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Article Citation - Scopus: 2The Effects of Paddy Cultivation and Microbiota Members on Arsenic Accumulation in Rice Grain(Mdpi, 2023) Ersoy Omeroglu, Esra; Bayer, Asli; Sudagidan, Mert; Ozalp, Veli Cengiz; Yasa, IhsanAccess to safe food is one of the most important issues. In this context, rice plays a prominent role. Because high levels of arsenic in rice grain are a potential concern for human health, in this study, we determined the amounts of arsenic in water and soil used in the rice development stage, changes in the arsC and mcrA genes using qRT-PCR, and the abundance and diversity (with metabarcoding) of the dominant microbiota. When the rice grain and husk samples were evaluated in terms of arsenic accumulation, the highest values (1.62 ppm) were obtained from areas where groundwater was used as irrigation water, whereas the lowest values (0.21 ppm) occurred in samples from the stream. It was observed that the abundance of the Comamonadaceae family and Limnohabitans genus members was at the highest level in groundwater during grain formation. As rice development progressed, arsenic accumulated in the roots, shoots, and rice grain. Although the highest arsC values were reached in the field where groundwater was used, methane production increased in areas where surface water sources were used. In order to provide arsenic-free rice consumption, the preferred soil, water source, microbiota members, rice type, and anthropogenic inputs for use on agricultural land should be evaluated rigorously.Article Citation - WoS: 3Citation - Scopus: 3Paper-Based Aptasensor Assay for Detection of Food Adulterant Sildenafil(Mdpi, 2024) Kavruk, Murat; Ozalp, Veli CengizSildenafil is used to treat erectile dysfunction and pulmonary arterial hypertension but is often illicitly added to energy drinks and chocolates. This study introduces a lateral flow strip test using aptamers specific to sildenafil for detecting its illegal presence in food. The process involved using graphene oxide SELEX to identify high-affinity aptamers, which were then converted into molecular gate structures on mesoporous silica nanoparticles, creating a unique signaling system. This system was integrated into lateral flow chromatography strips and tested on buffers and chocolate samples containing sildenafil. The method simplifies the lateral flow assay (LFA) for small molecules and provides a tool for signal amplification. The detection limit for these strips was found to be 68.2 nM (31.8 mu g/kg) in spiked food samples.Article Citation - WoS: 10Citation - Scopus: 11Toughening Mechanism Analysis of Recycled Rubber-Based Composites Reinforced With Glass Bubbles, Glass Fibers and Alumina Fibers(Mdpi, 2021) Kabakci, Gamze Cakir; Aslan, Ozgur; Bayraktar, EminRecycling of materials attracts considerable attention around the world due to environmental and economic concerns. Recycled rubber is one of the most commonly used recyclable materials in a number of industries, including automotive and aeronautic because of their low weight and cost efficiency. In this research, devulcanized recycled rubber-based composites are designed with glass bubble microsphere, short glass fiber, aluminum chip and fine gamma alumina fiber (gamma-Al2O3) reinforcements. After the determination of the reinforcements with matrix, bending strength and fracture characteristics of the composite are investigated by three-point bending (3PB) tests. Halpin-Tsai homogenization model is adapted to the rubber-based composites to estimate the moduli of the composites. Furthermore, the relevant toughening mechanisms for the most suitable reinforcements are analyzed and stress intensity factor, K-Ic and critical energy release rate, G(Ic) in mode I are determined by 3PB test with single edge notch specimens. In addition, 3PB tests are simulated by finite element analysis and the results are compared with the experimental results. Microstructural and fracture surfaces analysis are carried out by means of scanning electron microscopy (SEM). Mechanical test results show that the reinforcement with glass bubbles, aluminum oxide ceramic fibers and aluminum chips generally increase the fracture toughness of the composites.Review Citation - WoS: 7Citation - Scopus: 9A Survey of Covid-19 Diagnosis Using Routine Blood Tests With the Aid of Artificial Intelligence Techniques(Mdpi, 2023) Habashi, Soheila Abbasi; Koyuncu, Murat; Alizadehsani, RoohallahSevere Acute Respiratory Syndrome Coronavirus 2 (SARS-CoV-2), causing