Qatar Foundation Annual Research Conference Proceedings Volume 2014 Issue 1

The main two challenges hindering the deployment of solar cells in large scale are the high cost and low efficiency. One of the strategies to reduce the cost is by using thin film materials with enhanced solar cell conversion efficiency. However, thin film materials suffer from weak absorption and the presence of defects, which act as recombination canters for charge carriers. Various studies were conducted to improve absorption in thin film solar cells. However, those approaches are not optimized yet for high efficiency solar cells. In this study, we focus on enhancing light absorption of thin film silicon solar cells by using Zinc Oxide (ZnO) nanostructures.

BACKGROUND & OBJECTIVES: Improving materials properties is one of the biggest scientific issues of all the times. When it becomes impossible to further manipulate the raw material, one feasible way to push its properties beyond the theoretical limits is to modify the properties of the surface. That is where advanced surface coatings come in. From a manufacturing point of view, tools for machining are of particular interest. These tools are usually made of hard steels and cemented carbide (WC-Co). For specialized applications, such as aluminium machining, diamond or polycrystalline cubic boron nitride are also used. The main problem with steel, is that it exhibits a relatively low hardness (below 10 GPa) which strongly decreases upon annealing above about 600 K. Thus, the majority of modern tools are nowadays coated with hard coatings, in order to: (i) increase the hardness, (ii) decrease the coefficient of friction, and (iii) protect the tools against oxidation. A similar approach has been recently used to obtain a longer duration of the dies for aluminium die-casting. Multi-component and nanostructured materials represent a promising class of protective hard coatings due to their enhanced mechanical and thermal oxidation properties. METHODS: Three different thin hard nitrogen-rich coatings were mechanically, microstructurally, and thermally characterized: (i) a 2.5 micron-thick nano-layered CrN-NbN, (ii) a 11.7 micron-thick monolayer TiAlN, and (iii) a 2.92 micron-thick multilayer AlTiCrxNy. The main feature of the CrN-NbN coating is the fabrication by the alternate deposition of 4 nm thick-nanolayer of NewChrome (new type of CrN, with strong adhesion and low coating temperature). All the three coatings can reach values of hardness and elastic modulus exceeding 20 and 250 GPa, respectively. Their main applications include stainless steel drawing, plastic materials forming and extrusion, and aluminum alloys die-casting. The here studied TiAlN (SBN, super booster nitride) is one of the latest evolution of TiAlN coatings for cutting applications, where maximum resistance to wear and oxidation are required. The AlTiCrxNy combines the very high wear resistance of the Cr-coatings with peculiarities of the Al-containing coatings, such as high thermal stability and high-temperature hardness. All the coatings were deposited on a S600 tool steel. The coatings were subjected to two different thermal cycling tests: (i) 100 thermal cycles consisting of 60 s dwelling time, respectively at the high- (573 to 1173 K) and at the room-temperature, and (ii) 100 thermal cycles consisting of 115 s dwelling time, at same temperatures of the first test, followed by 5 s dwelling at room-temperature. The temperature induced hardness and elastic modulus coating variations were measured by nanoindentation. RESULTS: During thermal cycling, the TiAlN monolayer coating and the AlTiCrxNy multilayer coating showed a high oxidation resistance even at high temperature, while the CrN-NbN nano-layer coating undergoes a oxidation phenomena, for temperatures above 873 K. CONCLUSIONS: The investigated coatings showed a sufficient-to-optimal thermal response either in terms of mechanical stability, such hardness and elastic modulus, and in terms of oxidation degradation.

The development of artificial photosynthesis is one of the greatest scientific challenges of our times, not only to protect the environment but also to ensure global economic security. To mimic the natural photosynthesis process, a complete understanding of the natural photosynthesis process at the molecular level is essential to enable the production of inexpensive, lightweight, and high-energy-density fuels. Artificial photosynthesis may involve photo/electrocatalytic H2 generation by water splitting or the use of H2 in combination with atmospheric/industrially sourced CO2 conversion products to provide a continuous supply of high-energy carrier fuels at small/medium scales. Recently, Cu2O has received considerable attention in various energy-conversion applications, including photo/electrochemical hydrogen production and the photo/electrochemical conversion of carbon dioxide (CO2) to energy-carrier fuels. The Cu(I) state, with its d10 electronic configuration, is required for cuprous oxides to exhibit photo/electrochemical and chemical catalytic activity. For electrochemical CO2 reduction, Cu(I) sites are proposed to stabilize reaction intermediates such as CO, carbonates (CO23−), formates (HCOO−), and methoxy (H3CO−) adsorbates, as expected from their high heats of adsorption. Although the Cu(I) state makes these materials attractive, the stability of Cu(I) species toward redox reactions remains an issue to be solved. In this study, we report the novel design of multi-metal based electrocatalysts which may introduce different (other than Cu) active species due to effect of the hetro-atoms on the Cu surface. As a result the reaction intermediates on the surface may be stabilized generating CO exclusively as a reaction product of electrochemical reduction of aqueous CO2 while suppressing the competitive H2 generation. The higher selectivity towards CO generation may be attributed to perturbing the d-band metal center or the geometric effects caused by the second metal center around Cu.

