PubMed İndeksli Yayınlar Koleksiyonu / PubMed Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/11147/7645
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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: 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: 2Citation - Scopus: 2Neolithic Introgression of Il23r-Related Protection Against Chronic Inflammatory Bowel Diseases in Modern Europeans(Elsevier, 2025) Krause-Kyora, Ben; Da Silva, Nicolas Antonio; Kaplan, Elif; Kolbe, Daniel; Wohlers, Inken; Busch, Hauke; Schreiber, StefanBackground The hypomorphic variant rs11209026-A in the IL23R gene provides significant protection against immune-related diseases in Europeans, notably inflammatory bowel diseases (IBD). Today, the A-allele occurs with an average frequency of 5% in Europe. Methods This study comprised 251 ancient genomes from Europe spanning over 14,000 years. In these samples, the investigation focused on admixture-informed analyses and selection scans of rs11209026-A and its haplotypes. Findings rs11209026-A was found at high frequencies in Anatolian Farmers (AF, 18%). AF later introduced the allele into the ancient European gene-pool. Subsequent admixture caused its frequency to decrease and formed the current southwest-to-northeast allele frequency cline in Europe. The geographic distribution of rs11209026-A may influence the gradient in IBD incidence rates that are highest in northern and eastern Europe. Interpretation Given the dramatic changes from hunting and gathering to agriculture during the Neolithic, AF might have been exposed to selective pressures from a pro-inflammatory lifestyle and diet. Therefore, the protective A-allele may have increased survival by reducing intestinal inflammation and microbiome dysbiosis. The adaptively evolved function of the variant likely contributes to the high efficacy and low side-effects of modern IL-23 neutralisation therapies for chronic inflammatory diseases. Copyright (c) 2025 The Author(s). Published by Elsevier B.V. This is an open access article under the CC BY license (http://creativecommons.org/licenses/by/4.0/).Article Citation - WoS: 1Citation - Scopus: 1Assessment of Thermal and Solvent Stable Spme Fibers for Metabolomics Studies Performed in Living Systems(Elsevier, 2025) Kahremanoglu, Kuebra; Jaroch, Karol; Szeliska, Paulina; Filipiak, Wojciech; Charemski, Bartlomiej; Zuchowska, Karolina; Boyaci, EzelSolid phase microextraction (SPME), as a sampling/sample preparation technique, offers unique solutions for the most challenging applications, including metabolomics studies of living systems. However, for global metabolomics it is critical to use an SPME sampler facilitating the extraction of both volatiles and nonvolatiles, which at the same time is compatible with thermal and solvent-assisted desorption. As a promising universal coating, recently hydrophilic-lipophilic balanced (HLB) particles immobilized in PTFE have been introduced as a new SPME sampler to provide a wide-range of analyte coverage and compatibility with solvent and thermal desorption. Thus, making it suitable for both gas and liquid chromatography (GC/LC) based applications. However, its potential in metabolomics has not been investigated to date. In this study, HLB/PTFE SPME fibers were prepared, evaluated with selected polar and non-polar metabolites relevant to biological systems, and validated for cell-line studies. The validation proved that these fibers can extract a wide-range of molecules (LogP: 4.2 to 15.6) with acceptable accuracy (<= 19% RE%) and repeatability (intra-day <= 17% and inter-day 12% RSD%). The LOQ was determined to vary between 150.0 and 500.0 ng/mL. Upon validation, the fibers were used in a proof-of-concept study for extraction of endometabolome and exometabolome of melanoma B16F10 and lung cancer LL2 cell lines. The metabolome studies showed that HLB/ PTFE fibers provide lower coverage, but for some compounds higher extraction efficiency compared to HLB/PAN fibers used in LC-based metabolomics. Fibers also proved suitable for GC-MS analysis, allowing for the detection of 36 volatile organic compounds in the headspace of the cell lines and RPMI medium.Article Citation - WoS: 7Citation - Scopus: 7Quaternary Ammonium-Modified Cellulose: a Sustainable Strategy for Purifying Aqueous Solutions Contaminated With Sunset Yellow Dye(Elsevier, 2025) Toprakcurumez, Halil; Recepoglu, Yasar Kemal; Arar, OzgurThis study showcases the remarkable efficacy of quaternary ammonium-modified cellulose as a highly sustainable biosorbent for removing Sunset Yellow (SY) dye from water. Detailed analysis was conducted using infrared (FTIR) spectroscopy for structural changes and Scanning Electron Microscopy (SEM) for morphological changes. A minimal yet highly effective dose of 0.05 g was identified through dedicated optimization experiments, achieving near-complete removal (99 %) of SY. The biosorbent demonstrated exceptional performance across a broad pH range (2-10), accomplishing remarkable removal within just 5 min. Langmuir modeling uncovered a monolayer sorption mechanism with a high maximum capacity (107.08 mg g- 1), and thermodynamic analysis affirmed the spontaneity and favorability of the sorption process. Noteworthy is the biosorbent's impressive regeneration capabilities (up to 95 %) using 1.0 M NaOH or HCl solutions and its sustained performance over three sorption-regeneration cycles, highlighting its exceptional stability and reusability. The modified cellulose exhibited remarkable resistance to common interfering ions (chloride, nitrate, and sulfate) at 10 and 100 mg L- 1 concentrations. These combined features position