a disease called COVID-19, is a class of acute respiratory syndrome that has considerably affected the global economy and healthcare system. This virus is diagnosed using a traditional technique known as the Reverse Transcription Polymerase Chain Reaction (RT-PCR) test. However, RT-PCR customarily outputs a lot of false-negative and incorrect results. Current works indicate that COVID-19 can also be diagnosed using imaging resolutions, including CT scans, X-rays, and blood tests. Nevertheless, X-rays and CT scans cannot always be used for patient screening because of high costs, radiation doses, and an insufficient number of devices. Therefore, there is a requirement for a less expensive and faster diagnostic model to recognize the positive and negative cases of COVID-19. Blood tests are easily performed and cost less than RT-PCR and imaging tests. Since biochemical parameters in routine blood tests vary during the COVID-19 infection, they may supply physicians with exact information about the diagnosis of COVID-19. This study reviewed some newly emerging artificial intelligence (AI)-based methods to diagnose COVID-19 using routine blood tests. We gathered information about research resources and inspected 92 articles that were carefully chosen from a variety of publishers, such as IEEE, Springer, Elsevier, and MDPI. Then, these 92 studies are classified into two tables which contain articles that use machine Learning and deep Learning models to diagnose COVID-19 while using routine blood test datasets. In these studies, for diagnosing COVID-19, Random Forest and logistic regression are the most widely used machine learning methods and the most widely used performance metrics are accuracy, sensitivity, specificity, and AUC. Finally, we conclude by discussing and analyzing these studies which use machine learning and deep learning models and routine blood test datasets for COVID-19 detection. This survey can be the starting point for a novice-/beginner-level researcher to perform on COVID-19 classification.Article Citation - WoS: 3Citation - Scopus: 4Anti-Inflammatory, Antioxidant, and Anti-Atherosclerotic Effects of Natural Supplements on Patients With Fmf-Related Aa Amyloidosis: a Non-Randomized 24-Week Open-Label Interventional Study(Mdpi, 2022) Romano, Micol; Garcia-Bournissen, Facundo; Piskin, David; Rodoplu, Ulkumen; Piskin, Lizzy; Elzagallaai, Abdelbaset A.; Demirkaya, ErkanWe aimed to evaluate the effect of a combination of natural products on parameters related to inflammation, endothelial dysfunction, and oxidative stress in a cohort of familial Mediterranean fever (FMF) patients with Serum Amyloid A amyloidosis, in a non-randomized, 24-week open-label interventional study. Morinda citrifolia (anti-atherosclerotic-AAL), omega-3 (anti-inflammatory-AIC), and extract with Alaskan blueberry (antioxidant-AOL) were given to patients with FMF-related biopsy-proven AA amyloidosis. Patients were >18 years and had proteinuria (>3500 mg/day) but a normal estimated glomerular filtration rate (eGFR). Arterial flow-mediated dilatation (FMD), carotid intima media thickness (CIMT), and serum biomarkers asymmetric dimethylarginine (ADMA), high sensitivity C-reactive protein (hs-CRP), pentraxin (PTX3), malondialdehyde (MDA), Cu/Zn-superoxide dismutase (Cu/Zn-SOD), and glutathione peroxidase (GSH-Px) were studied at baseline and after 24 weeks of treatment. A total of 67 FMF-related amyloidosis patients (52 male (77.6%); median age 36 years (range 21-66)) were enrolled. At the end of a 24-week treatment period with AAL, AIC, and AOL combination therapy, ADMA, MDA, PTX3, hsCRP, cholesterol, and proteinuria were significantly decreased compared to baseline, while CuZn-SOD, GSH-Px, and FMD levels were significantly increased. Changes in inflammatory markers PTX3, and hsCRP were negatively correlated with FMD change, and positively correlated with decreases in proteinuria, ADMA, MDA, cholesterol, and CIMT. Treatment with AAL, AIC and AOL combination for 24 weeks were significantly associated with reduction in inflammatory markers, improved endothelial functions, and oxidative state. Efficient control of these three mechanisms can have long term cardiovascular and renal benefits for patients with AA amyloidosis.Article Citation - WoS: 3Citation - Scopus: 7Some Results on S-contractions of Type e(Mdpi, 2018) Fulga, Andreea; Karapinar, ErdalIn this manuscript, we consider the compositions of simulation functions and E-contraction in the setting of a complete metric space. We investigate