Real-time polymerase chain reaction monitoring of recombinant DNA entry into soil from decomposing roundup ready leaf biomass

Glyphosate-tolerant, Roundup Ready (RR) soybeans account for about 57% of all genetically modified (GM) crops grown worldwide. The entry of recombinant DNA into soil from GM crops has been identified as an environmental concern due to the possibility of their horizontal transfer to soil microorganisms. RR soybeans contain recombinant gene sequences that can be differentiated from wild-type plant and microbial genes in soil by using a sequence-specific molecular beacon and real-time polymerase chain reaction (PCR). A molecular beacon-based real-time PCR system to quantify a wild-type soybean lectin ( le1) gene was designed to compare amounts of endogenous soybean genes to recombinant DNA in soil. Microcosm studies were carried out to develop methodologies for the detection of recombinant DNA from RR soybeans in soil. RR soybean leaf litterbags were imbedded in the soil under controlled environmental conditions (60% water holding capacity, 10/15 degrees C, and 8/16 h day/night) for 30 days. The soybean biomass decomposition was described using a single-phase exponential equation, and the DNA concentration in planta and in soil was quantified using real-time PCR using sequence-specific molecular beacons for the recombinant cp4 epsps and endogenous soybean lectin ( le1) genes. The biomass of RR soybean leaves was 8.6% less than nontransgenic (NT) soybean leaves after 30 days. The pooled half-disappearance time for cp4 epsps and le1 in RR and of le1 in NT soybean leaves was 1.4 days. All genes from leaves were detected in soil after 30 days. This study provides a methodology for monitoring the entry of RR and NT soybean DNA into soil from decomposing plant residues.     

Mercury Partitioning in Surface Sediments of the Upper St. Lawrence River (Canada): Evidence of the Importance of the Sulphur Chemistry

An intensive survey of mercury speciation was performed at a site on the Upper St. Lawrence River near Cornwall, Ontario, Canada with a history mercury contamination in sediments. Surface sediments were collected every 1.50 h. Total mercury (Hg_total), methylmercury (MeHg), organic carbon, inorganic and organic sulphur were determined in the solid fraction. Dissolved Hg_total, MeHg and dissolved organic carbon (DOC) were measured in pore waters. Concentrations of Hg_total in the upper layers (first 5 cm) were high, ranging from 1.42 to 25.8 nmol g^?1 in solids and from 125 to 449 pM in pore waters. MeHg levels were also high, ranging from 4.34 to 34.1 pmol g^?1 in solids and from 40 to 96 pM in pore waters. This amounts to up to 1.4% of Hg_total present as MeHg in solids and 64% in pore waters. A daily pattern for Hg_total was observed in the solid fraction. The MeHg distribution in solids and pore waters was not correlated with Hg_total or DOC_, suggesting that the concentrations of MeHg are probably more influenced by the relative rates of methylation/demethylation reactions in the sediment–water interface. Acid volatile sulphide levels and DOC were inversely correlated with organic sulphur (S_org) levels suggesting that both parameters are involved in the rapid production of S_org. A positive correlation was also observed between Hg_total and S_org in solids (R?=?0.87, p?<?0.01) illustrating the importance of organic sulphur in the retention and distribution of Hg in the solid fraction of the sediments. The results suggest that variations of Hg_total concentrations in Upper St. Lawrence River surface sediments were strongly influenced by the formation/deposition/retention of organic sulphur compounds in the sediment–water interface.     

Using RapidEye imagery to identify within-field variability of crop growth and yield in Ontario,Canada

Precision Agriculture - Remote sensing has been recognized as a cost-effective way to detect the spatial and temporal variability of crop growth and productivity. In this study, multispectral...     

