Sürdürülebilir Kalkınma Amaçları

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• MakaleYalnız künye2026/r/kostu/10974
  Suppressing Liver Cancer via the VEGFR1 Receptor using De novo Ellagic Acid Derivatives and Co-drugs: Comprehensive In silico Biochemistry Research with ADMET, RMSD, Molecular Docking, and Molecular Dynamics Simulations

  Agar, S; Acar, E; Aldemir, O; Gokoluk, E; Issa, G; Bogdanov, J

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• MakaleAçık Erişim2026/r/kostu/10860
  In silico biochemical de novo drug design of valproic acid derivatives to suppress cancerous dna: comprehensive molecular docking, molecular dynamics, 1 h nmr, adme

  Acar, Esra; Issa, Ghassan; Agar, Soykan; Gökoluk, Erkan; Giglou, Erfan Akhavan; Şimşek, Dilruba

  Objective: This comprehensive in silico computational and theoretical biochemistry/organic chemistry research study covers the inhibition methodologies of 1-BNA, which is an essential template for cancer- suppressing research. By disrupting the minor groove domain binding site of the DNA template 1-BNA dodecamer, three de novo drug candidate molecules via derivatization of anti-epileptic valproic acid (VPA) drug were designed. Methods: Calf thymus DNA (ct-DNA) sequence d(CGCGAATTCGCG)2 dodecamer (PDB ID: 1BNA) was obtained from the Protein Data Bank to study. Molecular docking simulations, the most updated docking programs of AutoDock Vina and PyRx were utilized. Molecular dynamics (MD) simulations and Absorption, distribution, metabolism and excretion (ADME) analyses were employed by Schrödinger’s Desmond software. Results: Thorough in silico results of three new derivatized analogues of VPA showed that chloro-derivatized analogue with its -9.6 kcal/mol docking score and 297.2 µM inhibition constant (IC) has a much better indication in the suppression where isopropyl and fluoro derivatized analogues possess -9.1 kcal/mol docking score with 483.8 µM IC and - 8.3 kcal/mol docking score with 896.2 µM IC respectively compared to the results of pristine VPA’s -8.2 kcal/mol docking score with 863.6 µM IC. Along with the detailed ADME results, isopropyl and chloro- derivatized ligands prove their worth of being a new drug candidate. Conclusion: All results proved that the de novo derivatives of VPA illustrate better docking scores (better suppression) along with better ICs and oral absorption percentage values, meaning that the analogues possess better indications compared to pristine VPA toward the suppression of cancerous cell template DNA.

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• MakaleAçık Erişim2026/r/kostu/10836
  Investigation of pathogenic contamination on toy materials through microbiological and structural characterization approaches

  Acar, Esra; Issa, Ghassan; Aksu, Harun; Altuner, Elif Esra; Aldemir, Ozan

  Objective: Toys in kindergartens are frequently exposed to environmental contaminants and hand contact, making them potential reservoirs for pathogenic microorganisms. Children, with developing immune systems, are particularly vulnerable to infections. This study aimed to detect Escherichia coli, Staphylococcus aureus, and coliform bacteria on toys and to characterize toy materials using FTIR, XRD, and SEM. Methods: Swab samples were collected from toy surfaces under aseptic conditions and transported under cold-chain conditions. Samples were homogenized in buffered peptone water and serially diluted. Coliforms were detected on VRB and BGBLB media, E. coli on TBX medium, and S. aureus on Baird-Parker Agar with Egg Yolk Tellurite. Identification was confirmed via Gram staining, catalase, DNase, hemolysis, and carbohydrate fermentation tests. FTIR assessed functional groups, XRD examined crystalline structures, and SEM observed surface morphology related to microbial adhesion. Results: Bacteriological analysis showed Staphylococcus spp. (35.33%), S. aureus (5%), E. coli (1%), and coliforms (3.66%). FTIR revealed diverse polymeric structures, XRD showed varying crystallinity, and SEM indicated heterogeneous surface roughness and irregular microstructures facilitating bacterial adhesion. Conclusion: Combining microbiological analyses with FTIR, XRD, and SEM provides a comprehensive method for assessing contamination risks. Kindergarten toys can harbor potentially pathogenic microorganisms, and the structural characteristics of toy materials significantly influence microbial persistence.