the existence and uniqueness of a fixed point for this composite form. We give some illustrative examples and provide an application.Article Citation - WoS: 4Citation - Scopus: 4Effects of Cerium Oxide on Kidney and Liver Tissue Damage in an Experimental Myocardial Ischemia-Reperfusion Model of Distant Organ Damage(Mdpi, 2024) Gunes, Isin; Dursun, Ali Dogan; Ozdemir, Cagri; Kucuk, Aysegul; Sezen, Saban Cem; Arslan, Mustafa; Ozer, AbdullahBackground and Objectives: Ischemia-reperfusion (I/R) injury is a process in which impaired perfusion is restored by restoring blood flow and tissue recirculation. Nanomedicine uses cutting-edge technologies that emerge from interdisciplinary influences. In the literature, there are very few in vivo and in vitro studies on how cerium oxide (CeO2) affects systemic anti-inflammatory response and inflammation. Therefore, in our study, we aimed to investigate whether CeO2 administration has a protective effect against myocardial I/R injury in the liver and kidneys. Materials and Methods: Twenty-four rats were randomly divided into four groups after obtaining approval from an ethics committee. A control (group C), cerium oxide (group CO), IR (group IR), and Cerium oxide-IR (CO-IR group) groups were formed. Intraperitoneal CeO2 was administered at a dose of 0.5 mg/kg 30 min before left thoracotomy and left main coronary (LAD) ligation, and myocardial muscle ischemia was induced for 30 min. After LAD ligation was removed, reperfusion was performed for 120 min. All rats were euthanized using ketamine, and blood was collected. Liver and kidney tissue samples were evaluated histopathologically. Serum AST (aspartate aminotransferase), ALT (alanine aminotransaminase), GGT (gamma-glutamyl transferase), glucose, TOS (Total Oxidant Status), and TAS (Total Antioxidant Status) levels were also measured. Results: Necrotic cell and mononuclear cell infiltration in the liver parenchyma of rats in the IR group was observed to be significantly increased compared to the other groups. Hepatocyte degeneration was greater in the IR group compared to groups C and CO. Vascular vacuolization and hypertrophy, tubular degeneration, and necrosis were increased in the kidney tissue of the IR group compared to the other groups. Tubular dilatation was significantly higher in the IR group than in the C and CO groups. TOS was significantly higher in all groups than in the IR group (p < 0.0001, p < 0.0001, and p = 0.006, respectively). However, TAS level was lower in the IR group than in the other groups (p = 0.002, p = 0.020, and p = 0.031, respectively). Renal and liver histopathological findings decreased significantly in the CO-IR group compared to the IR group. A decrease in the TOS level and an increase in the TAS level were found compared to the IR group. The AST, ALT, GGT, and Glucose levels are shown. Conclusions: CeO2 administered before ischemia-reperfusion reduced oxidative stress and ameliorated IR-induced damage in distant organs. We suggest that CeO2 exerts protective effects in the myocardial IR model.Article Citation - WoS: 3Citation - Scopus: 4Assessment of Surrogate Markers for Cardiovascular Disease in Familial Mediterranean Fever-Related Amyloidosis Patients Homozygous for M694v Mutation in mefv Gene(Mdpi, 2022) Sahin, Sezgin; Romano, Micol; Guzel, Ferhat; Piskin, David; Poddighe, Dimitri; Sezer, Siren; Demirkaya, ErkanCardiovascular disease (CVD) remains underestimated in familial Mediterranean fever-associated AA amyloidosis (FMF-AA). We aimed to compare early markers of endothelial dysfunction and atherosclerosis in FMF-AA with a homozygous M694V mutation (Group 1 = 76 patients) in the Mediterranean fever (MEFV) gene and in patients with other genotypes (Group 2 = 93 patients). Measures of increased risk for future CVD events and endothelial dysfunction, including flow-mediated dilatation (FMD), pentraxin-3 (PTX3), and carotid intima-media thickness (cIMT), and fibroblast growth factor 23 (FGF23) as a marker of atherosclerotic vascular disease were compared between groups. The frequency of clinical FMF manifestations did not differ between the two groups apart from arthritis (76.3% in Group 1 and 59.1% in Group 2, p < 0.05). FMD was significantly lower in Group 1 when compared with Group 2 (MD [95% CI]: -0.6 [(-0.89)-(-0.31)]). cIMT, FGF23, and PTX3 levels were higher in Group 1 (cIMT MD [95% CI]: 0.12 [0.08-0.16]; FGF23 MD [95% CI]: 12.8 [5.9-19.6]; PTX3 MD [95% CI]: 13.3 [8.9-17.5]). In patients with FMF-AA, M694V homozygosity is associated with