PubMed İndeksli Yayınlar Koleksiyonu

Permanent URI for this collectionhttps://hdl.handle.net/20.500.12573/397

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Now showing 1 - 9 of 9

Citation - WoS: 1
Benefiting From Both Ethanol Oxidation and Bidentate Thiol Groups of DHLA Ligands Under Photoirradiation for Synthesis of Au Nanoparticles With Their Catalytic and Peroxidase Like Activity
(Amer Chemical Soc, 2025) Temur, Nimet; Dadi, Seyma; Dogan, Ayse Nur; Nisari, Mustafa; Avan, Ilker; Ocsoy, Ismail; 01. Abdullah Gül University
In this work, we rationally synthesized quite stable gold nanoparticles (AuNPs) using dihydrolipoic acid (DHLA) and DHLA-aspartame (DHLA-Asptm) as both reducing and stabilizing agents in a mixture of water/ethanol at RT under photoirradiation in 10 min. The novelty of this work is that benefiting from both the oxidation of ethanol to ethanal and having the bidentate thiol groups of DHLA, stable DHLA@AuNPs and DHLA-Asptm@AuNPs were successfully and rapidly formed without additional reducing reagents. We systematically examined the formation of DHLA@AuNPs and DHLA-Asptm@AuNPs under different pH values and reaction temperatures. Furthermore, the salt tolerance of DHLA@AuNPs and DHLA-Asptm@AuNPs was tested in a series of sodium chloride solutions. We showed the catalytic and peroxidase-like activities of DHLA@AuNPs against 4-nitrophenol and 3,3 ',5,5 '-tetramethylbenzidine. The AuNPs were characterized by UV-vis spectrophotometry, scanning transmission electron microscopy, zeta potential, and dynamic light scattering.
Citation - WoS: 12
Citation - Scopus: 12
Comparison of Photocatalytic and Adsorption Properties of ZnS@ZnO, CdS@ZnO, and PbS@ZnO Nanocomposites to Select the Best Material for the Bifunctional Removal of Methylene Blue
(Amer Chemical Soc, 2025) Bayram, Umit; Ozer, Cigdem; Yilmaz, Erkan; 0000-0001-8760-8024; 0000-0001-8962-3199; AGÜ; Bayram, Umit; 01. Abdullah Gül University; 10. Rektörlük
In this study, photocatalytic- and adsorption-based removal processes were conducted, which are frequently preferred in wastewater treatment due to their ease of control and high removal efficiency. An innovative method aimed at wastewater treatment was developed by combining the advantages of these two distinct approaches within the same material. The study synthesized ZnO, ZnS, CdS, PbS, and their composite structures (ZnS@ZnO, CdS@ZnO, and PbS@ZnO) using a hydrothermal synthesis method. Characterization of the samples was performed through field emission-scanning electron microscopy (FE-SEM), FE-SEM-energy dispersive X-ray (FE-SEM-EDX), X-ray diffraction (XRD), Raman spectroscopy, and Fourier-transform infrared spectroscopy (FTIR) measurement. Additionally, the optical properties of all samples (absorption spectra and band gap) were investigated by using absorbance measurements obtained from ultraviolet (UV)-visible absorption spectroscopy. Although ZnO nanoparticles are among the materials with high photocatalytic properties (exhibiting a photodegradation efficiency of 95.8% in a short duration of 90 min), their adsorption properties are low. Therefore, with the aim of enhancing both the low adsorption values and the photocatalytic properties of pure metal sulfides (ZnS, CdS, PbS), nanocomposites ZnS@ZnO, CdS@ZnO, and PbS@ZnO with different morphologies were synthesized, and their photocatalytic and adsorption-based removal performances on methylene blue (MB) dye were investigated. FE-SEM images indicated that ZnS nanoparticles exhibit a spherical morphology, CdS nanoparticles have a flower-like morphology, and PbS nanoparticles display a dendritic-like structure. The results obtained from experimental studies demonstrated that the highest efficiency in both photocatalytic- and adsorption-based removal was achieved with the ZnS@ZnO nanocomposite. The degradation rates of MB were found to be 95.3, 90.5, and 89.4% for the heterojunction composites ZnS@ZnO, CdS@ZnO, and PbS@ZnO, respectively, over a time range of 0-480 min. The optimal amount of photocatalyst that could effectively degrade MB was determined to be 100 mg, and the reusability studies revealed that the ability of the ZnS@ZnO semiconductor heterojunction photocatalyst to decompose MB into simpler molecules was limited after the fourth cycle. The adsorption-based removal rates were 96.0, 30.5, and 19.4% for the heterojunction composites ZnS@ZnO, CdS@ZnO, and PbS@ZnO, respectively. Finally, parameters influencing the adsorption-based removal of MB, such as pH, mass, and contact time, were examined, indicating that the adsorption capacity of ZnS@ZnO remained unchanged after reaching a value of 40 mgg-1.
