Managing the nitrogen cycle to reduce greenhouse gas emissions from crop production and biofuel expansion

Public policies are promoting biofuels as an alternative to fossil fuel consumption in order to mitigate greenhouse gas (GHG) emissions. However, the mitigation benefit can be at least partially compromised by emissions occurring during feedstock production. One of the key sources of GHG emissions from biofuel feedstock production, as well as conventional crops, is soil nitrous oxide (N₂O), which is largely driven by nitrogen (N) management. Our objective was to determine how much GHG emissions could be reduced by encouraging alternative N management practices through application of nitrification inhibitors and a cap on N fertilization. We used the US Renewable Fuel Standards (RFS2) as the basis for a case study to evaluate technical and economic drivers influencing the N management mitigation strategies. We estimated soil N₂O emissions using the DayCent ecosystem model and applied the US Forest and Agricultural Sector Optimization Model with Greenhouse Gases (FASOMGHG) to project GHG emissions for the agricultural sector, as influenced by biofuel scenarios and N management options. Relative to the current RSF2 policy with no N management interventions, results show decreases in N₂O emissions ranging from 3 to 4 % for the agricultural sector (5.5–6.5 million metric tonnes CO₂?eq.?year^?1; 1 million metric tonnes is equivalent to a Teragram) in response to a cap that reduces N fertilizer application and even larger reductions with application of nitrification inhibitors, ranging from 9 to 10 % (15.5–16.6 million tonnes CO₂?eq.?year^?1). The results demonstrate that climate and energy policies promoting biofuel production could consider options to manage the N cycle with alternative fertilization practices for the agricultural sector and likely enhance the mitigation of GHG emissions associated with biofuels.     

Temperature-Dependent Persistence of Human Norovirus Within Oysters (<Emphasis Type="Italic">Crassostrea virginica</Emphasis>)

This study characterizes the persistence of human norovirus in Eastern oysters (Crassostrea virginica) held at different seawater temperatures. Oysters were contaminated with human norovirus GI.1 (Norwalk strain 8FIIa) by exposing them to virus-contaminated water at 15 °C, and subsequently holding them at 7, 15, and 25 °C for up to 6 weeks. Viral RNA was extracted from oyster tissue and hemocytes and quantitated by RT-qPCR. Norovirus was detected in hemocytes and oysters held at 7 and 15 °C for 6 weeks and in hemocytes and oysters held at 25 °C for up to 2 and 4 weeks, respectively. Results confirm that NoV is quite persistent within oysters and demonstrate that cooler water temperatures extend norovirus clearance times. This study suggests a need for substantial relay times to remove norovirus from contaminated shellfish and suggests that regulatory authorities should consider the effects of water temperature after a suspected episodic norovirus-contamination event.     

Detection and Phylogenetic Analysis of the Hepatitis E Virus in a Canadian Swine Production Network

Viral contamination along the production chain is a significant concern in both food safety and livestock health. Pigs have been reported to act as a reservoir for zoonotic viruses, sometimes emerging ones, and epidemiological studies have shown direct links between the consumption of uncooked pork offal and cases of hepatitis caused by the hepatitis E virus (HEV) genotype 3 in humans. The presence of HEV in swine herds has been reported, but its dissemination in pork production environments is still unknown. To investigate viral contamination sources in the swine industry, 452 environment and fecal samples, including samples from livestock transportation vehicles, were collected over a period of 11 months from ten farms and one slaughterhouse that together represent a single production network. Hepatitis E virus RNA was detected by nested RT-PCR in 32 samples from both inside and outside farm buildings, on trucks, and, mostly, from fomites collected in the slaughterhouse yard, such as on a utility vehicle. Phylogenetic analysis showed a wide diversity of HEV genotype 3 strains, similar to human and swine strains previously found. According to the results of this study, the movements of trucks and utility vehicles might play an important role in HEV dissemination on a slaughterhouse site and throughout an entire network.     

A multidisciplinary study of archaeological grape seeds

We report here the first integrated investigation of both ancient DNA and proteins in archaeobotanical samples: medieval grape (Vitis vinifera L.) seeds, preserved by anoxic waterlogging, from an early medieval (seventh–eighth century A.D.) Byzantine rural settlement in the Salento area (Lecce, Italy) and a late (fourteenth–fifteenth century A.D.) medieval site in York (England). Pyrolysis gas chromatography mass spectrometry documented good carbohydrate preservation, whilst amino acid analysis revealed approximately 90% loss of the original protein content. In the York sample, mass spectrometry-based sequencing identified several degraded ancient peptides. Nuclear microsatellite locus (VVS2, VVMD5, VVMD7, ZAG62 and ZAG79) analysis permitted a tentative comparison of the genetic profiles of both the ancient samples with the modern varieties. The ability to recover microsatellite DNA has potential to improve biomolecular analysis on ancient grape seeds from archaeological contexts. Although the investigation of five microsatellite loci cannot assign the ancient samples to any geographic region or modern cultivar, the results allow speculation that the material from York was not grown locally, whilst the remains from Supersano could represent a trace of contacts with the eastern Mediterranean.     