Disinfection of drinking water is one of the extreme public health activities in Qatar. Chlorination, ozonation, ultra-violet, chloramination, and others are the most important treatment processes used and they can cause the formation of toxic by-products. The existence of bromide (Br-), for example, in water sources might cause in formation of brominated toxic by-products. Up-to-date drinking water treatment methodologies are challenged to successfully eliminate Br- before final consumption. Remediation onto activated carbons has a number of restrictions. Date pits are suitable as raw remediating adsorbent for preparing various modified adsorbents, because particular surface functional groups and the micro-pore structures can be attained by active modifications. The overall objective of this study was to develop an economical and environmentally acceptable process to safely eliminate the levels of Br- from desalinated water. Roasted date pits (RODPs) and activated charcoal (AC) (used as a control) were crushed and sieved with four different particles size ranges. The percentage of Br- removal was also studied under different experimental conditions such as pH, sorbent mass and initial concentration. In addition, surface characterization was also investigated. Experimental date analyses were investigated using different isotherm and kinetic sorption models. The modification of the date pits surface enhanced the Br- removal capacity at high initial concentration of bromide (200 ppm) by 27%. Using scanning electron microscope (SEM), the date pits surface images showed a different in pore sizes upon modification. Removal capacity of RODPs reached 39% at pH 4. In this study the heterogeneity of adsorbing mechanisms and the fitting with pseudo second order model and inter particulate diffusion models were concluded, and more than 35% of Br- removal efficiency was achieved within the RODPs at the first hour of contact time. The adsorption Br- onto RODPs was not fitted well with the pseudo-first order model. It was found that the kinetics of Br- adsorption was followed the pseudo-second order. It was also observed fluctuations in the removal efficiency for smaller particle sizes; indicating heterogeneity of adsorption/desorption and potential chemical bindings, this particular behaviour was not observed and investigated elsewhere in the literature (Figure below). The surface of RODPs contains oxygen functional groups such hydroxyl; hence the presence of such functional groups on the surface of date pits considerably influences on the adsorption mechanism of organic and inorganic compounds on the RODP. Economically RODPs are successfully used to remove Br-, comparing to AC. However, both adsorbents have nearly the same removal efficiency after one hour contact time. Apparently, the removal efficiency of both systems was quite significant. This may cover the way for the cheap and widely available date pits to be used as an adsorbent in water purification process.

Many hydrocarbon reservoirs - in Qatar and worldwide - are constituted of dolomite. For this reason, the origin of this Ca-Mg carbonate mineral has been extensively studied by generations of geologists, with the goal of exploiting gas and oil from rock reservoirs in the most efficient way. However, despite more than two centuries of research, several fundamental questions regarding the origin of sedimentary dolomite remain without a convincing answer. Recent research conducted in the field of geobiology suggests that dolomite formation may be the result of a microbial process, that is, organic molecules that in natural environments are produced by microorganisms seem to play a key role for dolomite nucleation at low temperatures in many geological settings. However, this innovative hypothesis is far from being unanimously accepted by the scientific community, and many details on the exact mechanism through which microorganisms mediate dolomite formation are still to be fully understood. The aim of this contribution is to summarize the most recent scientific studies that support the microbial model for dolomite formation, providing examples from culture experiments conducted in the laboratory using artificial growth solutions and from modern dolomite forming environments, such as the hypersaline lagoons located in the State of Rio de Janeiro (Brazil), the sabkhas of Abu Dhabi (UAE), and the sabkhas of Dohat Faishakh and Khor Al-Adaid (Qatar). Furthermore, we will elaborate on why we consider the coastal sabkhas of Qatar to be among the most ideal places on Earth where it is possible to study microbe-mineral interactions in evaporitic environments. In fact, thanks to the distinctive geology that characterizes this region, it is possible to obtain samples documenting the progressive transformation of the living microbial mats that mediate dolomite formation and other authigenic minerals into a fully lithified sediment, which is analogous to dolomite formations constituting economically important gas/oil reservoir rocks. This approach will provide key insights to test whether dolomite present in ancient evaporitic sequences can be interpreted as a fully biological product associated with early diagenesis or whether most of the dolomite forms during later stage metamorphic/replacement events that are controlled by purely abiotic processes. Finally, considering not only the scientific importance but also the aesthetic beauty of the Qatari evaporitic environments, we will discuss the idea and the challenges of transforming selected areas of the modern sabkhas into geoparks - protected natural reserves that would be of interest for the local Qatari population, as well as for tourists visiting Qatar.

Management of production from gas reservoirs can be a challenging process. The challenge gets bigger when the reservoir is characterized by having a small pore size, such as the tight carbonate reservoirs which are prominent in this part of the world. In such conditions, condensate blockage becomes a real threat to productivity. Carbon dioxide can be injected into the reservoir to combat this threat. We built a reservoir model to conduct a simulation study with the goal of finding the most feasible method for overcoming the negative impact of condensate formation. We have attempted to simulate huff-n-puff enhanced gas recovery in the same reservoir model, but this method did not achieve much success in alleviating the damage caused by condensate blockage. As a result, according to the model and data we collected, using huff-n-puff is not efficient since it failed to maintain the average reservoir pressure as well as CO2 did, therefore peripheral CO2 injection have been tested. The minimum requirement again is to achieve gas plateau production, while also maximizing the condensate recovery and minimizing the CO2 breakthrough into the wells. It was decided that seven CO2 injector wells were to be placed at strategic locations (injectors have been planned to be drilled away from the reservoir and producing wells) across the field in order to enhance the sweeping of condensate as well as minimize CO2 breakthrough. In other words, the injectors had to be at a distance where it can achieve all our simulation objectives. We ended up understanding the effect of the CO2 injection on condensate formation. As a result, it could be notice how the saturation of oil is high near the producing end of the core, this kind of saturation can completely nullify the relative permeability of gas, whereas after using CO2 flooding, the saturation is decreased significantly and the amount of condensate throughout the core is also much less.