Effects of rapid global warming at the Paleocene-Eocene boundary on neotropical vegetation

Temperatures in tropical regions are estimated to have increased by 3° to 5°C, compared with Late Paleocene values, during the Paleocene-Eocene Thermal Maximum (PETM, 56.3 million years ago) event. We investigated the tropical forest response to this rapid warming by evaluating the palynological record of three stratigraphic sections in eastern Colombia and western Venezuela. We observed a rapid and distinct increase in plant diversity and origination rates, with a set of new taxa, mostly angiosperms, added to the existing stock of low-diversity Paleocene flora. There is no evidence for enhanced aridity in the northern Neotropics. The tropical rainforest was able to persist under elevated temperatures and high levels of atmospheric carbon dioxide, in contrast to speculations that tropical ecosystems were severely compromised by heat stress.     

The challenge of providing plant pest diagnostic services for Africa

The consequences of a globalisation of trade and climate change present an increased threat from first-entry pests and a challenge to plant health authorities. In this paper, pest reporting for the continents of Africa and Europe are discussed, and argued as a barometer of effective Plant Pest Diagnostic Services (PPDS) in terms of human capacity, infrastructure and policy-culture for phytosanitary issues. To illustrate particular areas of concern, case studies are presented on recent pest events which include outbreaks of Ralstonia solanacearum on Pelargonium, Xanthomonas campestris pv. musacearum on banana (banana Xanthomonas wilt) and Puccinia graminis f.sp. tritici race Ug99 on wheat (black stem rust). Examples are given of some recent initiatives to invigorate diagnostic capacity in East Africa, spanning state-of-the-art centres of excellence, traditional capacity building and networking projects, and grass-root level 'going-public' pest surveillance initiatives. Discussion is presented on the provision of PPDS and the impact of technology, institutional factors, the private sector, accreditation of services and policy. Emphasis is placed on the role of PPDS in support of regulatory policy. In recognising the precarious nature of many African cropping systems, the argument is made for a more consolidated approach to PPDS in and for Africa. The paper is presented from the perspective of European practitioners in pest diagnostic and risk analysis.     

Site-specific management of limiting nutrients in peanut (Arachis hypogaea) on the Texas High Plains

Nutrient data obtained from soil chemical tests were analyzed in an activity analysis model to identify limiting factors in peanut production on the Texas High Plains. A production function was estimated for the study field, and limiting factors were identified at individual sites where the production function indicated that yield did not respond. The estimated production function also enabled us to conduct a cost-return analysis of variable- and blanket-rate fertilizer applications. The results showed that peanut yields did not respond to most of the nutrients included in the study, which confirmed conclusions from previous studies in the study region. Calcium and nitrogen were the only two limiting factors identified in this study. Significant economic returns could be obtained by site-specific fertilizer application. The average economic return from variable-rate calcium fertilizer application was $27.84 ha⁻¹ and from blanket-rate it was $10.73 ha⁻¹. The return from variable-rate nitrogen fertilizer application was about $20 ha⁻¹ and from a blanket-rate it was about $14 ha⁻¹. There seems to be quite a strong economic incentive to adopt variable-rate application for calcium and nitrogen fertilizer application.

Starch granule size distribution of hard red winter and hard red spring wheat: Its effects on mixing and breadmaking quality

Starch was isolated from 98 hard red winter (HRW) wheat and 99 hard red spring (HRS) wheats. Granule size/volume distributions of the isolated starches were analyzed using a laser diffraction particle size analyzer. There were significant differences in the size distribution between HRW and HRS wheats. The B-granules (<10 μm in diameter) occupied volumes in the range 28.5–49.1% (mean, 39.9%) for HRW wheat, while HRS wheat B-granules occupied volumes in the range 37.1–56.2% (mean, 47.3%). The mean granule sizes of the distribution peaks less than 10 μm in diameter also showed a significant difference (HRW, 4.32 vs. HRS, 4.49 μm), but the mean sizes of the distribution peaks larger than 10 μm were not significantly different (21.54 vs. 21.47 μm). Numerous wheat and flour quality traits also showed significant correlation to starch granule size distributions. Most notably, protein content was inversely correlated with parameters of B-granules. Crumb grain score appeared to be affected by starch granule size distribution, showing significant inverse correlations with B-granules. Furthermore, the linear correlations were improved when the ratio of B-granules to protein content was used, and the polynomial relation was applied. There also appeared to be an optimum range of B-granules for different protein content flour to produce bread with better crumb grain.     

