization of Methods for Detecting Hepatitis A Virus in Food

Hepatitis A virus (HAV) is currently recognized as an important human food borne pathogen, and it is one of the most resistant enteric RNA viruses, is highly infectious, and may lead to widespread outbreaks. The aim of this study was to optimize the methods to detect HAV from artificially contaminated food. To this end, strawberry and lettuce were experimentally contaminated with HAV suspension containing 6 × 10⁶ copies/ml. After contamination, HAV persistence and washing procedure were evaluated at 0, 1, 3, 7, and 9 days of storage. Five elution buffers (PBS (pH 7.4)/0.1% Tween80; 50 mM glycine/3% (wt/vol) beef extract (pH 9.5); PBS (pH 7, 4); 25 mM glycine/0.1 Tween80; and 1 M sodium bicarbonate) were used to elute the virus, and qualitative and quantitative PCR were used for HAV detection. HAV was detected by qualitative and quantitative PCR using any of the five elution buffers, but PBS was the most effective. Even after washing, HAV was detected up to 9 days after contamination by quantitative PCR. Quantitative PCR was more sensitive than qualitative PCR since samples containing viral load lower than 1.4 × 10³ copies/ml could not be detected by qualitative PCR. Quantitative PCR can be used for rapid detection of food borne viruses and will help in the monitoring and control of food borne disease.