Qatar and the region are experiencing transformative growth over relatively very short periods of time, due primarily to hydrocarbon based energy resources. As the country pushes to meet growing global demand for its finite fossil fuel reserves, it is looking also to capitalize on renewable energy sources including solar power generation. However, the high ambient humidity, high annual average surface temperature, high atmospheric aerosols including haze, secondary organic aerosols and dust particulates, all negatively impact the efficiency of solar power generation technology. We will present over ten years of Aerosol Optical Thickness (AOT) measurements from both ground and satellite based remote sensing data from NASA's Aerosol Robotic Network (AERONET) and Multi-angle Imaging SpectroRadiometer (MISR) instrument onboard the TERRA satellite. AOT is a measure of the atmosphere's ability to attenuate incoming solar radiation. As AOT increases, surface insolation decreases which in-turn decreases the theoretical limit for solar power generation. The data shows a net positive trend in AOT of >1% per annum over most of the Arabian Peninsula, including Qatar. The positive trend is associated with increased intensity of dust events, but not necessarily in the frequency of the events. The trend is observed over the operational spectral range of Photovoltaic (PV) cells (340-1020 nm.) The AOT trend is positive for all months of the year, except November, but exhibits a strong seasonal signature that indicates the dusty months are becoming dustier (March through July) and less productive for solar power generation. Trends in the angstrom parameter, an indicator of the size of the atmospheric aerosols, during the less dusty winter months, indicate an increase in the average size of the atmospheric aerosols, i.e. the winter months too are becoming dustier. Work continues on quantifying the net impact of the observed trend on solar power generation.

Power monitoring is needed in most electrical systems, and is crucial for ensuring reliability in everything from industrial and telecom applications, to automotive and consumer electronics. Power monitoring of integrated circuits (ICs) is also essential, as today ICs exist in most electrical and electronic systems, in a vast range of applications. Many ICs have functional blocks across the chip that are used for different purposes. Power ICs also have multiple circuit blocks, each performing their own function. Measuring circuit block currents in both analog and digital ICs is important in a wide range of applications, including power management as well as IC testing and fault detection and analysis. For example, the presence of different kinds of faults in IC circuit blocks during IC fabrication causes the currents flowing through these circuit blocks to change from the expected values. There has been general interest in monitoring currents through different circuit blocks in an attempt to identify the location and type of the faults. Previous works on nonintrusive load monitoring as well as on power-line communications (PLCs) provide motivation for the work presented here. The techniques are extended and used to develop a new method for power monitoring in ICs. Most solutions to the challenge of measuring currents in different circuit blocks of the IC involve adding circuitry that is both costly and power consuming. In this work, a new method is proposed to enable individual measurement of current consumed in each circuit block within an IC while adding negligible area and power overhead. This method works by encoding the individual current signatures in the main supply current of the IC, which can then be sensed and sampled off-chip, and then disaggregated through signal processing. A demonstration of this power monitoring scheme is given on a modular discrete platform that is implemented based on the UC3842 current-mode controller IC, which can also be used for educational purposes.

Solution combustion synthesis (SCS) is a widely used technique for synthesizing variety of high purity oxide nanoparticles. Two basic modes for combustion synthesis are the self-propagating high temperature synthesis (SHS) and Volume Combustion Synthesis (VCS). The first method is based on the reaction that is locally ignited by an external source (laser, tungsten coil etc) which ends up with an exothermic redox reaction in a self-sustained manner without requiring any further energy for the combustion. Second method is the uniform heating of the entire sample in a controlled manner using a constant heat until the reaction occurs simultaneously throughout the volume. SCS typically involved a self-sustained reaction in a homogeneous solution of oxidizer (metal precursor) and oxygen containing fuels (urea, glycine, hydrazine etc). The selection of fuel is based on the reactive groups such as amino, hydroxyl and carboxyl bonded to a hydrocarbon chain. In our total work, we used two modes of synthesis: VCS and ILCS (impregnated layer combustion synthesis) to synthesize transition metal nanoparticles. The precursors used in this work were Nickel nitrate hexahydrate, Ni(NO3)2.6H2O, Copper nitrate hexahydrate, Cu(NO3)23H2O, Cobalt nitrate hexahydrate, Co(NO3)2. 6H2O and Glycine CH2NH2COOH. The ratio of metal nitrates and glycine were optimized to give pure metals of high surface area. The precursors were thermally analyzed using TGA/DTA to understand the metal phase development with increasing temperature. Phase Composition and average particle size were analyzed using XRD and the specific surface area of the synthesized particle was calculated using BET method, while its morphology was analyzed by SEM. The objective of our work is to synthesize nanoparticle with high surface area, selectivity and reactivity, which will be more suitable to be act as catalysts for electrochemical reaction in the conversion of CO2 to valuable products The XRD calculations indicated crystallite size to be in the range of 8nm - 15 nm indicating small nanoparticles with high surface area suitable of catalytic applications. The XRD profile of Copper-Nickel in glycine for different stiochiometric ratios shows the presence of pure alloy of Copper Nickel at its higher value of ?, say it as 1.75. The multiple peaks in XRD for its lower stiochiometric ratio indicates the presence of oxide. The objective of our work is to synthesize nanoparticle with high surface area, selectivity and reactivity, which will be more suitable to be act as catalysts for electrochemical reaction in the conversion of CO2 to valuable products The large surface area for Copper Nanoparticles were synthesized first which having large surface active sites, they become excellent catalysts in metallurgical and petrochemical Investigation has been done based on the basic mechanism to describe the phase transformation in the combustion front. The SEM analysis pointed a remarkable change in the particle distribution, grain size, porosity and its microstructure by changing the oxidizer/ fuel ratio These nanoparticles are currently being investigated for catalytic reduction of CO2 to valuable chemicals.

