Van Yüzüncü Yıl Üniversitesi

Permanent URI for this communityhttps://hdl.handle.net/20.500.14720/1

Browse

Now showing 1 - 20 of 3436

A 2,2-Dichloropropionic Acid-Degrading Novel Pseudomonas Fluorescence Strain Fatsa001: Isolation, Identification, and Characterization
(Taylor & Francis inc, 2025) Meral, Ulku Binboga; Edbeib, Mohamed Faraj; Kirkinci, Suleyman Faruk; Aksoy, Hasan Murat; Akman, Ayhan; Wahab, Roswanira Abdul; Kaya, Yilmaz
There are mounting concerns over the high concentrations of non-biogenic, toxic halogenated organic compounds being liberated into the ecosystem. Therefore, this study's isolation of a novel bacterium from a contaminated stream in Fatsa, Ordu, Turkey, adept in degrading 2,2-dichloropropionic (of 2,2-DCP) is a welcome endeavor. The ability of the bacterial isolate to utilize 2,2-DCP as the sole carbon and energy source was discovered when the bacterium was observed to grow well on liquid minimal media containing 20 mM of 2,2-DCP, showing a doubling time of 14.2 h. The following genetic and biochemical characterizations revealed that the 16S rRNA sequence of the fatsa001strain is identical (99%) to Pseudomonas fluorescence, after which the sequence was deposited in the NCBI GenBank as Pseudomonas sp. strain fatsa001 (MN098848). The halogen-degrading ability of the P. fluorescens fatsa001 bacterium was again confirmed by the PCR data, which showed the presence of a conserved group of amino acids from the group I dehalogenase gene. It worth mentioning here that this is the first report on a P. fluorescence bacterial strain with the ability to degrade toxic 2,2-DCP. The detoxification ability of this bacterium envisages its practicality as an in situ environmental bioremediation agent.
2-Phenyl Substituted Benzimidazole Derivatives: Design, Synthesis, and Evaluation of Their Antiproliferative and Antimicrobial Activities
(Springer Birkhauser, 2022) Ersan, Ronak Haj; Kuzu, Burak; Yetkin, Derya; Alagoz, Mehmet Abdullah; Dogen, Aylin; Burmaoglu, Serdar; Algul, Oztekin
The inability to meet the desired outcomes of anticancer treatment and decrease in treatment success of bacterial and fungal infections accelerated research in these areas. Our research group has conducted numerous studies, especially on benzimidazole ring systems' antiproliferative and antimicrobial activities. In this study, the antiproliferative activity of benzimidazole compounds was tested against A549, A498, HeLa, A375, and HepG2 cancer cell lines by MTT assay. All compounds exhibited good to potent antiproliferative activity against all tested cancer cell lines. Compounds 6-chloro-2-(4-fluorobenzyl)-1H-benzo[d] imidazole (30) and 6-chloro-2-phenethyl-1H-benzo[d]imidazole (46) were especially active against HeLa and A375 cancer cell lines with IC50 values in the range of 0.02-0.04 mu M. In contrast, compounds 6-chloro-2-((p-tolyloxy)methyl)-1H-benzo[d] imidazole (67) and 5(6)-chloro-2-((4-hydroxyphenoxy)methyl)-1H-benzimidazole (68) were active against A549 and A498 cancer cell lines with an IC50 value of 0.08 mu M. These compounds (30, 46, 67, and 68) were less toxic to normal human cells than the positive control compound methotrexate, which was screened to determine its toxicity against normal cell lines (HEK293). In the second part of the study, all compounds were tested to demonstrate their antimicrobial properties. All compounds exhibited moderate activity against all tested bacteria and fungi. However, some phenoxy methyl derivatives 5-chloro-2-((4-chlorophenoxy)methyl)-1H-benzo[d]imidazole (69) and 5,6-dichloro-2-((4-chlorophenoxy)methyl)-1H-benzo[d] imidazole and (74) were most active against Candida (<3.90 mu g/mL). Molecular docking studies were carried out against certain proteins in order to identify potential targets of the antiproliferative effects of the synthesized compounds. The docking scores of the compounds were found to be significantly compatible with the antiproliferative activity results. [GRAPHICS] .
