Using large-scale perturbations in gene network reconstruction

Background: Recent analysis of the yeast gene network shows that most genes have few inputs, indicating that enumerative gene reconstruction methods are both useful and computationally feasible. A simple enumerative reconstruction method based on a discrete dynamical system model is used to study how microarray experiments involving modulated global perturbations can be designed to obtain reasonably accurate reconstructions. The method is tested on artificial gene networks with biologically realistic in/out degree characteristics.Results: It was found that a relatively small number of perturbations significantly improve inference accuracy, particularly for low-order inputs of one or two genes. The perturbations themselves should alter the expression level of approximately 50-60% of the genes in the network.Conclusions: Time-series obtained from perturbations are a common form of expression data. This study illustrates how gene networks can be significantly reconstructed from such time-series while requiring only a relatively small number of calibrated perturbations, even for large networks, thus reducing experimental costs

Using CERES-maize and ENSO as decision support tools to evaluate climate-sensitive farm management practices for maize production in the northern regions of Ghana

Open Access JournalMaize (Zea mays) has traditionally been a major cereal staple in southern Ghana. Through breeding and other crop improvement efforts, the zone of cultivation of maize has now extended to the northern regions of Ghana which, hitherto, were the home to sorghum and millet as the major cereals. Maize yield in the northern Ghana is hampered by three major biophysical constraints, namely, poor soil fertility, low soil water storage capacity and climate variability. In this study we used the DSSAT crop model to assess integrated water and soil management strategies that combined the pre-season El-Niño-Southern Oscillation (ENSO)-based weather forecasting in selecting optimal planting time, at four locations in the northern regions of Ghana. It could be shown that the optimum planting date for a given year was predictable based on February-to-April (FMA) Sea Surface Temperature (SST) anomaly for the locations with R2 ranging from 0.52 to 0.71. For three out of four locations, the ENSO-predicted optimum planting dates resulted in significantly higher maize yields than the conventional farmer selected planting dates. In Wa for instance, early optimum planting dates were associated with La Nina and El Niño (Julian Days 130-150; early May to late May) whereas late planting (mid June to early July) was associated with the Neutral ENSO phase. It was also observed that the addition of manure and fertilizer improved soil water and nitrogen use efficiency, respectively, and minimized yield variability, especially when combined with weather forecast. The use of ENSO-based targeted planting date choice together with modest fertilizer and manure application has the potential to improve maize yields and also ensure sustainable maize production in parts of northern Ghana

Developing adaptation packages for West African agriculture while ensuring congruence with climate and RAPs

In the semi-arid region of the Sahel, climate change is already affecting the farming systems and these impacts are expected to heighten in the near to mid-century. Given the complexities and conflicting drivers at play and the foreseeable negative consequences on the livelihoods of the majority of farmers, it is worthwhile designing relevant adaptation packages that will alleviate these effects. In this study, we envision to assess the implications of implementing two adaptation packages within the context of three West African farming systems specifically located in Ghana (Navrongo), Mali (Koutiala) and Senegal (Nioro). The first adaptation package is composed of heat and drought tolerant species along with an economic and policy level intervention through the delivery of subsidies to acquire improved varieties. The second pack builds on the first but adds a fertilizer component (splitting and timing to account for extreme events) and a policy variable in the form of index-based insurance adoption. The design process included interactions with a diverse set of stakeholders. The outcomes of these adaptation options on current and future agricultural systems will shed light on the projected adoption rates of climate adapted-systems and show how these various adaptations affect the impacts of climate change, keeping congruence with the relevant representative agricultural pathways. (Texte intégral

Fractional flow reserve versus angiography for guidance of PCI in patients with multivessel coronary artery disease (FAME): 5-year follow-up of a randomised controlled trial

In the Fractional Flow Reserve Versus Angiography for Multivessel Evaluation (FAME) study, fractional flow reserve (FFR)-guided percutaneous coronary intervention (PCI) improved outcome compared with angiography-guided PCI for up to 2 years of follow-up. The aim in this study was to investigate whether the favourable clinical outcome with the FFR-guided PCI in the FAME study persisted over a 5-year follow-up

Control of aphids and caterpillars on Brussels sprouts in British Columbia

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USE OF INFRARED THERMOGRAPHY TO DETECT SIGNS OF RABIES INFECTION IN RACCOONS (\u3ci\u3ePROCYON LOTOR\u3c/i\u3e)

