Sürdürülebilir Yeşil Kampüs Koleksiyonu / Sustainable Green Campus Collection
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Article Citation - WoS: 14Citation - Scopus: 16Transcriptomic Analysis of Boron Hyperaccumulation Mechanisms in Puccinellia Distans(Elsevier Ltd., 2018) Öztürk, Saniye Elvan; Göktay, Mehmet; Has, Canan; Babaoğlu, Mehmet; Allmer, Jens; Doğanlar, Sami; Frary, AnnePuccinellia distans, common alkali grass, is found throughout the world and can survive in soils with boron concentrations that are lethal for other plant species. Indeed, P. distans accumulates very high levels of this element. Despite these interesting features, very little research has been performed to elucidate the boron tolerance mechanism in this species. In this study, P. distans samples were treated for three weeks with normal (0.5 mg L−1) and elevated (500 mg L−1) boron levels in hydroponic solution. Expressed sequence tags (ESTs) derived from shoot tissue were analyzed by RNA sequencing to identify genes up and down-regulated under boron stress. In this way, 3312 differentially expressed transcripts were detected, 67.7% of which were up-regulated and 32.3% of which were down-regulated in boron-treated plants. To partially confirm the RNA sequencing results, 32 randomly selected transcripts were analyzed for their expression levels in boron-treated plants. The results agreed with the expected direction of change (up or down-regulation). A total of 1652 transcripts had homologs in A. thaliana and/or O. sativa and mapped to 1107 different proteins. Functional annotation of these proteins indicated that the boron tolerance and hyperaccumulation mechanisms of P. distans involve many transcriptomic changes including: alterations in the malate pathway, changes in cell wall components that may allow sequestration of excess boron without toxic effects, and increased expression of at least one putative boron transporter and two putative aquaporins. Elucidation of the boron accumulation mechanism is important in developing approaches for bioremediation of boron contaminated soils.Article Citation - WoS: 14Citation - Scopus: 17Blowout Mechanism of Alasehir (turkey) Geothermal Field and Its Effects on Groundwater Chemistry(Springer Verlag, 2017) Rabet, Rita Sandrina; Şimşek, Celalettin; Baba, Alper; Murathan, AlimAnatolia region is one of the most seismically active regions in the world and has a considerably high level of geothermal energy potential. Some of these geothermal resources have been used for power generation and direct heating. Most of the high enthalpy geothermal systems are located in western part of Turkey. Alasehir is the most important geothermal site in western part of Turkey. Many geothermal wells have been drilled in Alasehir Plain to produce the geothermal fluid from the deep reservoir in the last 10 years. A blowout accident happened during a geothermal well drilling operation in Alasehir Plain, and significant amount of geothermal fluid surfaced out along the fault zone in three locations. When drilling string entered the reservoir rock about 1000 m, blowout occurred. As the well head preventer system was closed because of the blowout, high-pressure fluid surfaced out along the fault zone cutting the Neogene formation. In order to understand the geothermal fluid effects on groundwater chemistry, physical and chemical compositions of local cold groundwater were monitored from May 2012 to September 2014 in the study area. The geothermal fluid was found to be of Na–HCO3 water type, and especially, arsenic and boron concentrations reached levels as high as 3 and 127 mg/L, respectively. The concentrations of arsenic and boron in the geothermal fluid and groundwater exceeded the maximum allowable limits given in the national and international standards for drinking water quality. According to temporally monitored results, geothermal fluid has extremely high mineral content which influenced the quality of groundwater resources of the area where water resource is commonly used for agricultural irrigation.Master Thesis B and Se Transport Modeling in Saturated/Unsaturated Zones(Izmir Institute of Technology, 2002) Yüreklitürk, O. Emin; Tayfur, GökmenThere has been renewed interest in the application of models to the transport of non-point source pollutants. However, very little work has been done to evaluate the performance of a functional transient-state model for the transport of a reactive solute over an extensive study period. This research consists of mathematical modeling to simulate water flow, boron and selenium transport through soil in tile-drained croplands.For Boron part a mathematical model was developed to simulate non-conservative boron transport. The dynamic two-dimensional finite element model simulates water flow and boron transport in saturated-unsaturated soil system, including boron sorption and boron uptake by root-water extraction. Two different models have been employed for the sorption of boron. Similarly, for selenium part a finite element model is developed to simulate species of selenium transport in two dimensions in saturated/unsaturated zones. The model considers water, selenate, selenite and selenomethionine uptake by plants. It also considers oxidation/reduction, volatilization, and chemical and biological transformations of selenate, selenite, and selenomethionine. Comparison of boron transport model results with observed data is satisfactory. The model employed with Langmuir isotherm was found to give slightly better simulation results when compared with the model employed with Freundlich. The sensitivity analysis results indicate that the irrigation scheduling and the irrigation water quality are very important parameters for boron accumulation in the soil. Also the adsorption isotherm parameters, which reflect us the soil properties, are found to be important for the boron movement in the soil. Comparison of selenium transport model with observed data is not quite satisfactory in accuracy when compared with the model for boron transport. This may be the result of the complexity of the mechanisms affecting the selenium transport in soil. There are too many parameters, and due to the errors depending on the parameters, the total error for the estimation of the total selenium increases.Master Thesis Proteomic Analysis of Boron Stress Response in Yeast Saccharomyces Cerevisiale(Izmir Institute of Technology, 2011) Avşar, Kadir; Koç, AhmetBoron is a versatile element distributed in every part of the environment but most of its deposit reserves are localized in a few countries, Turkey being one of the most prominent. Boron is known to be an essential micronutrient for plants and some animals. Like any other essential element it has toxicity in high concentrations. Herein the mechanism of toxicity and the elements of the boron stress response were investigated in Saccharomyces cerevisiae with a proteomics approach. Boron is believed to have played a role in the evolution of life on earth. It has strongly electrophile organic compounds, the most important physiological form being boric acid. Boric acid has a capacity to bind cis-located hydroxl groups and some amino groups. Some of these groups are located at the active sites of some enzymes and at the carbohydrates with five-membered furanose rings. The riboses of some metabolically important molecules like S-adenosyl methionine, diadenosine phosphate family members and 3'end of RNAs are prone to be affected. The yeast cells subjected to boron in this study expressed higher amounts of carbohydrate metabolic enzymes, proteins involved in protein synthesis, protein folding and catabolism, redox homeostasis and nucleotide synthesis. All of these proteins are common to metal stress responses in yeasts. Some of them involve in other stress responses like peroxide, salt or herbicide stresses showing complex interplay between responses.