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• MakaleAçık Erişim2026Scopus SJRQ3/r/kostu/10612
  Synthesis, Characterization, and Anticancer Activity of Pyrene-Based Schiff Base Ligands and Their Transition Metal Complexes

  Ay, Hilal; Sahin, Ozlem; Karakurt, Serdar; Altuner, Elif Esra; Aldemir, Ozan; Acar, Esra; Sahin, Mustafa

  This study details the synthesis, characterization of unsymmetrical Schiff base ligand and their metal complexes Ni(II), Zn(II), Pb(II), and Cu(II) for anticancer assessment. These ligands were prepared by condensation reaction between 1,2-phenylenediamine in combinations with 2,5-dihydroxybenzaldehyde, 1-pyrenecarboxaldehyde, and 3-hydroxybenzaldehyde, producing distinctive molecular structures. Comprehensive analysis of their structural and electronic properties were conducted using elemental analysis, UV–Vis, FT-IR. 1H NMR, 13C-NMR spectroscopy, supplemented by magnetic moment measurements and fluorescence studies. The biological efficacy of the Schiff base derivatives was tested against DLD1 colon cancer cells, with cellular imaging employed to observe their effects. Notably, cytotoxicity assays showed IC50 values of 38.4 µM for ligand L1′and 7.3 µM for ligand L2′, indicating strong activity against colorectal carcinoma (CRC) cells. Significantly, both compounds exhibited minimal toxicity toward healthy epithelial cells (IC50 > 200 µM), demonstrating their selective anticancer potential.

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• Derleme MakaleAçık Erişim2026Scopus SJRQ2/r/kostu/10455
  Sustainable Ammonia Production, Advances in Electrochemical, Photoelectrochemical, and Photocatalytic Technologies for Green Energy

  Shahin, Musarat; Mohsin, Abdul Haseeb; Bibi, Aiman; Ahmad, Ihtisham; Altuner, Elif Esra; Aldemir, Ozan; Durmusoglu, Senol; Yilancilar, Mehmet Sabit; Tanriverdi, Yavuz; Acar, Esra

  Substantial advances have been made since the 1970s in reducing the environmental impacts of ammonia production. Renewable-driven electrochemical synthesis offers a promising pathway to decarbonize ammonia production. This review examines an integrated route in which hydrogen is generated photoelectrochemically under concentrated solar irradiation and subsequently used in electrochemical ammonia synthesis. Photoelectrochemical cells are fabricated by electrostatically depositing photosensitive particles onto cathodes to enhance light-driven hydrogen production. Hydrogen production rates and ammonia yield depend strongly on temperature and electrolyte composition. The synthesized hydrogen is fed into a molten salt electrochemical reactor that operates at atmospheric pressure and receives nitrogen from a dedicated supply. This combined solar–electrochemical approach can produce low-carbon ammonia with improved safety and reduced environmental impact, offering a scalable alternative to conventional processes.

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  AtıfScopus1·OpenAlex1

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• MakaleAçık Erişim2025Scopus SJRQ4/r/kostu/10355
  Can cinnamon reduce endoplasmic reticulum stress in diabetic nephropathy?: An experimental rat model

  Oztas, Berrin; Eraldemir, Fatma Ceyla; Akbal, Sezgi; Acar, Esra; Hunc, Fatih; Yilmaz, Melda Yardimoglu

