PubMed İndeksli Yayınlar Koleksiyonu / PubMed Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/11147/7645
Browse
579 results
Filters
Settings
Search Results
Article A Capsular Polysaccharide from a Healthy Human Microbiota Member Activates a Lag-3-NK Cell Axis to Restrain Colon Cancer and Augment Immunotherapy(Cell Press, 2025) Weis, Allison M.; Tang, William W.; Stephen-Victor, Emmanuel; Bell, Rickesha; Brown, D. Garrett; Round, June L.Colorectal cancer (CRC) is increasing globally, making identification of preventative measures necessary. Transplantation of the microbiota from CRC and non-CRC patients into mice demonstrates that non-diseased individuals possess organisms that reduce tumor formation and highlights Bacteriodes uniformis as protective. B. uniformis is reduced in humans with CRC, and proactive treatment with B. uniformis slows tumor growth in mice. Natural killer (NK) cells, but not T cells, are required for B. uniformis-mediated protection. CRC is recalcitrant to immunotherapies; however, addition of B. uniformis restores response to alpha-CTLA-4 treatment in an NK cell-dependent manner. We report that high Lag-3 expression is associated with greater survival in CRC patients and that B. uniformis-mediated protection is reliant on Lag-3 in innate cells. Induction of NK cell activity and reduced tumor growth is dependent on a specific B. uniformis capsular polysaccharide. Thus, healthy individuals possess tumor suppressor microbes that prevent cancer development and can be harnessed therapeutically.Article Citation - WoS: 4Citation - Scopus: 2Elastic and Anelastic Behavior Associated With Structural Transitions in CsPbBr3(Amer Chemical Soc, 2025) Luo, Pingjing; He, Zhengwang; Yang, Dexin; Aktas, Oktay; Ding, Xiangdong; Zhang, XuefengStrain coupling and relaxation dynamics critically influence the photovoltaic and photoluminescent performances of metal halide perovskites. Here, resonant ultrasound spectroscopy is employed to study the elastic and anelastic properties associated with the octahedral tilting transitions in the optoelectronic semiconductor CsPbBr3 over the temperature range 303-468 K. The cubic-to-tetragonal transition near 405 K is marked by pronounced elastic softening accompanied by a sharp increase in acoustic loss. High anelastic loss below this transition reveals the presence of mobile ferroelastic twin walls that become pinned by lead vacancies at a temperature interval near 380 K in the tetragonal phase. The elastic softening in the cubic phase is strongly correlated to dynamic effects such as the local polar fluctuations. This local disordered effect is further verified by the anomalously high attenuation in the orthorhombic structure, in which the ferroelastic twin walls might become mobile.Article Citation - WoS: 3Citation - Scopus: 3Analysis of Microplastic Flux From the Gediz River To the Aegean Sea: a Modeling Study for Environmental Management(Academic Press Ltd- Elsevier Science Ltd, 2025) Kazanci, Yigithan; Alyuruk, Nefise; Alpergun, Cumana; Kara, Nursena; Baycan, Neval; Gunduz, OrhanIt is critical to determine the abundance of microplastics in terrestrial inland waters, understand their fate and transport mechanisms, and reveal their status in aquatic environments. This study aimed to develop and calibrate a mathematical model to simulate microplastic (MP) pollution in the Gediz River Basin, T & uuml;rkiye, which focused on MP fate and transport under existing conditions and various management scenarios. The baseline scenario revealed that, despite a ninefold difference in flow rates, the midstream and upstream parts of the basin also exhibited significant contamination, with an average concentration of 25 n/L compared to the downstream average of 29 n/L. The model was later simulated to test the effects of various mitigation scenarios including but not limited to reducing MP discharges from wastewater treatment plants (WWTPs) and implementing vegetative barriers in tributaries. Scenario 4, which involves reducing MP concentrations in upstream tributaries with vegetative barriers, achieved the highest average reduction across all segments (32 %) and specifically in the downstream area (47 %). In contrast, Scenario 1, aimed at reducing wastewater discharges from urban and industrial WWTPs through water reclamation, and Scenario 2, which focused on eliminating MP in Organized Industrial Zone (OIZ) discharges by changing industrial inputs, achieved the most effective MP reductions in the upper basin, with reductions of 20 % and 17 %, respectively. Scenario 3, targeting flow reduction and accumulation through constructed wetlands, had minimal impact, with reductions close to 0 % in most areas. These results highlight the need for