Discovery and in Silico Characterization of Anatolian Water Buffalo Rumen-Derived Bacterial Thermostable Xylanases: A Sequence-Based Metagenomic Approach
(Amer Chemical Soc, 2025) Kurt, Halil; Kaya, Dilek Sever; Akcok, Ismail; Sari, Ceyhun; Albayrak, Ebru; Velioglu, Hasan Murat; Surmeli, Yusuf; 01. Abdullah Gül University; 04. Yaşam ve Doğa Bilimleri Fakültesi; 04.01. Biyomühendislik
This study involved shotgun sequencing of rumen metagenomes from three Anatolian water buffalos, an exploration of the relationship between microbial flora and xylanases, and in silico analyses of thermostable xylanases, focusing on their sequence, structure, and dynamic properties. For this purpose, the rumen metagenome of three Anatolian water buffalos was sequenced and bioinformatically analyzed to determine microbial diversity and full-length xylanases. Analyses of BLAST, biophysicochemical characteristics, phylogenetic tree, and multiple sequence alignment were performed with Blastp, ProtParam, MEGA11 software, and Clustal Omega, respectively. Three-dimensional homology models of three xylanases (AWBRMetXyn5, AWBRMetXyn10, and AWBRMetXyn19) were constructed by SWISS-MODEL and validated by ProSA, ProCheck, and Verify3D. Also, their 3D models were structurally analyzed by PyMOL, BAN Delta IT, thermostability predictor, What If, and Protein Interaction Calculator (PIC) software. Protein-ligand interactions were examined by docking and MD simulation. Shotgun sequence and Blastp analyses showed that Clostridium (Clostridiales bacterial order), Ruminococcus (Oscillospiraceae bacterial family), Prevotella (Bacteroidales bacterial order), and Butyrivibrio (Lachnospiraceae bacterial family) were found as dominant potential xylanase-producer genera in three rumen samples. Furthermore, the biophysicochemical analysis indicated that three xylanases exhibited an aliphatic index above 80, an instability index below 40, and melting temperatures (T m) surpassing 65 degrees C. Phylogenetic analysis placed three xylanases within the GH10 family, clustering them with thermophilic xylanases, while homology modeling identified the optimal template as a xylanase from a thermophilic bacterium. The structural analysis indicated that three xylanases possessed the number of salt bridges, hydrophobic interactions, and T m score higher than 50, 165, and 70 degrees C, respectively; however, the reference thermophilic XynAS9 had 43, 145, and 54.41 degrees C, respectively. BAN Delta IT analysis revealed that three xylanases exhibited lower B '-factor values in the beta 3-alpha 1 loop/short-helix at the N-terminal site compared to the reference thermophilic XynAS9. In contrast, six residues (G79, M123, D150, T199, A329, and G377) possessed higher B '-factor values in AWBRMetXyn5 and their aligned positions in AWBRMetXyn10 and AWBRMetXyn19, relative to XynAS9 including Gln, Glu, Ile, Lys, Ser, and Val at these positions, respectively. MD simulation results showed that the beta 9-eta 5 loop including catalytic nucleophile glutamic acid in the RMSF plot of three xylanases had a higher fluctuation than the aligned region in XynAS9. The distance analysis from the MD simulation showed that the nucleophile residue in AWBRMetXyn5 and AWBRMetXyn10 remained closer to the ligand throughout the simulation compared with XynAS9 and AWBRMetXyn19. The most notable difference between AWBRMetXyn5 and AWBRMetXyn10 was the increased amino acid fluctuations in two specific regions, the eta 3 short-helix and the eta 3-alpha 3 loop, despite a minimal sequence difference of only 1.24%, which included three key amino acid variations (N345, N396, and T397 in AWBRMetXyn5; D345, K396, and A397 in AWBRMetXyn10). Thus, this study provided computational insights into xylanase function and thermostability, which could inform future protein engineering efforts. Additionally, three xylanases, especially AWBRMetXyn5, are