  Objectives: The aim was to investigate the effects of cinnamon on the kidney tissue serum endoplasmic reticulum (ER) stress marker, reticulone (RTN)1A, receptor for advanced glycation end products (RAGE) and the lipid peroxidation indicator, malondialdehyde (MDA) in an experimental diabetes mellitus (DM) rat model. Methods: Twenty-eight male Wistar Albino rats (six months old and weighing 350–400 g) were divided equally into four groups: 1) Control group-citrate buffer (0.2 M, pH 4.4; ip); 2) Cinnamon group-cinnamon (600 mg/kg/day, orogas-tric tube); 3) DM group-STZ (35 mg/kg, ip); and 4) DM + cinnamon group; Cinnamon and STZ were given at the same doses and route as in Groups 2 and 3, respectively. At the end of the 12-week experiment period, serum, urine and kidney tissue samples were taken from all groups. Serum RTN 1A, RAGE, MDA, urea, blood urea nitrogen (BUN), creatinine levels andkidney tissue RTN 1A, RAGE and MDA levels were measured. Results: Our biochemical results showed that there was a statistically significant decrease in RAGE and MDA levels in the DM + cinnamon group compared to the DM group (p<0.05). In addition, the decrease in serum urea, BUN, and creatinine levels in the DM + cinnamon group was also remarkable (p<0.05). Althought histologically no widespread necrosis was observed, cortical interstitial vascular dilatation was observed in DM+cinnamon group. Conclusion: Cinnamon was effective in reducing markers of oxidative stress and ER stress including RAGE and MDA, in kidney tissue in an animal model of diabetic nephropathy.

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• MakaleYalnız künye2024/r/kostu/10925
  Effect of chronic stress on serum and tissue levels of klotho and tnf-α

  Acar, Esra; Colak, Tuncay; Eraldemir, Fatma Ceyla; Yener, Mehmet Deniz

  Objective: Chronic stress is recognized as a factor that affects almost all organs and tissues and disrupts homeostasis. Stress also directly impacts the inflammatory process. In addition, klotho is a protein associated with lifespan. This study investigates the relationship that chronic stress has with klotho and tumor necrosis factor alpha (TNF-α), which is a key protein in the proinflammatory process. Materials and Methods: The study involves 16 Wistar albino rats divided into control and stress groups. The study applies the protocol for the chronic unpredictable mild stress (CUMS) model and uses the enzymelinked immunosorbent assay (ELISA) method to measure the TNF-α and Klotho levels in the serum, heart, aorta, and liver tissues. Results: The serum samples obtained from the stress group were found to have a significant decrease in klotho levels (p=0.013) and high TNF-α levels (p=0.042). However, no significant difference was observed in the TNF-α or klotho levels in the heart, aorta, and liver tissues between groups. Conclusion: Under chronic stress, a significant increase is observed in TNF- α, one of the main cytokines of inflammation, as well as a decrease in klotho hormone. This research endeavors to contribute to the existing body of knowledge concerning the interplay among stress, inflammation, and longevity.

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• MakaleAçık Erişim2024/r/kostu/10813
  Investigation of TXNIP, VDR and hOGG1 gene expression patterns and potential therapeutic targets in bladder cancer patients

  Acar, Esra; Dillioglugil, Meltem Ozlen; Sarihan, Mehmet; Yilmaz, Hasan; Yuksekkaya, Mustafa; Ates, Fatma; Ercan, Alev Meltem; Dillioglugil, Ozdal

  Backround. The aim of this study was to examine the expression levels of the Thioredoxin interacting protein (TXNIP), Vitamin D receptor ( VDR), Human 8-oxoguanine DNA N-glycosylase 1 (hOGG1) genes in bladder cancer patients, according to clinical staging and determine the levels of potential therapeutic targets in serum samples. Material and Methods. Tissue and serum samples of patients who underwent transurethral resection (TUR) between 2017 and 2018 were obtained. Levels of TXNIP, hOGG1, and VDR genes were assessed using Real time-polymerase chain reaction (RT-PCR), while levels of Thioredoxin (Trx), 8-hydroxy-2'-deoxyguanosine (8-OHdG), and 1,25-dihydroxyvitamin D (25(OH)D3) were evaluated using the enzyme-linked immunosorbant assay (ELISA) method. Selenium levels were also measured using Optical Emission Spectroscopy (ICP-OES) in both tissue and serum samples. The protein-protein interactions and molecular and biological function of the proteins were assessed using Search Tool for the Retrieval of Interacting Genes/Proteins. Statistical analysis was conducted using IBM SPSS Statistics version 20.0. Results. The TXNIP gene showed higher expression in low-grade bladder cancer patients up to stage T1, but decreased in high-grade T1 and T2 stages. Both VDR and hOGG1 gene expressions were consistently lower across all clinical subgroups. No significant differences were found in serum 25(OH)D3, 8-OHdG, Hypoxia Inducible Factor 1 Alpha (HIF-1 alpha), selenium (Se), and tissue Se levels. Conclusions. TXNIP mRNA expression was remarkably lower in advanced stages. VDR and hOGG1 expression were low in all bladder cancer subgroups. These parameters could serve as potential targets for preventing or treating bladder cancer.