The influence of lignocellulose and hemicellulose biochar on photosynthesis and water use efficiency in seedlings from a Northeastern U.S. pine-oak ecosystem

Improving plant water use efficiency (WUE) has the potential to lower plant susceptibility to drought. Amending soils with biochar has been suggested as a way to improve WUE, as it has been shown to increase the water holding capacity of soils. Here, we investigated the influence of two different biochar soil amendments on WUE measured by gas exchange and carbon isotopes of pine-oak ecosystem species. We measured WUE of individuals grown in soils where either lignocellulose or hemicellulose biochar was applied (10% v/v). WUE increased under lignocellulose, but not hemicellulose, biochar amendment during both late spring and early fall measurement periods in a single year study. However, net photosynthesis and stomatal conductance decreased in plants grown with biochar amendments. Physiochemical and sorption data provide a partial explanation of how biochar mechanisms impact soil-water-plant relations. Our results demonstrated that lignocellulosic biochar may be added to forest soils to reduce drought stress in pine-oak systems, but amendments may not lead to increases in carbon uptake rates.     

Generating confidence intervals for composition-based landscape indexes

Many landscape indexes with ecological relevance have been proposed, including diversity indexes, dominance, fractal dimension, and patch size distribution. Classified land cover data in a geographic information system (GIS) are frequently used to calculate these indexes. However, a lack of methods for quantifying uncertainty in these measures makes it difficult to test hypothesized relations among landscape indexes and ecological processes. One source of uncertainty in landscape indexes is classification error in land cover data, which can be reported in the form of an error matrix. Some researchers have used error matrices to adjust extent estimates derived from classified land cover data. Because landscape diversity indexes depend only on landscape composition – the extent of each cover in a landscape – adjusted extent estimates may be used to calculate diversity indexes. We used a bootstrap procedure to extend this approach and generate confidence intervals for diversity indexes. Bootstrapping is a technique that allows one to estimate sample variability by resampling from the empirical probability distribution defined by a single sample. Using the empirical distribution defined by an error matrix, we generated a bootstrap sample of error matrixes. The sample of error matrixes was used to generate a sample of adjusted diversity indexes from which estimated confidence intervals for the diversity indexes were calculated. We also note that present methods for accuracy assessment are not sufficient for quantifying the uncertainty in landscape indexes that are sensitive to the size, shape, and spatial arrangement of patches. More information about the spatial structure of error is needed to calculate uncertainty for these indexes. Alternative approaches should be considered, including combining traditional accuracy assessments with other probability data generated during the classification procedure.     

Resistance of Thrips tabaci to pyrethroid and organophosphorus insecticides in Ontario, Canada

Onion thrips, Thrips tabaci Lindeman, were collected from commercial onion fields in 2001, 2002 and 2003 to assess resistance to lambda-cyhalothrin, deltamethrin and diazinon. In 2001, six of eight adult populations were resistant to lambda-cyhalothrin, with resistance ratios (RR) ranging from 2 to 13.1 and four of these were also resistant to deltamethrin, with RR ranging from 19.3 to 120. Three of four adult populations were resistant to diazinon with RR ranging from 2.5 to 165.8. In 2002, four of seven nymphal populations and three of six adult populations were resistant to deltamethrin, with RR ranging from 4.3 to 72.5 and 9.4 to 839.2, respectively. Only one of six nymphal populations and one of five adult populations were resistant to diazinon, with RR of 5.6 and 2.3, respectively. In 2003 diagnostic dose bioassays, 15 of 16 onion thrips populations were resistant to lambda-cyhalothrin and all were resistant to deltamethrin. Eight of the 16 were resistant to diazinon. These results indicate that insecticide resistance is widespread in onion thrips in commercial onion fields in Ontario.