Infrared thermography was evaluated as a technique to determine if raccoons (Procyon lotor) experimentally infected with rabies virus could be differentiated from non-infected raccoons. Following a 10-day adjustment period, raccoons (n = 6) were infected with a virulent rabies street strain raccoon variant by injection into the masseter muscle at a dose of 2 x 104 tissue-culture infectious dose (TCID50) in 0.2 ml (n = 4) or 105 TCID50 in 1 ml (n = 2). Five of the six raccoons developed prodromal signs of rabies 17 to 22 days post-inoculation (PI) and distinctive clinical signs of furious rabies between 19 and 24 days PI. At the time of euthanasia, which occurred 2 days after the onset of clinical signs of rabies, these five raccoons tested positive for rabies virus in brain tissue. Infrared thermal images of each raccoon were recorded twice daily during the preinoculation and PI periods. No apparent differences were identified among thermal temperatures compared among days for the eye, average body surface, and body temperature recorded from subcutaneous implants throughout the experiment for any of the six raccoons. However, increases in infrared surface temperature of the noses and differences in the visual thermal images of the noses were detected when animals began showing clinical signs of rabies. Differences were detected among the mean infrared nose temperatures for the disease progression intervals (F3,12 = 70.03, P \u3c 0.0001). The mean nose temperature in the clinical rabies stage (30.4 ± 3.5°C) was significantly elevated over the prodromal stage (F1,12 = 151.85, P\u3c 0.0001). This experiment provides data indicating that infrared thermography can be used in an experimental setting to detect raccoons in the infectious stage and capable of exhibiting clinical signs of rabies

How are gender equality and human rights interventions included in sexual and reproductive health programmes and policies: A systematic review of existing research foci and gaps

The importance of promoting gender equality and human rights in sexual and reproductive health (SRH) programmes and policies has been affirmed in numerous international and regional agreements, most recently the 2030 Agenda for Sustainable Development. Given the critical role of research to determine what works, we aimed to identify research gaps as part of a broader priority setting exercise on integrating gender equality and human rights approaches in SRH programmes and policies. A systematic literature review of reviews was conducted to examine the question: what do we know about how research in the context of SRH programmes and policies has addressed gender equality and human rights and what are the current gaps in research. We searched three databases for reviews that addressed the research question, were published between 1994-2014, and met methodological standards for systematic reviews, qualitative meta-syntheses and other reviews of relevance to the research question. Additional grey literature was identified based on expert input. Articles were appraised by the primary author and examined by an expert panel. An abstraction and thematic analysis process was used to synthesize findings. Of the 3,073 abstracts identified, 56 articles were reviewed in full and 23 were included along with 10 from the grey literature. The majority focused on interventions addressing gender inequalities; very few reviews explicitly included human rights based interventions. Across both topics, weak study designs and use of intermediate outcome measures limited evidence quality. Further, there was limited evidence on interventions that addressed marginalized groups. Better quality studies, longer-term indicators, and measurement of unintended consequences are needed to better understand the impact of these types of interventions on SRH outcomes. Further efforts are needed to cover research on gender equality and human rights issues as they pertain to a broader set of SRH topics and populations.Scopu

Evaluation of soil properties of the Sudan Savannah ecological zone of Ghana for crop production

Low soil fertility and limited ability of farmers to purchase fertilizers in the Sudan savannah zone of Ghana has resulted in the decline in the yield of cereals over the years. There is, therefore, the need to identify soil parameters that are critical to crop production, to manage them effectively and improve fertilizer use efficiency to increase crop yield. To achieve this, an area of about 1.5 km2 was divided into grid cells (100m2) and characterised for their soil properties (organic carbon, pH, and soil texture). Data collected was used in a pedo-transfer function to estimate additional soil parameters that were not measured (i.e. wilting point, field capacity, available water and saturation). These were used as input to the crop simulation model (APSIM- Agriculture Productions Systems sIMulator) to simulate sorghum grain yield for each grid cell. Linear regression and factor analysis were also employed in explaining the data. Grain yield ranged from 402 to 1092 kg ha-1 with a mean of 673 kg ha-1 using 2005 weather data and 228 to 907 kg ha-1 with a mean of 427 kg ha-1 using 2000 weather data without fertilizer application. The model was sensitive to all input parameters. Soil texture and organic carbon were identified to have significant effect on crop yield. Soil organic carbon is, therefore, to be managed for the development of a good tilth and hence sustainable yields of sorghum at the study site