Spent Pot Lining (SPL) is produced in thousands of tons annually as a waste from the aluminum industry. SPL is classified into two types, 1st and 2nd Cut SPL. The 1st cut, which is the material under investigation in this study, is a contaminated graphite/ceramics material (50 - 60% of graphite) that is used in lining the electrolytic cell within which aluminum is produced by the reduction of molten Al2O3. 1st Cut SPL is considered as a hazardous material since it contains many other contaminants such as fluorides, cyanides, lead and chromium in addition to its production of flammable gases when it comes in contact with water e.g. ammonia, phosphine, hydrogen and methane. The aim of this study is threefold: (i) fully characterize the 1st Cut SPL produced by Qatalum in Qatar to help in creating the materials safety data sheet (MSDS), (ii) chemically treat this 1st Cut SPL in order to extract the graphite component to use it in other applications in addition to the Cryolite and finally (iii) use the extracted graphite in removing heavy metal ions from aqueous solutions. In this work, the first treatment for 1st Cut SPL was washing it with deionized water. The produced gases were collected in gas bags and characterized using GC-MS which confirmed the evolution of H2 gas when the 1st Cut SPL comes in contact of water. The second step was washing the 1st Cut SPL powder several times with organic solvents to dissolve the existing organic compounds and characterize the eluent using HPLC-MS technique to identify the dissolved organics. A thermal treatment to get rid of the undissolved organic materials was done. Next, surface characterization was carried out for the dried powder which confirmed the absence of any organic materials. Later, the powder was treated with cycles of different concentrations of NaOH, HNO3 and deionized water to remove the remaining inorganic contaminants. The eluents, resulted from the chemical treatment and washing processes, were collected and analyzed using HPLC-MS and ICP. The purity of the produced graphite powder was characterized using XRD to check its purity. The produced graphite powder was functionalized through boiling in 1:1 of H2SO4 : HNO3, washing with deionized water, hot NaOH and finally with deionized water to increase the carboxylate groups on the graphite surface which increases the negative charge on the graphite's surface once mixed with water. The functionalized graphite was proved to Cu ions from aqueous solutions at different pH values with efficiency close to 100 % at pH 10.

THE USE OF WIRELESS SENSOR NETWORKS IN AGRICULTUTE A TOOL FOR A SUSTAINABLE FOOD SUPPLY IN THE ARAB WORLD In this paper some ideas of how to apply the technological advancement of the wireless sensor networks (WSN) in agriculture as a tool for food security is discussed. This will include some examples where the technology can be applied, what changes can this technology brings to the traditional farming, which can help within the solution of the Arab World food security problems. This will help the region to develop and be part of the global strategy for the World food security. WSN features of having a low power consummation nature with different options of using different energy sources will make it as the just technology suitable in a remote and less or without infrastructural bases environment for many countries within the region. The applications of WSN which are suitable for the purpose will be discussed. Keywords: WSN, Food Security, Agriculture in Arab region, WSN Farmer Kits Tool, Energy Sources. Introduction Arabic countries are naturally rich, many countries within the region have a wide virgin land. But unfortunately some of these countries have been a focus in term of food shortages for long time which cause by many factors like land degradation, water crisis, land deals, climate change, agricultural disease, governing system, wars, population growth, land use change, living style change, high prices and lack of technology. As technology has rational parts in solving the most difficult problems for today's society, WSN can be applied in agriculture to reduce or solve this problem. Use of WSN in Agriculture as a solution As traditional farming is the lead in the region, people use their own human sense to perceive the surrounding to investigate the soil and predict the weather. But the remote sensing of the WSN as an activity of recording, observing, perceiving objects or events, wirelessly these happenings are processes and analyzed in a real time. The idea of applying this technology is to be adopted in different applications shortly can be said here. *Soil Investigation by using the specialized soil test sensor detectors to determine the fertility of soil nutrient deficiencies, elements like Nitrogen is very important for plants. *Weather Prediction by using a web data from WSN can be transmitted enabling a remote online interactive retrieval access, and then these data can be shared with the farmers. *Detection of ground water using WSN the level and the amount of sufficient water can be detected before planting. *Using the WSN the water and the area can be controlled during irrigation which will help in reducing the energy consumption. *Food storage system will be advanced by the use of WSN in knowing usage validity time and the space of storing. *Knowing where how and when to deliver what kind of product by using WSN will help in the logistical distribution of crops. *Farming Dissemination by using an integrated WSN tool kit messages can be disseminated.

This paper describes our investigation into the effects of adding aromatic compounds to synthetic aviation fuels on the performance of these fuels. The work was done as an undergraduate research (UREP) project and was an extension to our group's previous studies which were aimed at characterizing blends of conventional and synthetic aviation fuels [1] and identifying optimum paraffinic building blocks for SPK [2]. Aromatics play a key role in aviation fuels as they enhance the density and elastomer swelling properties of these fuels. However, they are absent from synthetic gas-to-liquids (GTL) derived aviation fuels such as synthetic paraffinic kerosene (SPK) and thus must be added in from another source. In the first part of this study, standard analytical tests were conducted on blends of SPK and aromatic additives (styrene and Shell A150) in different concentrations from 0 to 25 % to measure certain fuel properties (i.e. density, flash point, freezing point, heat content and viscosity) using relevant ASTM procedures. The measured properties were then compared with the desired values for certification according to the ASTM D-1655 and D-7566 standards for conventional and hybrid (i.e. mixtures of oil-derived and synthetic fuels obtained from either natural gas or coal) jet fuels, respectively. In particular, ASTM D-7566 specifies the use of the 50-50 synthetic fuel blend with jet A-1; our group's efforts are aimed at increasing the workable synthetic ratio in the fuel. The experimental work was conducted in the Fuel Characterization Lab at Texas A&M University at Qatar. The data generated from these experiments was used to identify correlations between blend compositions and properties. In the second part of this study, small amounts (i.e. 1 vol %) of specialty aromatic compounds (such as benzaldehyde) were added to the blends from the first part of the study, specifically to enhance the elastomer swelling characteristics of these blends. This is a crucial property of aviation fuels as it ensures a tight seal in fuel tanks, thus preventing potentially catastrophic leakages. The added aromatic compounds were identified based on a Hansen solubility parameter analysis, and it was found that their addition favorably increased both the density and elastomer swelling characteristics of the SPK. Notably, three of the blends tested outperformed the elastomer swelling characteristics of conventional Jet A-1 by about a factor of 2. With respect to freezing point, viscosity, heat content, and flash point, the performance of all of the blends tested were in agreement with ASTM standards. These experimental results demonstrate the favorability our approach to synthetic fuel design i.e. the focused introduction of additives to improve the performance of synthetic fuels to standards at par with or, in some cases, surpassing those of conventional jet fuel.