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• MakaleAçık Erişim2023/r/kostu/10453
  Effect of Chronic Unpredictable Mild Stress on Hippocampus and Serum Markers in Rats

  Yener, Mehmet Deniz; Colak, Tuncay; Ozbek, Sema Kurnaz; Ceylan, Sureyya; Acar, Esra; Kir, Hale Maral

  Objective: Unpredictable stress is a common factor that we encounter in our daily lives. In this context, we wanted to investigate the morphological effects of a chronic unpredictable mild stress (CUMS) model on rat hippocampus and serum levels of brain derived neurotrophic factor (BDNF) and glial fibrillary acidic protein (GFAP). Materials and Methods: This study was carried out on 16 Wistar albino rats which were divided into control and experiment groups. The CUMS model protocol was applied, and the morphological structures of the hippocampus were examined. The serum GFAP/BDNF levels were measured by ELISA method. Results: The mean BDNF level was 1.65 ± 0.17 ng/mL in the control group and 2.25 ± 0.29 ng/mL in the CUMS group. The mean GFAP level was 3.04 ± 0.45 ng/mL in the control group and 2.96 ± 0.58 ng/mL in the CUMS group. When the polymorph cell layer (PCL) in gyrus dentatus was examined; the mean number of cells in the control group was 20 ± 1.38 for the left PCL and 17 ± 1.35 for the right PCL. In the stress group; the mean number of cells in the polymorph cell layer of gyrus dentatus was 27 ± 2.08 cells for the left side and 23 ± 2.01 for the right side. Conclusions: As a result, morphological changes were observed in the gyrus dentatus region which has an important role in memory formation. The cells in the polymorph cell layer of gyrus dentatus underwent changes under stress.

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  AtıfScopus1·OpenAlex1

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• MakaleAçık Erişim2022Scopus SJRQ2/r/kostu/10701
  Intraductal botulinum toxin injection suppressed the inflammation in experimental acute pancreatitis; [Deneysel akut pankreatit modelinde intraduktal botulinum toksin uygulaması enflamasyonu baskıladı]

  Yılmaz, Tonguç Utku; Eraldemir, Fatma Ceyla; Gürel, Bora; Yavuz, Ömer; Acar, Esra; İşken, Tonguç; Yılmaz, Hasan; Utkan, Nihat Zafer

  BACKGROUND: Acute pancreatitis (AP) is inflammation of pancreas in which pancreas enzymatic activity is increased. Parasym-pathetic innervation of pancreas plays an important role in several functions of pancreas. Botulinum toxin (BTx) might be a tool to suppress the pancreas activity in AP. METHODS: In the preliminary experimental study, BTx (15U/kg) was administered directly and intraductal ways. After 10 days, blood amylase, lipase, trypsinogen, insulin, and glucagon levels were compared and no significant difference was seen between groups. Intraductal BTx administration is preferred for experimental AP model in rats; control, AP, intraductal BTx, and AP with Intraductal BTx (AP+BTx). AP was created by intraperitoneal injection of cerulean 20 µg/kg/injection (5 times). After 24 h, serum amylase, lipase, IL-6, IL-1β, TNF-α, and IL-10 were measured and pancreas tissue was evaluated for inflammation and necrosis. RESULTS: Mean serum amylase, lipase IL-6, IL-1β, and TNF-α levels of the AP group were significantly higher compared to the other groups (p<0.05). However, there was no significant difference between the amylase and lipase levels of control, BTx, and AP+BTx groups. Serum insulin and glucagon levels in AP group were significantly higher than control and BTx groups (p<0.05). However, there is no significant difference between the insulin and glucagon levels of AP and AP+BTx groups. in pathological evaluation. In AP+ BTx group, there is less amount of centrilobular necrosis and there is mild inflammation and hyperplasia of pancreatic duct epithelium. CONCLUSION: Administration of intraductal BTx suppressed the AP without making significant suppression in endogenous activity of pancreas.

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