3-Acrylamidopropyl Cationic Hydrogel Modified Graphite Electrode and Its Superior Sensitivity To Hydrogen Peroxide
(Taylor & Francis inc, 2019) Caglar, Aykut; Kazici, Hilal Celik; Alpaslan, Duygu; Yilmaz, Yonca; Kivrak, Hilal; Aktas, Nahit
A highly sensitive hydrogen peroxide (H2O2) sensor is fabricated by the synthesized 3-Acrylamidopropyl-trimethylammoniumchloride (p(APTMACl)) hydrogel to covered of pen- graphite (PG) electrodes. (p(APTMACl))-PG electrode is characterized using scanning electron microscopy (SEM), Fourier Transform Infrared (FTIR) spectroscopy, and thermogravimetric analysis (TGA). The electrochemical properties of these sensors are investigated by cyclic voltammetry (CV), differential pulse voltammetry (DPV), and electrochemical impedance spectroscopy (EIS). The CV behavior of (p(APTMACl))-PG electrode is investigated in 0.1M PBS (pH 7, 5mm diameter of mold). The developed sensor displays significantly enhanced electrocatalytic activity through the H2O2 detection. Linear response of the sensor to H2O2 were observed in the concentration range from 0 to 130 mu M (R-2 = 0.99) with a detection limit of 1.08x10(-6) M, quantification limit of 3.62x10(-6) M (S/N=3) and sensitivity of 2375 mu A/mMcm(2). In addition, interference studies reveal that (p(APTMACl))-PG electrode is not affected by ascorbic acid (AA), uric acid (UA), and dopamine which are common interfering species. The developed sensor is also successfully applied to detect H2O2 in real commercial samples. This study describes a novel strategy to sensing characteristics to hydrogen peroxide by p(APTMACl)-PG electrode.
A 3-Cm Single-Port Video-Assisted Thoracoscopic Lobectomy for Lung Cancer
(Lippincott Williams & Wilkins, 2015) Ocakcioglu, Ilhan; Sayir, Fuat; Dinc, Mustafa
Video-assisted thoracoscopic surgery is advantageous over traditional surgical practices, because of a faster postoperative recovery period, less pain, and a shorter hospital length of stay. There is no single standard technique in the video-assisted thoracoscopic surgery approach. Although these minimally invasive resections are habitually performed through 3-port or 4-port incision, we performed a left lower lobectomy in a 54-year-old male patient for lung cancer, through a 3-cm single-port incision.
The 3-D Strain Patterns in Turkey Using Geodetic Velocity Fields From the Rtk-Cors (Tr) Network
(Pergamon-elsevier Science Ltd, 2016) Kutoglu, Hakan Senol; Toker, Mustafa; Mekik, Cetin
This study presents our use of GPS data to obtain and quantify the full continuous strain tensor using a 3D velocity field in Turkey. In this study, GPS velocities improve the estimation of short-term strain tensor fields for determining the seismic hazard of Turkey. The tensorial analysis presents different aspects of deformation, such as the normal and shear strains, including their directions, the compressional and extensional strains. This analysis is appropriate for the characterizing the state of the current seismic deformation. GPS velocity data from continuous measurements (2009-2012) to estimate deformations were processed using the GAMIT/GLOBK software. Using high-rate GPS data from permanent 146 GNSS stations (RTK-CORS-TR network), the strain distribution was determined and interpolated using a biharmonic spline technique. We show the strain field patterns within axial and plane form at several critical locations, and discuss these results within the context of the seismic and tectonic deformation of Turkey. We conclude that the knowledge of the crustal strain patterns provides important information on the location of the main faults and strain accumulation for the hazard assessment. The results show an agreement between the seismic and tectonic strains confirming that there are active crustal deformations in Turkey. (C) 2015 Elsevier Ltd. All rights reserved.