Why do <Emphasis Type="Italic">Manduca sexta</Emphasis> feed from white flowers? Innate and learnt colour preferences in a hawkmoth

Flower colour is an important signal used by flowering plants to attract pollinators. Many anthophilous insects have an innate colour preference that is displayed during their first foraging bouts and which could help them locate their first nectar reward. Nevertheless, learning capabilities allow insects to switch their colour preferences with experience and thus, to track variation in floral nectar availability. Manduca sexta, a crepuscular hawkmoth widely studied as a model system for sensory physiology and behaviour, visits mostly white, night-blooming flowers lacking UV reflectance throughout its range in the Americas. Nevertheless, the spectral sensitivity of the feeding behaviour of naïve moths shows a narrow peak around 450 nm wavelengths, suggesting an innate preference for the colour blue. Under more natural conditions (i.e. broader wavelength reflectance) than in previous studies, we used dual choice experiments with blue- and white-coloured feeders to investigate the innate preference of naïve moths and trained different groups to each colour to evaluate their learning capabilities. We confirmed the innate preference of M. sexta for blue and found that these moths were able to switch colour preferences after training experience. These results unequivocally demonstrate that M. sexta moths innately prefer blue when presented against white flower models and offer novel experimental evidence supporting the hypothesis that learning capabilities could be involved in their foraging preferences, including their widely observed attraction to white flowers in nature.     

Prevalence of Rotaviruses Groups A and C in Egyptian Children and Aquatic Environment

The objective of this study is to compare the prevalence of rotaviruses groups A and C in Egyptian children and aquatic environment. From 110 stool specimens of children with acute diarrhea and using RT-PCR, 35 samples (31.8 %) were positive for human rotavirus group A and 15 samples (13.6 %) were positive for human rotavirus group C. From 96 samples collected from Zenin wastewater treatment plant over a 2-year period (November 2009–October 2011) and using RT-PCR, rotavirus group A was detected in (4/24) 16.7 %, (5/24) 20.8 %, (4/24) 16.7 %, and (4/24) 16.7 %, while rotavirus group C was detected in (2/24) 8.3 %, (3/24) 12.5 %, (3/24) 12.5 %, and (0/24) 0 % in raw sewage, after primary sedimentation, after secondary sedimentation, and after final chlorination, respectively. Moreover, from 96 samples collected from El-Giza water treatment plant over a 2-year period (November 2009–October 2011), rotavirus group A was detected in (7/24) 29.2 %, (6/24) 25 %, (5/24) 20.8 %, and (3/24) 12.5 %, while rotavirus group C was detected in (3/24) 12.5 %, (1/24) 4.2 %, (1/24) 4.2 %, and (0/24) 0 % in raw Nile water, after sedimentation, after sand filtration, and after final chlorination, respectively. Using SYBR Green real-time RT-PCR, the number of human rotavirus group A genome or infectious units was higher than rotavirus group C. VP6 sequence analysis of the RT-PCR positive rotavirus group C samples revealed that four clinical specimens and three environmental samples showed similar sequences clustered with Moduganari/Human Nigerian strain AF 325806 with 98 % homology, and two clinical specimens and one environmental sample showed similar sequences clustered with Dhaka CB/Human Bangladesh strain AY 754826 with 97 % homology.     

Managing the cost of emissions for durable,carbon-containing products

We recognize that carbon-containing products do not decay and release CO₂ to the atmosphere instantaneously, but release that carbon over extended periods of time. For an initial production of a stock of carbon-containing product, we can treat the release as a probability distribution covering the time over which that release occurs. The probability distribution that models the carbon release predicts the amount of carbon that is released as a function of time. The use of a probability distribution in accounting for the release of carbon to the atmosphere realizes a fundamental shift from the idea that all carbon-containing products contribute to a single pool that decays in proportion to the size of the stock. Viewing the release of carbon as a continuous probabilistic process introduces some theoretical opportunities not available in the former paradigm by taking advantage of other fields where the use of probability distributions has been prevalent for many decades. In particular, theories developed in the life insurance industry can guide the development of pricing and payment structures for dealing with the costs associated with the oxidation and release of carbon. These costs can arise from a number of proposed policies (cap and trade, carbon tax, social cost of carbon, etc), but in the end they all result in there being a cost to releasing carbon to the atmosphere. If there is a cost to the emitter for CO₂ emissions, payment for that cost will depend on both when the emissions actually occur and how payment is made. Here we outline some of the pricing and payment structures that are possible which result from analogous theories in the life insurance industry. This development not only provides useful constructs for valuing sequestered carbon, but highlights additional motivations for employing a probability distribution approach to unify accounting methodologies for stocks of carbon containing products.     