promising candidates for various high-temperature industrial applications. In a forthcoming study, three xylanases will be experimentally characterized and considered for potential industrial applications. In addition, the amino acid substitutions (G79Q, M123E, D150I, T199K, A329S, and G377V) and the residues in the beta 3-alpha 1 loop will be targeted for thermostability improvement of AWBRMetXyn5. The amino acids (N345, N396, and T397) and the residues on the beta 9-eta 5 loop, eta 3 short-helix, and eta 3-alpha 3 loop will also be focused on development of the catalytic efficiency.
Citation - WoS: 2
Citation - Scopus: 2
Effect of Calcium Oxide on Stress Crack Resistance and Light Transmittance in PET Containers for Packaging Carbonated Beverages
(Amer Chemical Soc, 2024) Yuvali, Gokcen; Dagasan Bulucu, Esen; Demirel, Bilal; Yaras, Ali; Akkurt, Fatih; Surdem, Sedat; Demirel, Burcak; 01. Abdullah Gül University
For polyethylene terephthalate (PET) bottles, a material used for food packaging, light transmission and mechanical performance, particularly environmental stress cracking (ESC), are essential characteristics. For this purpose, following extrusion of PET/CaO granules, preforms were manufactured using the injection technique, and bottles were produced by a stretch-blow-molding process. With incorporation of calcium oxide (CaO), light transmittance increased by around 25%, and ESC went from 0.3 to 11 min. In addition, whereas acetaldehyde (AA) and carboxylic acid (COOH) decomposition values rose with increasing CaO content, diethylene glycol and isophthalic acid values did not significantly change. Moreover, the maximum crystallization temperature and crystallinity both exhibited an upward trend with the CaO content.
Citation - WoS: 6
Citation - Scopus: 8
Histone Deacetylase Inhibition and Autophagy Modulation Induces a Synergistic Antiproliferative Effect and Cell Death in Cholangiocarcinoma Cells
(Amer Chemical Soc, 2023) Yenigul, Munevver; Akcok, Emel Basak Gencer; 01. Abdullah Gül University; 04. Yaşam ve Doğa Bilimleri Fakültesi; 04.02. Moleküler Biyoloji ve Genetik
Cholangiocarcinoma, also known as biliary tract cancer,is an aggressiveadenocarcinoma arising from epithelial cells lining the intra- andextrahepatic biliary system. The effects of autophagy modulators andhistone deacetylase (HDAC) inhibitors in cholangiocarcinoma are notfully known. It is essential to understand the molecular mechanismsand the effects of HDAC inhibitors in the context of cholangiocarcinoma.The antiproliferative effect of different HDAC inhibitors and autophagymodulation was investigated by the MTT cell viability assay in TFK-1and EGI-1 cholangiocarcinoma cell lines. Combination indexes werecalculated using CompuSyn software. Consequently, apoptosis was detectedby Annexin V/PI staining. The effect of the drugs on the cell cyclewas measured by the propidium iodide staining. The HDAC inhibitionwas confirmed via acetylated histone protein levels by western blotting.HDAC inhibitors, MS-275 and romidepsin, showed a better synergisticeffect with the nocodazole combination. The combination treatmentexerted its growth inhibitory effect by cell cycle arrest and inductionof apoptosis. The cell cycle analysis of the combination treatmentshowed that the S phase and G2/M phase were achieved. Moreover, thenecrotic and apoptotic cell population increased after single HDACinhibitors and combination treatment. The anti-cancer effect of HDACinhibitors is revealed by acetylation levels of histones. While acetylationlevels were increased in response to HDAC inhibitors and autophagymodulator combinations, the HDAC expression decreased. This studyhighlights the importance of the combination of HDAC inhibition andautophagy modulators and demonstrates a synergistic effect, whichcould be a promising therapy and novel treatment approach for cholangiocarcinoma.