The 3-D Strain Patterns in Turkey Using Geodetic Velocity Fields From the Rtk-Cors (Tr) Network (Vol 115, Pg 246, 2016)
(Pergamon-elsevier Science Ltd, 2016) Kutoglu, Hakan Senol; Toker, Mustafa; Mekik, Cetin
6-Methylthiouracil and 6-Methyluracil Derivatives Synthesized by Reaction of Acetylketene With Thiourea and Urea Compounds in Presence of Yb(Tfa)3
(Taylor & Francis inc, 2023) Aslanoglu, Furgan; Yazici, Ahmet
Thiouracil and uracil derivatives are among the bioactive molecules used in the treatment of many diseases, such as 6-propylthiouracil and 5-fluorouracil. A new synthesis method of 6-methylthiouracil and 6-methyluracil was developed in this study. Various 6-methylthiouracil and 6-methyluracil derivatives were obtained by reacting 2,2,6-trimethyl-4H-1,3-dioxin-4-one with thiourea and urea compounds in the presence of Yb(TFA)(3) according to this new method. Optimization of this new method was performed. The structures of 6-methylthiouracil and 6-methyluracil derivatives were characterized.
7-Acetoxyhorminone From Salvia Multicaulis Vahl. as Promising Inhibitor of 3-Hydroxy Coenzyme a (hmg-Coa) Reductase
(Mdpi, 2022) Yigitkan, Serkan; Ertas, Abdulselam; Salmas, Ramin Ekhteiari; Firat, Mehmet; Orhan, Ilkay Erdogan
3-Hydroxy-3-methylglutaryl coenzyme A (HMG-CoA) reductase is a key enzyme involved in cholesterol biosynthesis and one of the most important targets for the treatment of hypercholesterolemia. A limited number of studies on the HMG-CoA reductase inhibitory potential of natural products are available. Thus, in the current study, we aimed to test the HMG-CoA reductase inhibitory capacity of extracts from the roots and aerial parts of Salvia multicaulis Vahl., through activity-guided isolation. Our findings revealed that the root extract prepared with dichloromethane-acetone (1:1) showed the highest inhibition (71.97 +/- 0.37%) at 100 mu g/mL. The extract was then initially fractionated by column chromatography and the obtained fractions were monitored by thin layer chromatography. Fractions which were similar to each other were combined and a total of 15 fractions were obtained. Further conventional chromatographic studies were carried out on the active fractions. Based on these fractions, 10 known compounds, comprising 9 terpenes and 1 steroid derivative in total, were isolated and their structures were verified by a combination of IT-TOF-MS, and 1D and 2D NMR techniques. According to the enzyme inhibition data of the identified compounds, 7-acetoxyhorminone exerted the highest inhibition (84.15 +/- 0.10%, IC50 = 63.6 +/- 1.21 mu g/mL). The molecular docking experiments on 7-acetoxyhorminone and horminone indicated that both compounds strongly bind to the active site of the enzyme.
Ab Initio Investigation of the Structural, Electronic and Optical Properties of Cubic Gaas1-X P X Ternary Alloys Under Hydrostatic Pressure
(Springer, 2015) Moussa, R.; Abdiche, A.; Abbar, B.; Guemou, M.; Riane, R.; Murtaza, G.; Soyalp, F.
The structural, electronic and optical properties of the GaAs1-x P (x) ternary alloys together with their binary GaP and GaAs compounds were investigated in the zinc-blende (ZB) phase using the density functional theory. The lattice constant of the GaAs compound decreases while its bulk modulus increases when the doping concentration of the P dopant is increased. In addition, both parameters (lattice constant and bulk modulus) show small deviations from the linear concentration dependence. The energy band gap of the GaAs compound is of the direct nature, which increases with the increase in the P dopant concentration, whereas at higher P dopant concentration, the band gap shifts from direct to indirect character. On the other hand, the hydrostatic pressure has a significant effect on the band structure of the investigated compounds where the binary GaAs compound changes from a direct band gap semiconductor to an indirect band gap semiconductor at P a parts per thousand yen 5 GPa. Furthermore, the pressure-dependence of the optical properties of the GaAs, GaP and GaAs0.75P0.25 alloy were also investigated, where the calculated zero frequency refractive index and the dielectric function are also compared with the experimental results as well as with different empirical models.