comprehensive approaches to effectively reduce MP pollution, particularly in managing upstream and tributary sources.Article Citation - WoS: 3Citation - Scopus: 3A Novel MIP Electrochemical Sensor Based on a CuFe2O4NPs@rGO Nanocomposite and Its Application in Breast Milk Samples for the Determination of Fipronil(Royal Soc Chemistry, 2025) Njjar, Muath; Akturk, Ezgi Zekiye; Kaya, Ahmet; Onac, Canan; Akdogan, AbdullahBackground: fipronil, a widely utilized insecticide in agriculture, has been shown to have potential health implications as it can accumulate in the environment and affect human health. Electrochemical sensors, specifically those incorporating molecularly imprinted polymers (MIPs), provide an efficient way for the detection of fipronil because of their selectivity and specificity. The combination of CuFe2O4NPs and reduced graphene oxide (rGO) exhibits a synergistic effect that enhances sensitivity and selectivity. The composite's effective properties provide a robust platform for fipronil determination in various matrices. This study detected fipronil using an electrochemical sensor based on a glassy carbon electrode (GCE) modified with MIP@CuFe2O4NPs@rGO. Results: the synthesized MIP@CuFe2O4NPs@rGO material was characterized using various techniques such as Fourier transform infrared (FT-IR) spectroscopy, scanning electron microscopy (FESEM), X-ray diffraction (XRD) analysis, energy dispersive X-ray (EDX) analysis, Brunauer-Emmett-Teller (BET) analysis, X-ray photoelectron spectroscopy (XPS) analysis, and electrochemical impedance spectroscopy (EIS). The modified GCE showed enhanced electrochemical behavior for fipronil, as demonstrated by cyclic voltammetry (CV) and square wave voltammetry (SWV) techniques. Optimization of parameters such as pH, pyrrole concentration, and template concentration further improved sensor performance. The sensor exhibited a linear dynamic range of 1 to 6 nM, with a limit of detection (LOD) of 0.30 nM (S/N = 3) and a limit of quantification (LOQ) of 1.08 nM (S/N = 10), highlighting its sensitivity and reliability. The precision of the method was excellent, with a relative standard deviation of less than 4.0%. When applied to quantify fipronil in breast milk samples, the sensor showed high accuracy and precision, with recoveries ranging from 96.24% to 97.75%. Significance: the sensor offers several advantages, including high sensitivity, specificity, and accuracy. Its ability to detect fipronil in complex matrices such as breast milk highlights its potential for real-world applications in environmental and health monitoring. Overall, this research paves the way for the development of efficient, rapid and eco-friendly sensors for detecting pesticide residues in various environmental and biological samples.Article Citation - WoS: 1Citation - Scopus: 1High-Performance Polyether Sulfone (PES) Membranes Modified With Sunflower Seed Shell-Derived Activated Carbon (SSAC)@zif-11 Nanoparticles for Enhanced Antibiotic Removal and Antifouling Properties(Elsevier, 2025) Alafi, Narges Mortazazad; Barzegar, Behrad; Habibi, Rezvan; Aghdasinia, Hassan; Altinkaya, Sacide Alsoy; Barzegar, B.This study investigates the impact of incorporating a novel composite filler on the antibiotic removal efficiency and protein fouling resistance of polyether sulfone (PES) membranes. The filler was synthesized from activated carbon derived from sunflower seed shells (SSAC) and modified with zeolitic imidazolate framework-11 (ZIF-11). The adsorption capacities of the composite for two model antibiotics, tetracycline (TC) and rifampicin (RP), were evaluated. Mixed matrix membranes were fabricated using the phase inversion method with varying SSAC@ZIF11 contents (0.2-1 wt%). The membrane containing 0.8 wt% SSAC@ZIF-11 exhibited improved structural and surface characteristics, including increased porosity, larger pore size, smoother morphology, and enhanced hydrophilicity, as reflected by a reduction in contact angle from 60.72 degrees to 46.45 degrees. At this optimal loading, the pure water flux increased significantly from 10.52 to 39.1 L/m2h. Moreover, the modified membrane demonstrated outstanding removal efficiencies for TC (99.12 %) and RP (89.9 %), alongside excellent antifouling performance, as indicated by a flux recovery ratio increase from 42.85 % to 99.74 %. These results confirm the potential of SSAC@ZIF-11 as an effective nanofiller for developing high-performance PES membranes in advanced water purification applications.Article Citation - WoS: 2Citation - Scopus: 2Determination of Retrorsine in Thyme Via Molecularly Imprinted Electrochemical Sensor: Validation and Comparison With Chromatographic Technique(Elsevier Sci Ltd, 2025) Tunc-Ata, Melek; Akturk, Ezgi