Magnetic Particle Imaging (MPI) is a newly found imaging modality. It utilizes superparamagnetic materials as tracers in the blood stream to obtain very high resolutions. MPI promises to have high sensitivity, high spatial resolution and no radiation compared to other imaging modalities. Most commercially available MRI tracers (used for MPI for now) are all non-harmful when compared to Iodine (used for CT scan) and Gadolinium (used for MRI). MPI research is divided into three categories: MPI scanner development, superparamagnetic materials development, and image reconstruction techniques. In this project a small scale LabView-based system will be developed for use on small lab created phantoms, using 25 nm superparamagnetic iron oxide (SPIO) particles. At first a relaxometer will be developed, the imager will come as the next step. Transmitting and receiving signals will be implemented using LabView and a National Instruments PXI-1033 Chassis. Lab-built coils will be used to send the excitation signal and receive the signal induced by those SPIO's. The objective of this project is to be introduced to a new imaging modality that can have various applications and at the same time considered safe. The system being built is considered inexpensive and shows most of the aspects of how magnetic particle imaging works, starting with the physical phenomena, superparamagnetic nanoparticle properties and relaxation, signal generation and acquisition, and an introduction to the hardware of MPI. The system can be used to introduce engineers and engineering students to the MPI physical phenomena.

Recent rapid development in Qatar has brought awareness and recognition of the importance to catalogue, describe and preserve its biodiversity. Traditional methods of using morphological characteristics for species identification, although important, requires years of experience and is in need of complete specimens before identity is certain. Recent worldwide endeavor of DNA barcoding by using a segment of the mitochondrial gene cytochrome oxidase c 1 (CO1) to describe all species in the world, has gained recognition and popularity. In this student-centered research supported by Undergraduate Research Experience Program (UREP) of Qatar National Research Fund (QNRF), the objective is to sequence the barcoding gene CO1 of the lizards in Qatar and to compare the sequence among closely related species to facilitate future identification. The final results of this study will make available the barcode sequences of CO1 to be included in the GenBank database. Lizard species were collected across Qatar and photographs were taken for appropriated morphological identification. About 0.5 cm3 of muscle tissues were obtained from each specimen for DNA extraction. Currently between 8 to 12 different primer pairs suggested in literature and primer pair combinations were used for 7 species and a variety of programs of polymerase chain reaction (PCR) were employed in order to amplify the segment of gene of about 650 bp. Among the successfully amplified sequences from the 7 species currently analyzed, three species, Trachylepis septemtaeniata, Mesalina brevirostris, and Uromastyx aegyptia produced PCR products. To eliminate the presence of multiple sequences in the PCR product, PCR fragments were ligated to cloning vector in order to amplify one single sequence for each species. The current total success rate (<43%) based on the primer sequences obtained from publish results and from internal primers developed in this study further supports that the universal primers for reptiles are difficult to develop due to deep phylogenetic divergence. Future studies seeking universal primers should focus on candidate genes that evolve more slowly than CO1 gene to ensure higher homology of sequences among the reptilian species.

Objectives: Hereditary Hearing Loss (HHL) is a common genetic disorder accounting for at least 60% of prelingual deafness in children. The long tradition of consanguinity, which is widespread among populations of Arabian Peninsula, increases the prevalence of HHL. It is one of the most frequent causes for school failure in Qatar. GJB2 gene plays a worldwide major role in HHL recessive forms while in Qatar it has a minor role thus strongly suggesting the presence of additional causative genes. To overcome the remarkable genetic heterogeneity of HHL in Qatar population, an extremely powerful 2 steps "gene-identification strategy" was designed (Figure 1). STEP1 consists in a screening of 96 HHL genes by targeted re-sequencing (TS). Positive cases contribute to define an accurate molecular epidemiology picture while negative ones undergo STEP2, a combination of linkage studies and whole exome sequencing (WES) or directly to WES (depending on pedigree size). Methods: Ion Torrent (Life Technologies) (400X of mean target coverage and 581.000 Kb of targets size) was used for STEP1 and Illumina genotyping and Ion Proton (Life Technologies) (90X of mean coverage and 60Mb of target size) were used for STEP2. Sequencing variants were annotated/filtered according to standard pipelines. This strategy was applied to a first series of Qatari families. Results: STEP1 characterized 53% of Qatari families with HHL leading to the identification of 20 novel alleles in known HHL genes (i.e. GJB2, P2RX2, TECTA, TMPRSS3, LOXHD1, MYO15A, TMC1, TRIOBP, WFS1). STEP2 had already led to the discovery of 1 new gene (BDP1). The p*2625Gluext*11 mutation resulting in an elongation of 11 residues of the BDP1 protein was identified in a Qatari recessive family and its expression in the inner ear was confirmed by immunohistochemistry. Conclusion: This combined and powerful strategy proved to be very successful by explaining several HHL unsolved cases and by defining an accurate molecular epidemiology picture of Qatari genes/mutations. Moreover, this approach will be used for developing a "Qatari tailored" molecular diagnostic assay opening new important diagnostic perspectives for a such heterogeneous disorder as well as for defining targets for new possible therapeutic interventions