Citation - WoS: 18
Citation - Scopus: 19
Nanoclay- and TiO2 Nanoparticle-Modified Poly(n-Vinyl Pyrrolidone) Hydrogels: A Multifunctional Material for Application in Photocatalytic Degradation and Adsorption-Based Removal of Organic Contaminants
(Amer Chemical Soc, 2022) Marouch, Salsabil; Benbellat, Noura; Duran, Ali; Yilmaz, Erkan; 01. Abdullah Gül University
In recent times, access to clean water has become increasingly difficult and one of the most important problems for the sustainability of life due to environmental pollution. Based on this thought, in this study, a multifunctional hydrogel nanocomposite (nanoclay@TiO2@PNVP) containing linear poly(N-vinyl pyrrolidone) (PNVP), nanoclay, and TiO2 nanoparticles was synthesized and used as an adsorbent and photocatalyst for the adsorption-based and photocatalytic degradation-based removal of organic and pharmaceutical pollutants such as methylene blue (MB) and sildenafil citrate (SLD). The modification of the hydrogel with TiO2 nanoparticles and nanoclay aimed to increase the adsorption capacity of the PNVP hydrogel as well as to gain photocatalytic properties for the effective removal of organic contaminants. This hybrid material, which can be cleaned in two different ways, can be reused and recycled at least 10 times. Characterization studies were carried out using Fourier transform infrared spectroscopy, scanning electron microscopy, Raman spectroscopy, thermogravimetric analysis, differential thermogravimetry, and viscosimetry techniques. Optimization studies for the adsorption-based removal of organic contaminants were carried out on MB and SLD as model organic compounds. The optimum parameters for MB were found at pH 10 of the sample solution when 50 mg of the nanoclay@TiO2@PNVP hydrogel nanocomposite was used for 420 min of contact time. It was observed that 99% of the MB was photocatalytically degraded within 150 min at pH 10. Our material had multifunctional applicability properties, showing high adsorption and photocatalytic performances over 99% for at least 10 times of use. For the removal of organic and pharmaceutical contaminants from wastewater, the synthesized material can be used in two treatment processes separately or in combination in one step, providing an important advantage for its usability in environmental applications.
Citation - WoS: 17
Citation - Scopus: 18
Poly(Lauryl Methacrylate)-Grafted Amino-Functionalized Zirconium-Terephthalate Metal-Organic Framework: Efficient Adsorbent for Extraction of Polycyclic Aromatic Hydrocarbons from Water Samples
(Amer Chemical Soc, 2020) Tabatabaii, Maryam; Khajeh, Mostafa; Oveisi, Ali Reza; Erkartal, Mustafa; Sen, Unal; 01. Abdullah Gül University
In this study, a novel porous hybrid material, poly(lauryl methacrylate) polymer-grafted UiO-66-NH2 (UiO = University of Oslo), was synthesized for efficient extraction of polycyclic aromatic hydrocarbons (PAHs) from aqueous samples. The polymer end-tethered covalently to the MOF's surface was synthesized by surface-initiated atom transfer radical polymerization, revealing a distinct type of morphology. The adsorbent was characterized by scanning electron microscopy, energy-dispersive spectroscopy, transmission electron microscopy, powder X-ray diffraction, N-2 adsorption-desorption analysis, Fourier transform infrared spectroscopy, and thermogravimetric analysis. The analyses were carried out by gas chromatography-mass spectrometry. Parameters including the type and volume of the eluent, the amount of the adsorbent, and adsorption and desorption times were investigated and optimized. Under optimal conditions, the limit of detection, intraday precision, and interday precision were in the range of 3-8 ng L-1, 1.4-3.1, and 4.1-6.5%, respectively. The procedure was used for analysis of PAHs from natural water samples.