Ab Initio Investigations of Phonons and Thermodynamic Properties of Sczn and Yzn in the B2 Structure
(Elsevier, 2013) Soyalp, F.; Yavuz, M.; Yalcin, Z.
We have performed an ab initio investigation of structural, elastic, electronic, lattice dynamical, and thermodynamic properties of ScZn and YZn in B2 structure. The calculations was conducted within the density functional theory and linear response theory using the pseudopotentials and a plane wave basis set. The completely minimized structural parameters and elastic constants of ScZn and YZn compounds are in excellent agreement with previous theoretical and experimental data. The calculated phonon dispersion relations for YZn concur very well with experimental data available for main symmetry directions. Through the full quasi harmonic model, in which the phononic effects considered, the thermodynamic properties such as temperature dependence of the isothermal and adiabatic bulk modulus, thermal expansion coefficients, heat capacities, entropy and free energy have been successfully calculated in the whole temperature range from 0 to 1000 K. (c) 2013 Elsevier B.V. All rights reserved.
Ab Initio Investigations of the Structural, Electronic, Magnetic and Mechanical Properties of Crx (X = As, Sb, Se, and Te) Transition Metal Pnictides and Chalcogenides
(Iop Publishing Ltd, 2019) Charifi, Z.; Guendouz, D. J.; Baaziz, H.; Soyalp, F.; Hamad, B.
The structural, electronic, magnetic, and mechanical properties of CrX (X = As, Sb, Se and Te) transition metal pnictides and chalcogenides were investigated using ab initio density functional theory using the local density approximation and generalized gradient approximation. Under ambient conditions, CrAs and CrTe are stable in the orthorhombic MnP (MP)-type antiferromagnetic (AFM) and hexagonal NiAs (NA) (FM) structures, respectively, whereas CrSb and CrSe have NA-type (AFM) structure. The half-metallic behavior was predicted for the zinc blende (ZB) and wurtzite (WZ) structures of CrAs, the zinc blende (ZB)-type of CrSb and CrSe compounds and the zinc blende (ZB) and rock salt (RS) structures of CrTe. However, the remaining structures are found to exhibit a metallic behavior. The highest total magnetic moment of 4 mu(B) was predicted for the RS and ZB (FM) structures of CrTe. The investigated CrX compounds were found to be mechanically stable at ambient pressure. The high value of B/G ratio indicates that CrSb (NA) is a ductile material, whereas CrAs (MP), CrSe and CrTe (NA) are brittle due to the lower B/G value.
Ab Initio Study of Li2cata2o7 Compound: Electronic and Optical Properties for Three Phases
(Tubitak Scientific & Technological Research Council Turkey, 2019) Aycibin, Murat
The Li2CaTa2O7 compound belongs to the Ruddlesden-Popper family of layered perovskites. First principle approximation was used to investigate the electronic band structure and optical properties of the compound for three phases. Independent of the studied compound's structural type, Li2CaTa2O7 has semiconductor behavior and direct transition. In addition, the forbidden energy band gap of the compound decreases with rising temperature, as expected. Furthermore, the 3d orbital of Ca contributes to the conduction band due to the crystal field effect. Moreover, the optical response of the chosen axes of the compound to incoming electromagnetic rays varies with phase transition.