More than 30 years ago people have learned that exercise promotes oxidative damage in human tissues. Since then, our knowledge on exercise-induced free radical production and their effect has advanced markedly. In the beginning research has mainly focused on detrimental effects of exercise-induced free radical production (e.g. oxidation of macromolecules); however today a new era of redox biology exist that centers on the cell-signaling effects of exercise-induced free radicals, such as reactive oxygen species (ROS) that were shown to play a crucial role in muscle adaptation to exercise. Erythrocytes are rich in membrane polyunsaturated free fatty acid content and have high cellular concentrations of oxygen and haemoglobin that makes them susceptible to ROS induced damage. However, mild oxidative stress has beneficial effect by increasing endogenous antioxidant mechanisms. Thus, in the present work we have used sensitive mass spectrometry techniques to assess the potentially beneficial oxidative modifications of erythrocyte membrane proteins in response to exercise. We have recruited 3 healthy volunteers and their blood was drawn before exercise, immediately after and few hours after exercise. Erythrocyte membranes ("ghosts") were prepared and membrane proteins isolated. Proteins were then separated by 1-D gel electrophoresis, digested with trypsin and peptides analyzed by Orbitrap ELITE coupled with the Easy n-LC II for nano LC-MS/MS. The acquired data was searched with Proteome Discoverer 1.4 against Homo sapiens database to reveal the changes in the erythrocyte membrane proteome. Furthermore, data acquired was also searched through the database using the comprehensive workflow that included several dynamic modifications of peptides, including N-terminal carboxymethyl, C-terminal oxidation and terminal independent oxidation and trioxidation of peptides. The results obtained revealed several proteins that have translocated from the cytoplasm into the membrane following exercise. Moreover, numerous proteins showed exercise dependent modifications and up/down regulation. Exercise induced proteome changes were demonstrated to play an important role in several signaling pathways related to healthy living and lifestyle.

Traditional risk factors often fail to correlate with event incidence, thus there is a need for novel risk assessment in order to predict events and guide therapy in patients with acute coronary syndromes (ACS) following percutaneous coronary intervention (PCI). Peripheral endothelial dysfunction (PED) and obstructive sleep apnea (OSA) can both predict cardiovascular events, yet the prevalence of PED and OSA in patients hospitalized for ACS following PCI is unknown. Patients in the USA (n=65) and Qatar (n=352) were consented, enrolled following PCI for ACS, and underwent endothelial function testing (EndoPAT) on day 5 and home OSA testing (WatchPAT) following PCI. Baseline demographics at the time of patient admission showed only a modest prevalence of traditional CVD risk factors (Figure 1). The prevalence of PED (defined by EndoPAT<2.0) in this cohort was 73% (mean EndoPAT score of 1.8+0.5), and that of OSA 82% (Apnea Hypopnea Index>5; Figure 1). These functional, non-traditional risk factors were significantly more prevalent (p<0.0001) in this population than traditional risk factors, such as prior MI (6%), hypertension (52%), hyperlipidemia (47%), BMI>30 (43%), diabetes (36%), smoking (30%), CHF (1%), or family history of CVD (37%). Prevalence of both PED and OSA was present in 57% of participants. The current study demonstrated a higher prevalence of PED and OSA following ACS than the traditional CVD risk factors, underscoring their potential value for patient management. Detection and treatment of these functional risk factors may predict events and guide therapy in patients with ACS.

Background: Bicuspid aortic valve (BAV) is the most common cardiac malformation affecting 1-2% people worldwide. Despite its high prevalence, the pathogenesis of BAV is largely undetermined, although gene mutations leading to alterations in cell migration and signal transduction, in conjunction with non-genetic factors such as blood flow during valvulogenesis, may contribute to its formation prenatally. Objective: The determination of genetic factors contributing to the presentation of BAV in a family with three affected daughters. Methods: We applied next generation whole exome sequencing (>3Gigabases per individual) to high quality DNA from the blood samples of the three affected daughters and their unaffected parents. The >36.000.000 reads of each of the 5 individuals were analyzed with the bioinformatics tools Burrow-Wheeler Aligner, SOAPsnp, Sam tools, Varscan, and GATK to identify single nucleotide polymorphisms and insertions/deletions. Results: We identified over 38,000 SNPs and 3,400 Indels in each individual, of which >1,000 and >580, respectively, were novel. Forty one SNPs were detected in at least two of the affected siblings but neither parent, and only 3 of those were detected in all three BAV patients: HFM1 (ATP dependent DNA helicase), TSPAN2 (tetraspanin family member) and TTF2 (transcription termination factor, RNA polymerase II - pre-mRNA splicing regulator). All 3 genes carried exonic, non-synonymous SNVs, with highly significant pathogenicity prediction scores (SIFT, PhyloP, MutationTaster, LRT). Eight Indels were detected in at least two of the siblings, and only one of them was common across all three siblings: CCNL2 (cyclin L2). CCLN2 is a regulator of the pre-mRNA splicing process, as well as inducer of apoptosis, by modulating the expression of apoptotic and antiapoptotic proteins. In our patients it was found to carry a four base deletion affecting a splice site. None of the previously reported BAV-related genes were found to carry a common mutation across all, and unique to the BAV patients of this family. Conclusion: We have detected 4 genetic variants, shared by all three BAV patients but neither parent. These genes have not been associated with BAV to date. Of particular interest is the novel variant in TSPAN2, a gene of largely unexplored function, belonging to a transmembrane protein family known to mediate signal transduction events that play a role in the regulation of cell development, activation, growth, adhesion and motility.

Hematological Malignancies (e.g., leukemia and lymphoma) are among the top 5 causes of cancer death in the Middle Eastern Countries, including Qatar, Kuwait and Saudi Arabia. The monoclonal antibody rituximab, directed at the CD20 antigen, has become an essential drug for the treatment of Non Hodgkin Lymphoma (NHL). Although transient B cells depletion frequently occurs after rituximab treatment, it usually resolves after 6-9 months. Nevertheless, high frequency of non-neutropenic infections and persistent hypogammaglobulinaemia during follow-up period have been recently reported. However, impaired humoral response to the recall and primary antigens was found in NHL patients during (or few months after), rituximab treatment. Influenza vaccination is generally recommended in lymphoma patients, but few data are available about the activity of this vaccine after rituximab-containing regimens (RCR). It is presently unclear whether patients treated with RCR regain normal immunocompetence after achievement of complete remission. We present integrated data of 3 sequential studies conduced at our Institutions assessing the humoral response to seasonal influenza vaccination (2008/2009, 2009/2010 and 2011/2012 seasons; RIT-01, RIT-02, and RIT-03 studies, respectively) in NHL patients in complete remission (CR) for at least 6 months after treatment with rituximab-containing regimens (RCR). Overall, we found that patients treated with RCR have a significant lack of humoral response to both recall and naive influenza antigens as compared with HV and with cancer patients treated with chemotherapy not containing rituximab. This weakness was associated with depletion of CD27+ memory b cells. To determine early transcriptional changes predictive of immunoresponsiveness and to determine differences in innate immunity activation among patients treated with RCR, HV, and patients treated with chemotherapy without rituximab, PBMC were collected just before and 1 day after vaccination (RIT-03 study). Whole-genome gene expression analysis of these samples using microarray analysis reveals that the intradermal vaccination was associated with dramatic transcriptomic changes in PBMC, already detectable 24 hours after vaccination. These changes underlie modulation of innate response (eg, interferon stimulated genes, NK-releted transcripts) and differs according to the treatment administered (eg chemotherapy with or without rituximab). In conclusions: a) patients previously treated with RCR should be strictly monitored during influenza epidemic season; b) anti-neoplastic treatments containing rituximab result in prolonged and specific immune alterations.