Citation - WoS: 5
Citation - Scopus: 5
Tailored Synthesis of Iron Oxide Nanocrystals for Formation of Cuboid Mesocrystals
(Amer Chemical Soc, 2021) Soran-Erdem, Zeliha; Sharma, Vijay Kumar; Hernandez-Martinez, Pedro Ludwig; Demir, Hilmi Volkan; 01. Abdullah Gül University; 02.01. Mühendislik Bilimleri; 02. Mühendislik Fakültesi
In this work, we systematically studied the shape- and size-controlled monodisperse synthesis of iron oxide nanocrystals (IONCs) for their use as building blocks in the formation of mesocrystals. For this aim, on understanding the influence of the oleic acid concentration, iron-oleate concentration, and heating rate on the synthesis of robust and reproducible IONCs with desired sizes and shapes, we synthesized highly monodisperse similar to 11 nm sized nanocubes and nanospheres. Magnetic measurements of both cubic and spherical IONCs revealed the presence of mixed paramagnetic and superparamagnetic phases in these nanocrystals. Moreover, we observed that the magnetic moments of the nanocubes are more substantial compared to their spherical counterparts. We then demonstrated a simple magnetic-field-assisted assembly of nanocubes into three-dimensional (3D) cuboid mesocrystals while nanospheres did not form any mesocrystals. These findings indicate that small cubic nanocrystals hold great promise as potential building blocks of 3D magnetic hierarchical structures with their superior magnetic properties and mesocrystal assembly capability, which may have high relevance in various fields ranging from high-density data storage to biomedical applications.
Citation - WoS: 13
Citation - Scopus: 12
Tuning the Shades of Red Emission in InP/ZnSe Nanocrystals With Narrow Full Width for Fabrication of Light-Emitting Diodes
(Amer Chemical Soc, 2023) Soheyli, Ehsan; Bicer, Aysenur; Ozel, Sultan Suleyman; Tiras, Kevser Sahin; Mutlugun, Evren; 01. Abdullah Gül University; 02. Mühendislik Fakültesi; 02.05. Elektrik & Elektronik Mühendisliği
While Cd-based luminescent nanocrystals (NCs) are the most mature NCs for fabricating efficient red light-emitting diodes (LEDs), their toxicity related limitation is inevitable, making it necessary to find a promising alternative. From this point of view, multishell-coated, red-emissive InP-based NCs are excellent luminescent nanomaterials for use as an emissive layer in electroluminescent (EL) devices. However, due to the presence of oxidation states, they suffer from a wide emission spectrum, which limits their performance. This study uses tris-(dimethyl-amino)-phosphine (3DMA-P) as a low-cost aminophosphine precursor and a double HF treatment to suggest an upscaled, cost-effective, and one-pot hot-injection synthesis of purely red-emissive InP-based NCs. The InP core structures were coated with thick layers of ZnSe and ZnS shells to prevent charge delocalization and to create a narrow size distribution. The purified NCs showed an intense emission signal as narrow as 43 nm across the entire red wavelength range (626-670 nm) with an emission quantum efficiency of 74% at 632 nm. The purified samples also showed an emission quantum efficiency of 60% for far-red wavelengths of 670 nm with a narrow full width of 50 nm. The samples showed a relatively long average emission lifetime of 50-70 ns with a biexponential decay profile. To demonstrate the practical ability of the prepared NCs in optoelectronics, we fabricated a red-emissive InP-based LEDs. The best-performing device showed an external quantum efficiency (EQE) of 1.16%, a luminance of 1039 cd m(-2), and a current efficiency of 0.88 cd A(-1).

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