PubMed İndeksli Yayınlar Koleksiyonu / PubMed Indexed Publications Collection

Permanent URI for this collectionhttps://hdl.handle.net/11147/7645

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  • Article
    Anticancer Properties of Newly Synthesized Pyrrole Derivatives as Potential Tyrosine Kinase Inhibitors
    (Wiley, 2026) Kaya, Meltem; Kara, Yunus; Sanli-Mohamed, Gulsah
    The anticancer activity of a series of newly synthesized pyrrole derivatives was systematically evaluated in HeLa cervical cancer cells, focusing on their potential as tyrosine kinase inhibitors and modulators of the mTOR signaling pathway. This study builds on our previous synthetic work by investigating the biological effects of seven structurally characterized compounds (d1-d7). Among them, compounds d1 and d3 exhibited the most potent cytotoxicity, with IC50 values of 140.6 mu M and 366.4 mu M, respectively, after 48 h of treatment. Both compounds significantly impaired cell cycle progression-d1 induced S-phase arrest, while d3 caused G1-phase arrest-and markedly suppressed cell migration in wound healing assays. Mechanistically, these effects were accompanied by reduced phosphorylation of p70S6K (Thr389, Ser421/424) and increased p-4EBP1, indicating inhibition of mTORC1 signaling. These findings suggest that d1 and d3 are promising lead compounds with dual antiproliferative and anti-migratory activity in cervical cancer, mediated through modulation of the PI3K/Akt/mTOR axis.
  • Article
    Analytical Methodology for Monitoring and Distribution Pattern Analysis of Polycyclic Aromatic Hydrocarbons in River Basins Based on Chemometrics
    (Wiley, 2025) Yildirim, Ebru calkan; Pelit, Fusun; Ozdemir, Durmus; Kazan, Aysegul; Tasdelen, Ozge; Baycan, Neval
    With the increase in urbanization and industrialization, the environmental quality of river basins, which serve as a crucial source of irrigation for agricultural activities, has been deteriorating progressively. Thus, monitoring persistent toxic substances in urban water resources is crucial for maintaining ecological stability and protecting human health. In recent years, particular attention has been directed toward the prevention of polyaromatic hydrocarbons (PAHs), highlighting the importance of analyzing these compounds in water samples through more environmentally sustainable techniques. In this study, we report a green, rapid, cost-effective and simple dispersive liquid-liquid extraction (DLLME) method to monitor PAHs in river waters taken from 21 stations located within the geographical boundaries of the Gediz River Basin in Izmir Province, T & uuml;rkiye. Methodological parameters were optimized by chemometric techniques including Plackett-Burman (PBD) and Box-Behnken design. The method's accuracy was tested upon spiked river samples, and the recoveries ranged from 80% to 102%. The calibration curves were linear, with correlation coefficients greater than 0.98. The limit of detection values were between 0.01 and 0.05 ng mL-1. The reproducibility (RSD%) varied from 4.0% to 19%. Multivariate classification methods such as principal component analysis (PCA) and hierarchical cluster analysis (HCA), along with the supervised classification method partial least squares discriminant analysis (PLS-DA) were applied to elucidate the general distribution patterns of individual PAHs in the basin water samples. The chemometric evaluation conducted across four seasons revealed that PAH contamination was higher in the fall and winter months, resulting in a clear separation from spring and summer samples by using the first two principal components.