lower FMD values and higher cIMT, FGF23, and PTX3 levels, suggesting increased CVD risk profiles. These data suggest that a genotype-phenotype association exists in terms of endothelial dysfunction and atherosclerosis in patients with FMF-AA.Article Citation - WoS: 3Citation - Scopus: 5Impact of Green Wall and Roof Applications on Energy Consumption and Thermal Comfort for Climate Resilient Buildings(Mdpi, 2025) Turhan, Cihan; Carpino, Cristina; Austin, Miguel Chen; Ozbey, Mehmet Furkan; Akkurt, Gulden GokcenNowadays, reducing energy consumption and obtaining thermal comfort are significant for making educational buildings more climate resilient, more sustainable, and more comfortable. To achieve these goals, a sustainable passive method is that of applying green walls and roofs that provide extra thermal insulation, evaporative cooling, a shadowing effect, and the blockage of wind on buildings. Therefore, the objective of this study is to evaluate the impact of green wall and roof applications on energy consumption and thermal comfort in an educational building. For this purpose, a university building in the Csb climate zone is selected and monitored during one year, as a case study. Then, the case building is modelled in a well-calibrated dynamic building energy simulation tool and twenty-one different plant species, which are mostly used for green walls and roofs, are applied to the envelope of the building in order to determine a reduction in energy consumption and an increase in thermal comfort. The Hedera canariensis gomera (an ivy species) plant is used for green walls due to its aesthetic appeal, versatility, and functional benefits while twenty-one different plants including Ophiopogon japonicus (Mando-Grass), Phyllanthus bourgeoisii (Waterfall Plant), and Phoenix roebelenii (Phoenix Palm) are simulated for the green roof applications. The results show that deploying Hedera canariensis gomera to the walls and Phyllanthus bourgeoisii to the roof could simultaneously reduce the energy consumption by 9.31% and increase thermal comfort by 23.55% in the case building. The authors acknowledge that this study is solely based on simulations due to the high cost of all scenarios, and there are inherent differences between simulated and real-world conditions. Therefore, the future work will be analysing scenarios in real life. Considering the limited studies on the effect of different plant species on energy performance and comfort, this study also contributes to sustainable building design strategies.Article Citation - WoS: 5Unraveling the Major Determinants Behind Price Changes in Four Selected Representative Agricultural Products(Mdpi, 2024) Aktepe, Nisa Sansel Tandogan; Kayral, Ihsan ErdemThis study aims to analyze the drivers behind price changes in agricultural products in T & uuml;rkiye from 2002 to 2021, considering the impacts of three crises of different causes which are the global food crisis, the Russia-T & uuml;rkiye aircraft crisis, and the COVID-19 pandemic. The potential factors are categorized into four subgroups: governmental effects, agricultural inputs, macroeconomic indicators, and climatic conditions. The selected agricultural goods for price change measurement include wheat and maize representing subsistence goods, and olive oil and cotton as marketing goods. The autoregressive distributed lag (ARDL) model is applied to observe both the short- and long-term impacts of the variables on price developments. The results suggest that government effectiveness, regulatory quality, nitrogen use, water price, money supply, exchange rate, and GDP under the related categories are the most effective factors in price changes. Among the variables under the category of climatic conditions, significant values are obtained only in the analysis of the temperature impact on olive oil. The analysis also reveals the variable impact of crises on the prices of the chosen products, depending on the goods involved. The maize and wheat analyses yield particularly noteworthy results. In the long run, nitrogen use demonstrates a substantial positive impact, registering at 29% for wheat and 19.47% for maize, respectively. Conversely, GDP exhibits a significant negative impact, with 26.15% and 20.08%. Short-term observations reveal that a unit increase in the governmental effect leads to a reduction in inflation for these products by 17.01% and 21.42%. However, changes in regulatory quality result in an increase in inflation by 25.45% and 20.77% for these products, respectively.