Zekiye; Njjar, Muath; Kaya, Ahmet; Akdogan, Abdullah; Onac, CananPyrrolizidine alkaloid (PA) toxicity is a growing public health concern, especially with rising herbal product use during the pandemic, highlighting the need for accurate exposure data. Retrorsine (RTS), a retronecine-based PA, is highly toxic, causing liver damage, mutagenicity, and DNA cross-linking through metabolic activation. In the light of the need for a practical alternative to monitor pyrrolizidine alkaloid contamination in herbal products, a molecularly-imprinted-polymer sensor (MIPs-GCE) was used for exploring the electrochemical behavior of RTS electrochemical behavior using cyclic voltammetry and the selective detection of RTS using square wave voltammetry. The sensor demonstrated a linear-detection range of 0.05-2 nM, with a LOD of 0.02869 nM. The sensor's accuracy was validated by analyzing thyme samples, detecting RTS concentrations of 0.5168 and0.5345 nM with RSD of 2.4 % and 1.9 %. These results closely aligned LC-MS/MS values of 0.5142 and 0.5267 nM, confirming the sensor's precision. The sensor demonstrated high selectivity, low detection limits, and practical applicability, ensuring reliable and efficient RTS detection in the presence of twenty-eight different PA compounds. This study introduces a novel, reliable, and straightforward method for detecting PAs, with a specific focus on RTS, offering an enhancement to existing analytical techniques and presenting a complementary alternative in chromatographic applications such as LC-MS/MS, HPLC and GC-MS.Article Citation - WoS: 2Citation - Scopus: 2Speciation of Inorganic and Organometallic Arsenic in Various Matrices With a Novel Spme Fiber Functionalized With Iron Nanoparticles Prior To Lc-Icp Determination(Elsevier, 2025) Boyaci, Ezel; Cagir, Ali; Shahwan, Talal; Eroglu, Ahmet E.A novel SPME-LC-ICP-MS methodology is described for the simultaneous microextraction/speciation/determination of the metabolically critical inorganic and organoarsenic species, namely, As(III), As(V), dimethylarsinic acid (DMA), and monomethylarsonic acid (MMA) in natural waters such as drinking and geothermal waters, and biological fluids such as urine. The novelty of the study stems also from the use of home-made SPME fibers for the extraction process, and from the proposed methodology needing no derivatization step. SPME fibers were prepared with in-tube capillary template approach through the immobilization of iron nanoparticles into agarose matrix. The fibers demonstrated reproducible extraction (<10 % RSD), good mechanical strength and good solvent resistivity. The separation of the analytes was realized by HPLC with a strong anion exchange column via gradient elution using different concentrations of (NH4)(2)CO3 (pH 8.50), and the on-line detection of eluted analytes was achieved by ICP-MS. The validity of the proposed methodology was verified via the analysis of certified reference materials (SRM 1643e, Natural Water-Trace Elements, and SRM 2669, Arsenic Species in Frozen Human Urine) and through spike recovery tests. The values of percentage recovery for SRM 2669 were 90.7 % for As(III), 99.8 % for As(V), 93.6 % for DMA, and 85.9 % for MMA. A good correlation was also found between the certified (60.45 mu gL(-1)) and determined (59.00 mu gL(-1)) values for SRM 1643e. Moreover, the speciation capability of the method was demonstrated on various natural waters and biological fluids.Article Plasma Proteomic Markers of Interleukin-1β Pathway Associated With Incident Age-Related Macular Degeneration in Persons With Aids(Elsevier, 2025) Hunt, Peter W.; Olshen, Adam B.; Murad, Natalia; Ambayec, Gabrielle C.; Sezgin, Efe; Schneider, Michael F.; Jabs, Douglas A.Objective To evaluate the associations of plasma inflammatory proteins with age-related macular degeneration (AMD) in persons with the AIDS, using a discovery-based proteomics approach. Design A nested case-control study (analysis 1) and nested cohort study (analysis 2). Participants Persons with AIDS enrolled in the Longitudinal Study of the Ocular Complications with AIDS (LSOCA). Methods Cryopreserved plasma specimens obtained at baseline were assayed for inflammatory proteins using the Olink Inflammation Explore Panel 1. In analysis 1, baseline proteomic profiles for 26 persons with AIDS and incident intermediate-stage AMD 5 to 10 years after baseline and 49 matched controls (matched for age, biologic sex, race/ethnicity, and follow-up) without AMD were compared. In analysis 2, 475 persons from LSOCA with baseline plasma inflammatory proteomic profile measurements were followed for incident cataract and mortality. Main Outcome Measures Incident intermediate-stage AMD; incident cataract; and mortality. Results