  • Article
    Citation - WoS: 1
    The Impact of Oxygen and Antimicrobial Tea Tree Oil Carrying Biomaterial on Cell Viability Under Hypoxic Conditions
    (Wiley, 2025) Demir, Yagmur Damla; Tepeli, Dilek; Guvensen, Mahmut Deniz; Soyer, Ferda; Akin, Ozlem; Kehr, Nermin Seda
    Traditional wound treatment involves protecting the wound with dressing and administering antibiotics to prevent tissue infection due to bacteria. However, these methods are inadequate due to the side effects of antibiotics on healthy cells and microbial resistance to antibiotics. Therefore, new strategies involving the application of natural resources such as essential oils as antimicrobial agents in combination with biomaterials as wound dressings have been tested in the treatment of wounds. Furthermore, oxygen (O2)-releasing biomaterials have attracted great interest due to the important role of O2 in wound healing processes. However, the co-application of O2 and essential oil as antimicrobial and cell-promoting agents has not been studied. In this context, we report a novel biomaterial capable of co-delivering O2 and natural antimicrobial tea tree oil (TTO) for 15 and 5 days, respectively. The biomaterial consists of an alginate scaffold (Alg-PMOF-O) containing O2-carrying nanomaterial, laponite and TTO. In vitro bacterial experiments have shown that O2 release from Alg-PMOF-O is an additional parameter acting as an antibacterial agent to inhibit bacterial growth but is not sufficient alone to inhibit bacteria. 5 mu L of TTO in Alg-PMOF-O is necessary to suppress both E. coli and S. aureus over a 1-day incubation period. The effect of TTO and O2 alone or in combination on cell viability is examined using WST-1 and PrestoBlue assays. According to the WST-1 and PrestoBlue tests, the combined application of TTO and O2 does not show any toxic effect on fibroblast cells under normoxic conditions during the 5-day incubation period. Under hypoxic conditions, the WST-1 test shows no toxic effect after only 1 day of incubation, while the PrestoBlue test shows no toxicity under hypoxia during both 1 and 5 days of incubation. On the other hand, the combined application of TTO and O2 indicates toxic effects on cancer Malme-3M cells during both normoxic and hypoxic conditions over 1 and 5 days of incubation. This effect is confirmed by both the WST-1 and PrestoBlue tests. The overall results demonstrate that Alg-PMOF-O exhibits antibacterial activity while having a lower toxic effect on fibroblasts under hypoxic conditions, and therefore has potential for use as wound dressing.
  • Article
    Citation - WoS: 1
    Toxicological Assessment of Melamine-Functionalized Graphene Oxide and Carbon Nanotubes Using Zebrafish Models
    (Wiley, 2025) Yigit, Aybek; Yildirim, Serkan; Kokturk, Mine; Nazli, Dilek; Kiliclioglu, Metin; Ozhan, Gunes; Menges, Nurettin
    Graphene oxide (GO) and carbon nanotube (CNT)-based nanomaterials have attracted significant interest in various industrial and biomedical applications due to their unique physicochemical properties; however, concerns about their potential toxicity, especially when modified with additives like melamine (M), remain largely unresolved. This study investigates the toxicological effects and underlying mechanisms of graphene oxide-melamine (GO-M) and carbon nanotube-melamine (CNT-M) nanoparticles in zebrafish (Danio rerio) embryos and larvae. To this end, developmental toxicity, phenotypic and behavioral changes, as well as histopathological and immunofluorescence alterations, were evaluated following acute exposure to GO-M and CNT-M nanoparticles at concentrations of 5, 10, and 20 mg/L. Results showed that both nanoparticles delayed larval hatching, particularly at higher concentrations (10 and 20 mg/L). Malformations were observed at 20 mg/L in the GO-M group and at 10 and 20 mg/L in the CNT-M group. Additionally, significant changes in larval length and eye area were observed at all concentrations for both nanoparticles. Behavioral assessments revealed that CNT-M exposure at 10 and 20 mg/L significantly impaired head sensorimotor reflexes, while all concentrations affected tail reflexes. In contrast, GO-M exposure did not significantly alter sensorimotor responses. These findings suggest differential toxic mechanisms and neurobehavioral effects of GO-M and CNT-M nanoparticles during early zebrafish development.