Forest policies and programs affecting vulnerability and adaptation to climate change

Due to large scale afforestation programs and forest conservation legislations, India’s total forest area seems to have stabilized or even increased. In spite of such efforts, forest fragmentation and degradation continues, with forests being subject to increased pressure due to anthropogenic factors. Such fragmentation and degradation is leading to the forest cover to change from very dense to moderately dense and open forest and 253 km² of very dense forest has been converted to moderately dense forest, open forest, scrub and non-forest (during 2005–2007). Similarly, there has been a degradation of 4,120 km² of moderately dense forest to open forest, scrub and non-forest resulting in a net loss of 936 km² of moderately dense forest. Additionally, 4,335 km² of open forest have degraded to scrub and non-forest. Coupled with pressure due to anthropogenic factors, climate change is likely to be an added stress on forests. Forest sector programs and policies are major factors that determine the status of forests and potentially resilience to projected impacts of climate change. An attempt is made to review the forest policies and programs and their implications for the status of forests and for vulnerability of forests to projected climate change. The study concludes that forest conservation and development policies and programs need to be oriented to incorporate climate change impacts, vulnerability and adaptation.     

Spatial and temporal land use and carbon stock changes in Uganda: implications for a future REDD strategy

Using a map overlay procedure in a Geographical Information System environment, we quantify and map major land use and land cover (LULC) change patterns in Uganda period 1990–2005 and determine whether the transitions were random or systematic. The analysis reveals that the most dominant systematic land use change processes were deforestation (woodland to subsistence farmland—3.32%); forest degradation (woodland to bushland (4.01%) and grassland (4.08%) and bush/grassland conversion to cropland (5.5%) all resulting in a net reduction in forests (6.1%). Applying an inductive approach based on logistic regression and trend analyses of observed changes we analyzed key drivers of LULC change. Significant predictors of forest land use change included protection status, market access, poverty, slope, soil quality and presence/absence of a stream network. Market access, poverty and population all decreased the log odds of retaining forests. In addition, poverty also increased the likelihood of degradation. An increase in slope decreased the likelihood of deforestation. Using the stock change and gain/loss approaches we estimated the change in forest carbon stocks and emissions from deforestation and forest degradation. Results indicate a negligible increase in forest carbon stocks (3,260 t C yr-1) in the period 1990–2005 when compared to the emissions due to deforestation and forest degradation (2.67 million t C yr-1). In light of the dominant forest land use change patterns, the drivers and change in carbon stocks, we discuss options which could be pursued to implement a future national REDD plus strategy which considers livelihood, biodiversity and climate change mitigation objectives.     

Vulnerability assessment and adaptation to the impacts of sea level rise on the Kingdom of Bahrain

This paper assesses quantitatively the impact of sea level rise (SLR) at the global and regional scale as a result of climate change (CC) on the coastal areas of the Kingdom of Bahrain’s islands (36 Islands). The standard Intergovernmental Panel on Climate Change (IPCC) guidelines was modified as appropriate for the situation of the study area. Geographic Information Systems (GIS) coupled with Remote Sensing (RS) were used as the main techniques of collecting, analyzing, modeling simulating and disseminating information to build SLR scenarios in a geographically referenced context. Also, these tools were used to assess vulnerability and risk of the coastal area of the islands with the expectation that coastal planner and government authorities will profit from integrating these knowledge into a broad based environmental decision making. Three SLR scenarios: low, moderate and high were developed to examine the impacts from SLR on all islands. The low SLR scenario (Optimistic) assumes a 0.5-m rise above current sea level, the moderate scenario (Intermediate) assumes a one meter rise, and the high scenario (Pessimistic) assumes a 1.5 m rise in sea level. Two more SLR scenarios were assumed to perform risk analysis, a 2 and 5 meter rise above current sea level. The simulation of SLR are quite straightforward, emphasizing on the uses of both of the data that are incorporated from the satellite images and the created Digital Elevation Model (DEM) to estimate SLR scenarios that are adapted in the study. These data were used to predict consequences of the possibility of the rise in sea level at different scenarios which may alter the landuse and patterns of human communities. Results indicate that low-lying coastal areas of Bahrain islands are at risk from the effects of any SLR resulting from CC. These islands are vulnerable under different SLR Scenarios. More than 17% of the country total area may be inundated under 1.5 m SLR in 2100. The total area that might be lost under different sea level scenarios will vary from more than 77 km² if SLR reaches 0.5 m, to about 100 km² under 1.0 m SLR and may reach 124 km² under 1.5 m SLR scenario. The total inundated areas due to risk scenarios will reach 133 km², if the SLR rises to 2.0 m, and it is estimated to be more than (22%) of the main island total area. Under the second scenario, if the SLR reaches 5.0 m, the main islands will lose approximately half of its area (47%) equal to 280 km². Hawar islands group will lose about (30%) of its total area under 2.0 m SLR, which is about 15.5 km².A SLR adaptation policy framework (APF) and adaptation policy initiatives (APIs) are suggested for planners to build upon for reducing the likely effects of SLR in the Kingdom of Bahrain. The framework is composed of four steps namely, acquisition of information, planning and design, implementation and monitoring and evaluation. A general policy framework for a national response to SLR is suggested. Additionally, a range of policy adaptation options/initiatives to sustain coastal developments under the likely effects of SLR are recommended.