Ab-Initio Calculations of Physical Properties of Alkali Chloride Xcl (X = K, Rb and Li) Under Pressure
(Elsevier, 2015) Erdinc, Bahattin; Secuk, Mehmet Nurullah; Aycibin, Murat; Gulebagan, Sinem Erden; Dogan, Emel Kilit; Akkus, Harun
Structural properties, electronic band structure, real and imaginary parts of complex dielectric function of alkali chloride XCl (K, Rb and Li) compounds were investigated under various pressures using first principles calculations. Moreover, Gibbs free energies were also calculated at those pressures. Calculated results of the Gibbs free energy show that LiCl does not show any structural phase transition. However, structural phase transitions of KCl and RbCl occur from NaCl (B1) to CsCl (B2) at 4.5 and 1.7 GPa pressures, respectively. The electronic band gaps under pressure were also calculated. The calculated physical properties of these compounds are compared with the previous theoretical and experimental results and a good agreement was observed. (c) 2015 The Authors. Published by Elsevier B. V. This is an open access article under the CC BY-NC-ND license.
Ab-Initio Study of the Electronic Structure and Optical Properties of Kno3 in the Ferroelectric Phase
(Iop Publishing Ltd, 2009) Erdinc, Bahattin; Akkus, Harun
The electronic band structure and optical properties of the ferroelectric phase III of KNO3 have been investigated by the first-principle pseudopotential method using the density functional theory under the generalized gradient approximation (GGA) and local density approximation (LDA). The calculated band structure shows that the ferroelectric phase III of KNO3 has a direct band gap with a value of 1.76 eV at the point of the first Brillouin zone (BZ). The structural optimization of KNO3 has been performed using the GGA and LDA. The results of the structure optimization have been compared with the experimental results and have been found to be in good agreement with these results. Moreover, the linear photon-energy-dependent dielectric functions and some optical constants such as energy-loss functions for volume and surface, extinction, reflectivity and absorption coefficients, refractive index and effective number of valance electrons per unit cell participating in the interband transitions have been calculated.
Abdominal Complications of Ventriculoperitoneal Shunt in Pediatric Patients: Experiences of a Pediatric Surgery Clinic
(Elsevier Science inc, 2018) Burhan, Beger; Serdar, Kizilyildiz Baran; Abdurrahman, Aycan; Edip, Akyol Mehmet; Ebuzer, Duz
Objective: To relate the experiences of a pediatric surgery clinic in diagnosis and treatment of abdominal complications related to ventriculoperitoneal shunts (VPSs) in pediatric patients who had VPSs implanted to treat hydrocephalus. METHODS: Patients admitted to the Pediatric Surgery Department of Van Yuzunciyil University Faculty of Medicine between April 2013 and December 2017 who had VPSs implanted and subsequently developed abdominal complications were reviewed retrospectively. Demographic information, surgery dates, time intervals between surgery and development of abdominal complication, complication types and applied treatments, and follow-up durations were recorded. RESULTS: There were 16 patients (6 girls, 10 boys) with a mean age of 3 years (range, 1 month to 8 years) reviewed. Complications following VPS implantation included abdominal pseudocyst, anal protrusion, volvulus, peritonitis, abdominal distention, and herniation. Complications were treated successfully with contemporary surgical methods. No issues during long-term postoperative follow-up were identified. CONCLUSIONS: VPS implantation can result in abdominal complications with a wide range of clinical presentations. Predicting which abdominal complications might occur in children with VPSs can be lifesaving with early diagnosis and treatment.
Abdominal Malignant Mesothelioma in a Mouse
(Australian veterinary Assn, 2002) Yener, Z; Karaca, T; Yuksel, H
Accidental Salinomycin Intoxication of Angora Goats in Turkey
(Elsevier Science Bv, 2002) Agaoglu, ZT; Akgul, Y; Keles, I; Ugras, S; Aksoy, A; Cinar, A
This paper reports for the first time accidental intoxication of Angora goats with salinomycin contaminated feed in Turkey. Clinical, laboratory and postmortem findings are described. Angora goats were examined clinically and biochemical analysis of blood, electrocardiogram and histopathological examinations were carried out. The feed was shown to contain 680 ppm/kg of salinomycin. (C) 2002 Elsevier Science B.V. All rights reserved.