  • Article
    Quaternary Ammonium Functionalized Cellulose for Bromate Ion Removal: Structural Insights and Efficacy Evaluation
    (Wiley, 2025) Koseoglu, Ecem; Senver, Buse Aleyna; Recepoglu, Yasar Kemal; Arar, Ozgur
    This study evaluates the potential of quaternary ammonium-modified cellulose as a biosorbent for bromate (BrO3-) removal from aqueous solutions. Elemental analysis and scanning electron microscopy (SEM) characterized the elemental composition and microstructural features of the biosorbent, whereas Fourier-transform infrared (FTIR) spectroscopy elucidated its molecular structure. Experimental results revealed that BrO3- removal efficiency increased with the biosorbent dose, achieving approximately 58%, 78%, and 90% removal with 0.025, 0.05, and 0.2 g of sorbent, respectively. The removal was pH-dependent, with efficiencies of 25%, 45%, and 76% at pH 2, 4, and 10, respectively, and the optimal removal was within the pH range of 6-8. Kinetic studies demonstrated rapid sorption, achieving 91% removal within 3 min. The Langmuir sorption isotherm model provided an excellent fit to the experimental data (R 2 = 0.9987), indicating a maximum sorption capacity of 9.40 mg/g. Thermodynamic analyses confirmed a spontaneous and endothermic sorption process (triangle G degrees = -8.11 kJ/mol; triangle H degrees = +2.22 kJ/mol). Desorption studies showed >= 99.9% efficiency using 0.1-M H2SO4 and NaCl, with NaCl selected as the preferred regenerant to minimize acid consumption. The biosorbent retained over 90% removal efficiency across three regeneration cycles. These findings highlight the potential of quaternary ammonium-modified cellulose as a sustainable and efficient material for BrO3- removal from water systems.
  • Article
    Nanoencapsulation of Hydroxytyrosol Extract of Fermented Olive Leaf Brine Using Proniosomes
    (Wiley, 2025) Kadiroglu, Pinar; Kilincli, Betul; Ilgaz, Ceren; Bayindir, Zerrin Sezgin; Kelebek, Hasim; Helvacioglu, Selin; Ozhan, Gunes
    BACKGROUND: Olive leaves are rich in bioactive compounds with potential health benefits; however, their limited bioavailability and stability hinder their effective utilization. Emerging technologies, nanocarrier-based delivery systems, have shown promise in enhancing these properties. RESULTS: The optimal conditions for proniosome formulation were 50 rpm rotational speed and 35 degrees C, achieving 81.20 +/- 0.80% encapsulation efficiency. Particle sizes ranged from 188.6 to 248.9 nm, with a zeta potential of similar to-30 mV, indicating high stability and resistance to aggregation. Advanced instrumental analysis confirmed interactions between the extract and proniosome components. After 30 days at 4 degrees C, extract-loaded proniosomes maintained better homogeneity and lower polydispersity index. Cytotoxicity studies showed that both the extract and its proniosomal form were nontoxic to HEK293T cells up to 200 mu g mL(-1). In zebrafish assays, minimal larval mortality was observed up to 3200 mu g mL(-1) for the extract, while no mortality occurred up to 1600 mu g mL(-1) for the proniosomal extract, highlighting its improved safety profile. CONCLUSION: The findings from this research could contribute to the advancement of sustainable and health-promoting food innovations by integrating cutting-edge nanotechnology-driven encapsulation strategies into plant-based food formulations. (c) 2025 Society of Chemical Industry.
  • Article
    Time-Dependent Effects of Low-Intensity Pulsed Ultrasound on Apoptosis and Autophagy in Malignant Melanoma Stem Cells
    (Wiley, 2025) Dikici, Omer; Ozdil, Berrin; Yesin, Taha Kadir; Dikici, Aylin; Adali, Yasemin; Aktug, Huseyin
    Cancer stem cells (CSCs) in malignant melanoma contribute to therapeutic resistance and tumour recurrence. While low-intensity pulsed ultrasound (LIPUS) has been proposed as a non-invasive strategy to induce cell death, its effects on CSC-specific apoptotic and autophagic responses remain unclear. This study aimed to explore the time-dependent effects of LIPUS on apoptosis and autophagy in CD133+ melanoma CSCs and CD133- non-stem melanoma cells. Human melanoma cells (CHL-1) were sorted via FACS into CD133+ and CD133- populations. Cells were exposed to LIPUS (1 MHz, 20% duty cycle, 1 W/cm2) for 1, 5, and 10 min. Protein expression levels of Caspase-3, Caspase-8, mTOR, and LC3 were evaluated via immunofluorescence and quantified by image-based analysis. Both cell populations showed significant increases in Casp3, Casp8, mTOR, and LC3 intensities following LIPUS application. Notably, CD133+ cells exhibited delayed but sustained increases in Casp3 and LC3 expression, while CD133- cells responded more rapidly. mTOR activity demonstrated distinct temporal dynamics between the two groups, suggesting differential modulation of autophagy-related pathways. LIPUS triggers temporally distinct apoptotic and autophagic responses in melanoma CSCs and non-stem cancer cells. These findings suggest a potential therapeutic avenue to selectively disrupt CSC survival mechanisms using mechanical stimulation.