Of 365 measurable plasma inflammatory proteins, 118 (32%) were associated with incident intermediate-stage AMD at the false discovery rate-adjusted Q < 0.05 level after adjustment for smoking, CD4+ T count, and plasma human immunodeficiency virus RNA level. Gene ontology pathway enrichment analysis identified the interleukin (IL)-1 beta pathway and wound healing pathways, including tissue inhibitor of metalloproteinase 3, as significantly associated with incident AMD. These associations were qualitatively different from those associated with incident cataracts, where elevated levels of inflammatory proteins were associated with a decreased risk of cataracts. A much broader number of inflammatory pathways, including those related to the adaptive immune system, were associated with mortality. Conclusions Upregulation of the IL-1 beta pathway appears to be associated with an increased risk of incident AMD in persons with AIDS. Given the availability of inhibitors of this pathway, inhibition of the IL-1 beta pathway may provide a therapeutic avenue for treatment of AMD. Financial Disclosure(s) Proprietary or commercial disclosure may be found in the Footnotes and Disclosures at the end of this article. Ophthalmology Science 2025;5:100794 (c) 2025 by the American Academy of Ophthalmology. This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).Article Citation - WoS: 3Citation - Scopus: 3An Ex Vivo Model for Evaluation of Prebiotic Activity of Xylan and Xylooligosaccharides(Elsevier, 2025) Sabanci, Kevser; Gulec, Sukru; Buyukkileci, Ali OguzEx vivo techniques can provide more physiologically significant insights into prebiotic activity and overcome some limitations of in vitro tests. In this study, an ex vivo model, formed of a large intestine of mice, was tested to assess the effects of the hydrocolloidal natural polymer, xylan (XY), and its hydrolysis product, xylooligosaccharides (XOS). XY and XOS were loaded separately into the cecum, proximal colon, and distal colon. Their utilization and short-chain fatty acid (SCFA) formation by the colonized microflora and levels of dominant phyla and key genera such as Bifidobacterium, Bacteroides, and Lactobacillus were followed. XY and XOS were metabolized in all sections, and SCFAs were released. The results suggest that the slower utilization of XY compared to XOS in the cecum can enable this polysaccharide to move towards distal parts of the large intestine and extend the sites of prebiotic activity. Unlike widely used in vitro models, the ex vivo model allowed testing the utilization pattern and effects of the prebiotics in the natural environment of the microflora and examining the intestinal sections separately.Article Citation - WoS: 1Citation - Scopus: 1Phase-Dependent Optical, Photocatalytic and Capacitive Properties of Tungsten Oxide Nanowires(Royal Soc Chemistry, 2025) Kahraman, Zeynep; Gungor, Ahmet; Buldu-Akturk, Merve; Tan, Metin; Alp, Emre; Erdem, Emre; Genc, AzizTransition metal oxides hold great promise across a wide range of applications due to favorable properties such as high abundance, low toxicity, and excellent stability. Nanoengineering approaches are essential for controlling the structural, optical, and electronic properties of these materials, enabling the achievement of desired characteristics in a cost-effective and environmentally friendly manner. In this study, we synthesize stoichiometric (WO3) and sub-stoichiometric (WO3-x) tungsten oxide nanowires by controlling their phases and morphologies through the hydrothermal method. This approach allows us to systematically investigate the effects of different phases and oxygen vacancies on the optical properties, as well as on photocatalytic and supercapacitance applications. We use the photodegradation of RhB as a benchmark for photocatalytic activity under various experimental conditions, revealing that oxygen vacancies significantly influence photocatalytic behavior. For example, WO3-x nanowires adsorb/degrade a substantial amount of RhB within short durations under ambient conditions, where WO3 nanowires are mostly inactive. The addition of H2O2 enhances the photocatalytic performance of WO3 nanowires over 30 minutes, with even better results under low pH conditions with H2O2. This study also explores the phase-dependent electrochemical properties of WO3 and WO3-x nanowires, providing insights into their potential for improved supercapacitor performance by leveraging their complementary properties in symmetric and asymmetric configurations. WO3-x, with a higher density of oxygen vacancies and thinner structure, offers enhanced conductivity and increased active sites for charge storage, resulting in superior specific capacitance and charge retention.