Acetabular Fractures From Judet and Letournel To the Present: Research Trends and Global Outcomes With Bibliometric Analysis During 1980 To 2022
(Lippincott Williams & Wilkins, 2023) Dundar, Abdulrahim; Ipek, Deniz; Kaya, Sehmuz
Fractures of the acetabulum are one of the most challenging injuries treated by orthopedic surgeons. However, a bibliometric analysis has not been performed in the literature on acetabular fractures, which seriously affect the quality of life of patients. The aim of this study was to summarize the bibliometric and intellectual structure, and determine and map the most recent trends on the topic of acetabular fractures by analyzing the social and structural relationships between the different research components of articles published on the acetabular fractures. 1599 articles on acetabular fractures published between 1980 and 2022 were extracted from the Web of Science (WoS) database and analyzed. Bibliometric visualization maps were used to reveal trending topics, citation analyses, and international collaborations. Spearman correlation analysis was performed for correlation investigations. The trend in the expected number of articles to be published over the next few years was displayed using the exponential smoothing estimator. The top 3 contributing countries to the literature were United States of America (USA) (551, 34.4%), China (170, 10.6%), and Germany (160, 10%). The most active author was Berton R. Moed (n = 29) and the most active institution was the University of California System (n = 41). A high-level statistically significant correlation was found between the number of articles on the topic of acetabular fractures published by nations and the gross domestic product (GDP) and GDP per capita values of those countries (R = 0.719, P < .001; R = 0.701, P < .001, respectively). The trending topics researched in recent years were 3D printing, 3-dimensional printing, outcomes, Open Reduction and Internal Fixation (ORIF), mortality, Kocher-Langenbeck, Pararectus approach, tranexamic acid, transfusion, epidemiology, fracture mapping, modified Stoppa approach, post-traumatic osteoarthritis, pelvis fracture, pelvic trauma, fracture reduction, and pelvic ring injury. The leading countries in research on the subject of acetabular fractures were seen to be western countries with large economies (especially the USA, European countries, and Canada) and China, India and Turkey.
Acetaminophen Intoxication Is Associated With Decreased Serum Paraoxonase and Arylesterase Activities and Increased Lipid Hydroperoxide Levels
(Sage Publications Ltd, 2014) Karadas, S.; Aslan, M.; Gonullu, H.; Kati, C.; Duran, L.; Olmez, S.; Demir, H.
Background: Acetaminophen is at present one of the most commonly used analgesics and antipyretics. Recent evidence has suggested that oxidative stress is involved in the mechanism of acetaminophen intoxication. Paraoxonase-1 (PON1) plays an important role as an endogenous free-radical scavenging molecule. The aim of this study was to evaluate the influence of serum PON1 activity and oxidative stress in patients with acetaminophen intoxication. Methods: A total of 20 patients with acetaminophen intoxication and 25 healthy controls were enrolled. Serum total antioxidant capacity (TAC), lipid hydroperoxide (LOOH) levels, and paraoxonase and arylesterase activities were measured spectrophotometrically. Results: The serum TAC levels and the paraoxonase and arylesterase activities were significantly lower in patients with acetaminophen intoxication compared with controls (all, p < 0.001), while the serum LOOH levels were significantly higher (p < 0.001). Conclusions: Our results suggest that decreased PON1 activity seems to be associated with increased oxidative stress in patients with acetaminophen intoxication. Measuring serum PON1 activity may be useful in assessing the development of toxicity risk in acetaminophen toxicity. It would be useful to recommend vitamins with antioxidant effects such as vitamins C and E along with medical treatments.
Acquired Methemoglobinemia Due To Application of Prilocaine During Circumcision
(Elsevier Science inc, 2012) Akbayram, Sinan; Akgun, Cihangir; Dogan, Murat; Gundogdu, Mustafa; Caksen, Huseyin; Oner, Ahmet Faik

Browse

Browsing Van Yüzüncü Yıl Üniversitesi by Scopus Q "Q2"