quaternary ammonium-modified cellulose as a promising, sustainable, and efficient option for dye wastewater treatment.Article Citation - WoS: 4Citation - Scopus: 5Enhanced Performance and Anti-Fouling Properties of Polyether Sulfone (pes) Membranes Modified With Pistachio Shell-Derived Activated Carbon (psac)@zif-8&zif To Remove Dye Contaminants(Elsevier, 2024) Shakeri, Neda; Barzegar, Behrad; Habibi, Rezvan; Aghdasinia, Hassan; Altinkaya, Sacide AlsoyThis study aims to improve the properties of polyether sulfone (PES) membranes by using an innovative composite filler. Pistachio shell-derived activated carbon (PSAC) was initially synthesized via chemical activation, followed by surface modification with ZIF-8 and ZIF-67. Subsequently, modified membranes with varying weight percentages of this composite were fabricated using the phase inversion method. The PSAC@ZIF-8&ZIF-67/PES membranes were characterized through FESEM, AFM, pore size, zeta potential, porosity, and water contact angle analyses. The incorporation of the composite in the membranes was confirmed through ATR-FTIR, XRD, and EDS mapping analyses. The finding indicated that adding 0.6 wt% of nanoparticles improved membrane hydrophilicity, increased surface charge, and enhanced porosity. Additionally, the mixed membranes exhibited reduced sedimentation and higher dye removal than unmodified membranes. The optimum amount of composite is determined as 0.6 wt%. At this condition, pure water flux (PWF) increased dramatically from 22.56 L/m2h to 96.26 L/m2h. The mixed matrix membrane demonstrated superior efficiency in removing malachite green (MG) (97 %) and crystal violet (CV) dyes (93 %) and achieved the highest recovery ratio of 61.9 %, indicating a more remarkable membrane ability to combat fouling. The developed membrane demonstrated enhanced hydrophilicity, dye removal efficiency, and antifouling properties, making it promising for environmental applications.Article Citation - WoS: 4Citation - Scopus: 6Effect of Boramidic Acid Modified Carbon Nanotubes on Neurological, Morphological and Physiological Responses of Zebrafish (danio Rerio) Embryos and Larvae(Elsevier, 2024) Yigit, Aybek; Kokturk, Mine Ko; Yildirim, Serkan; Nazli, Dilek; Kiliccioglu, Metin; Sahin, Ayse; Alak, GoncaThis study aimed to determine the potential toxicological effects of carbon nanotubes (CNTs), their modifications with ethylenediamine (ED) and boric acid (BA) on aquatic organisms. Specifically, the research focused on the morphological, physiological, and histopathological-immuno-histochemical responses in zebrafish (Danio rerio) embryos and larvae, via applying different concentrations of CNTs, CNT-ED, and CNT-ED-BA (Control, 5, 10, and 20 mg/L). The results indicated that 20 mg/L CNT nanoparticles were toxic to zebrafish larvae, with mortality rates increasing with CNT and CNT-ED concentrations, reaching 36.7 % at the highest CNT concentration. The highest dose caused considerable degeneration, necrosis, DNA damage, and apoptosis, as evidenced by histopathological and immunohistochemical tests. In contrast, despite their high concentration, CNT-ED-BA nanoparticles exhibited low toxicity. Behavioral studies revealed that CNT and CNT-ED nanoparticles had a more significant impact on sensory-motor functions compared to CNT-ED-BA nanoparticles. These findings suggest that modifying the nanosurface with boric acid, resulting in boramidic acid, can reduce the toxicity induced by CNT and CNT EDArticle Citation - WoS: 9Citation - Scopus: 8Depression in Older Adults and Its Associations With Sleep and Synaptic Density(Elsevier, 2024) Didikoglu, Altug; Guler, Esin Simge; Turk, Halil Kaan; Can, Kubilay; Erim, Aleyna Nur; Payton, Antony; Maharani, AsriBackground: Depression among older adults is a global concern, contributing to disability and overall illness burden. Understanding its trajectory, associated risk factors, and implications for mortality is essential for effective intervention. Moreover, the relationship between depression, sleep disturbances, and synaptic density in the ageing brain remains complex and poorly understood. Methods: Using data from the University of Manchester Longitudinal Study of Cognition in Normal Healthy Old Age cohort, comprising 6375 participants, we conducted comprehensive assessments of depression trajectories using generalized linear mixed models and mortality risks using Cox mixed-effects models. Generalized structural equation modelling was performed to explore longitudinal associations between sleep duration and depression. Lastly, associations between post-mortem synaptic density and depression were investigated. Results: Our findings revealed that depression rates declined until age 80 before increasing again. Depression was associated with a 10 % increased risk of mortality in older adults. Reduced sleep was correlated with depression, and depression measured early in the study predicted future reduced sleep. Post-mortem analysis showed a global reduction in synaptic density associated with depression, particularly pronounced in the frontal lobe. Limitations: Limitations include recall bias, limiting generalizability due to dominantly including White British participants and difficulty in establishing causation between synaptic density and depression. Conclusion: Our study underscores the significance of addressing depression in older adults, not only for mental health but also for mortality risk and neurobiological health. Early detection and intervention strategies are crucial for improving outcomes in elderly populations, potentially mitigating adverse effects on sleep, synaptic density, cognitive health, and longevity.