Noncoding RNAs such as ribosomal RNAs (rRNA), transfer RNAs (tRNA) micro RNAs (miRNA), small interfering RNAs (siRNA) and long noncoding RNAs (lncRNA) are the dominant products of eukaryotic transcription and collectively represent more than 95% of total RNA of the cell. In addition to contributing as the core components of the translational machinery (rRNAs and tRNAs), these noncoding RNAs have been shown to be involved in a myriad of biological processes such as gene expression regulation and genome defence. Recently, a novel class of endogenously encoded species of RNA called circular RNAs (circRNA) has been shown to regulate gene expression in mammals by competing with miRNA targets under diverse scenarios. To investigate the role and regulatory potency of circRNAs in ovarian cancer, we performed paired-end RNA sequencing of 9 ovarian cancer samples from three patients at primary and metastatic stages and developed an in-house computational pipeline to identify and characterize the circRNA candidates. Our results show that circRNAs are widely expressed in ovarian cancer and oncogenic factors in cancer-associated pathways are particularly enriched for circRNAs. We also show that isoform diversity of circRNAs is comparable to that of the linear counterparts and a significant fraction of exons are preferentially expressed as circular forms compared to the canonical linear RNA form. Further, these candidate circRNAs are particularly enriched for miRNA seed matches and the hybridization energies of interaction favourably predicts formation of stable structural dimers between circRNAs and miRNA mature sequences. A large number of candidate circRNAs are also differentially expressed between primary and metastatic stages of ovarian cancer and show co-expression with their gene targets, implying a role for circRNAs in regulating expression of oncogenic factors. Taken together this study adds an important new dimension to the role of miRNAs vis-à-vis circRNAs in fine-tuning of gene expression and disease progression in ovarian cancer.

In Egypt, β-thalassemia is the most common hereditary hemolytic anemia. Cardiac dysfunction, secondary to iron overload with formation of oxygen free radicals, is the most common cause of death in β-thalassemia patients. This study was designed to determine whether the allelic genotype of apolipoprotein E (Apo E), which exhibits antioxidant properties, could represent a genetic risk factor for the development of left ventricular (LV) dysfunction in β-thalassemia major. Fifty Egyptian β-thalassemia major patients were subjected to echocardiography to assess LV function. Apo E genotyping by polymerase chain reaction restriction fragment length polymorphism (PCR-RFLP) was done for all patients in addition to 50 age and sex matched healthy control subjects. Patients were classified into three groups. Group I and II were clinically asymptomatic. Group II subjects had evidence of LV dilatation, while Group III patients had clinical and echocardiographic findings of LV failure. Apo E4 allele was significantly higher among Group II and III than in controls. In conclusion, Apo E4 allele can be considered as a genetic risk factor for LV dysfunctions in β-thalassemic patients. It could be used as predictive indicator for additional risk of LV failure, particularly in asymptomatic patients with LV dilatation, requiring a closer follow-up, to prevent further disease progression

Environment Gene Interaction in Parkinson's disease (EGI-PD) Mohamed M. Salama1, Thomas W. Rösler2, Ali Shalash3, Abdelhaleem Tantawy4, , Günter U. Höglinger2,5 1Toxicology Department, Faculty of Medicine, Mansoura University, Mansoura, Egypt 2Department for Translational Neurodegeneration, German Center for Neurodegenerative Diseases (DZNE), Munich, Germany 3. Department of Neurology, Faculty of Medicine, Ain Shams University, Cairo, Egypt 4. Department of Neurology, Faculty of Medicine, Mansoura University, Mansoura, Egypt 3 Department of Neurology, Technical University, Munich, Germany Introduction: The prevalence of PD is increased in Egypt compared to reports in other countries. Both genetic and environmental causes might be responsible. E.g. a high rate of LRRK2 mutations has been reported in other North African countries, but has not been systematically studied in Egypt. Also, several epidemiologic studies have supported the hypothesis that broadly defined pesticide exposure may increase the risk of PD. A high degree of pesticide use occurs in Egypt due to the limited availability of agricultural areas in the country. Moreover, lack of precautionary measures on applying pesticides leads to increased pesticide exposures. We aimed to study the link between genes encoding detoxifying enzymes and PD-risk genes on one hand and exposure to pesticides on the other hand in the etiology of PD in Egypt. Methods: This work is undertaken in collaboration between the Technische Universtität München, Germany and a network of 16 Egyptian Universities leaded by Mansoura University (Egyptian Network of Neurodegenerative Diseases [ENND]). PD cases from all over Egypt are recruited. Half of the cases were chosen in areas of low pesticide exposure, the other half with high pesticides exposure (farmers 50 years of age or older). Similar numbers of non-PD controls are chosen from two sources; first, patients arriving to outpatient clinic who are not suffering from any other neurodegenerative disorder; secondly, persons accompanying participating PD patients. Controls are further stratified into low pesticides and high pesticides controls, as described for the PD cases. Patients are assessed with a standardized questionnaire to evaluate past exposure to pesticides or other Parkinson-related environmental factors, a standardized clinical neurological examination to verify presence of PD (UK brain bank criteria) and to quantify disease severity (Hoehn & Yahr stage, UPDRS motor part) and genotyping for presence or absence of risk-carrying alleles in detoxification and Parkinson's associated genes. Results: We were able to establish ENND which is the first collaborative network of this type in Egypt. Moreover, we established a functional Standard Operation Procedure to collect and ship clinical data and blood for analysis to the German cooperation partner at TUM. So far, we collected blood and epidemiological data from 70 cases and 80 controls. Preliminary data on the analysis of gene-environment interaction analysis will be presented. Conclusion: This work will provide further insights into the mechanisms of gene environment interplay in the etiology of PD and hopefully insights which allow the establishment of primary preventive measures. Funding: DAAD-funded Al-Tawasul project EGI-PD

Objective: We hypothesized that nebulized magnesium sulfate added to combined bronchodilator and systemic steroid therapy would shorten time to discharge without undue risk. Study design: Patients aged 2 to 14 y with moderate and severe asthma (PRAM severity score >4) admitted to infirmary care were randomized double-blind to 800 mg nebulized isotonic magnesium sulfate or normal saline placebo via Aeroneb Pro and Idehaler, after intensive therapy with combined albuterol-ipratropium and intravenous methylprednisolone. Time to medical readiness for discharge was the primary outcome. Improvement over time in PRAM severity score and other secondary outcomes were compared for the overall group and severe asthma subset. Results: 191 magnesium sulfate and 174 placebo patients met criteria for analysis. The groups were similar with mean baseline PRAM scores>7. Blinded active therapy significantly increased blood magnesium level 2 h post-treatment 0.85 (SD 0.07) vs 0.82 (SD 0.06) mmol/L, p=0.001). There were no important adverse effects. Accelerated failure time analysis showed a non-significantly relatively shortened time to medical readiness for discharge of 14% favoring the magnesium sulfate group, OR=1.14, 95% CI 0.93 to 1.40, p=0.20, with an absolute prolonged time at 24 h of 2.1 h, p=0.5 . Mean times until readiness for discharge were 14.6 h [SD 9.7] vs 15.6 h [SD 11.3] for the investigational and placebo groups, respectively, p=0.9. Conclusions: Adding nebulized magnesium sulfate to combined nebulized bronchodilator and systemic steroid therapy is either very weakly or very rarely effective, or futile for benefitting pediatric patients with moderate or severe asthma.

OBJECTIVE: Differentiation capacity of human preadipocytes exhibits depot specific variation and is influenced by local cytokine production. The effect of obesity-induced insulin resistance on preadipocyte differentiation and its relation to proinflammatory cytokine release was investigated. RESEARCH DESIGN AND METHODS: Differentiation of preadipocytes obtained from subcutaneous & omental tissue biopsies isolated from obese patients undergoing weight reduction surgery and their cytokines release were compared between insulin sensitive and insulin resistant subjects. RESULTS: Compared to subcutaneous-derived cells, omental cells expanded from the same patients showed diminished differentiation, marked by increased proinflammatory cytokines secretion. When subjects were dichotomized into insulin sensitive & insulin resistant depending on their HOMA-IR, preadipocytes derived from insulin sensitive subjects exhibited a greater ability to differentiate into larger adipocytes with more lipid droplets, marked by a lower expression and secretion of IL-6 and TNFα. Addition of these cytokines inhibited preadipocyte differentiation in insulin sensitive-derived cultures, suggesting that proinflammatory cytokines may underlie inhibition of differentiation seen in insulin resistant patients-derived cultures. CONCLUSIONS: These findings suggest that insulin-resistance is associated with impaired preadipocyte differentiation and increased proinflammatory cytokines release. Understanding mechanisms underlying impaired preadipocyte differentiation associated with insulin resistance may help future treatment strategies.

Previous studies have shown that low intensity pulsed ultrasound (LIPUS) can prevent orthodontically induced teeth root resorption (OITRR) in human. Also, stem cells have been used to treat different types of bone defects. Severe OITRR is still untreatable problem in orthodontics. The aim of this study was to evaluate the effect of local injection of osteogenically induced gingival stem cells (OIGSCs) and LIPUS on periodontal ligament (PDL) during tooth movement that induces OITRR in beagle dogs. We hypothesized that local injection of OIGSCs and LIPUS can enhance PDL metabolism and hence enhances the reparative effect of OITRR. Seven adolescent beagle dogs were used and their third and fourth premolars were moved orthodontically. Gingival stem cells were isolated, characterized by flowcytometry and were differentiated into osteoblast -like cells using osteogenic medium to produce osteogenically induced gingival cells (OIGCs). OIGSCs were then re-injected into the alveolar bone in the proximity of the roots of the orthodontically moved teeth. Premolars were randomly divided into five groups. 1) Negative control (OITRR only); 2) Local injection of BMP; 3) OIGSCs; 4) LIPUS and 5) LIPUS +OIGSCs. In LIPUS groups, premolars were treated for four weeks. Animals were then euthanized and tissue blocks were processed for histological and histomorphometric analysis. Cementum thickness, PDL thickness and PDL cell number were counted using Metamorph software. Measurements were made at three levels of the tested roots. Level 1 is the coronal level 9towards the crown); level 2 (middle level of the root) and level 3 (apical, towards the apex of the roots). Variables were compared between groups by Wilcoxon Signed Ranks Test using SPSS statistical package. Results showed that LIPUS, BMP2 and LIPUS+OIGCs significantly increased cementum thickness compared to control group in the apical area of the teeth roots (P<0.05). There was statistically significant increases in PDL thickness and PDL cell count in all groups compared to control group (P<0.05). The combined LIPUS+OIGCs showed the highest cell count between al the groups. Conclusion: LIPUS + OIGCs showed the highest PDL regeneration potential and may be used in clinical cases with severe OITRR.