  • Article
    Citation - WoS: 4
    Citation - Scopus: 3
    Unveiling Bone and Dental Regeneration Potential of Quince Seed Mucilage-Nanohydroxyapatite Scaffolds in Rabbit Mandibles
    (Wiley, 2025) Genc, Cigdem Cetin; Yilmaz-Dagdeviren, Hilal Deniz; Deniz, Yesim; Derkus, Burak; Degirmenci, Alpin; Arslan, Yavuz Emre
    Donor-side morbidity of autografting for maxillofacial region defect regeneration has directed attention to bioengineered scaffolds. Composite scaffolds that mimic the bone extracellular matrix (ECM) are the potential candidates for defect reconstruction. Herein, a plant-based regenerative hydrogel, quince seed mucilage (QSM), was enriched with the nanohydroxyapatite (nHAp) particles to construct composite scaffolds (QSM/nHAp). The emerging scaffold is able to induce cellular spheroid formation and regenerate the critical-sized bilateral mandibular defects in rabbits. The macroscopic observations, histochemical (HC) and immunohistochemical (IHC) stainings, mu-computer tomography (CT) scanning, quantitative real time-polymerase chain reaction (qRT-PCR) analyses, and scanning electron microscopy (SEM) imaging revealed that all QSM/nHAp scaffolds were swelled with host blood, filled the whole cavity, and sustained cellular infiltration without adverse reactions. The gradual biodegradation profile of the scaffolds improved bone regeneration by releasing nHAp particles from the scaffold. Strikingly, co-development of dental and bone regeneration was observed for all QSM/nHAp groups beginning after day 21. Moreover, QSM/nHAp scaffolds induced expression (> 2-fold) of bone and dental-related gene and protein expressions at the grafted area and sustained a proper platform for maxillofacial remodeling. Therefore, we strongly believe that such biocompatible plant-based constructs, compared with conventional medical devices used in maxillofacial surgery, could support and induce simultaneous bone and dental regeneration due to the intrinsic dynamics of the material.
  • Article
    Phenotypically Plastic Drug-Resistant Chronic Myeloid Leukaemia Cell Line Displays Enhanced Cellular Dynamics in a Zebrafish Xenograft Model
    (Wiley, 2024) Baykal, Seda; Yuce, Zeynep; Ozhan, Gunes
    Understanding the mechanisms by which cancer cells switch between different adaptive states and evade therapeutic interventions is essential for clinical management. In this study, the in vivo cellular dynamics of a new chronic myeloid leukaemia cell line displaying altered phenotype and resistance to tyrosine kinase inhibitors were investigated in correlation with their parental cells for invasiveness/metastasis, angiogenic potential and population kinetics. We showed that the cells exhibiting drug resistance and plastic phenotype possess an increased capacity for invasion compared to their parental cells, that exposure to imatinib mesylate has the potential to enhance cellular motility and that in a leukaemic cell population, even a minority of plastic cells exhibit improved migratory ability. Furthermore, we show that these plastic cells have angiogenic and extravasation potential. The present study provides significant insights into the cellular dynamics displayed by a TKI-resistant, phenotypically plastic CML cell line, using a zebrafish (Danio rerio) xenograft model.
  • Review
    Citation - WoS: 3
    Citation - Scopus: 4
    Long Non-Coding Rna-Mediated Modulation of Endoplasmic Reticulum Stress Under Pathological Conditions
    (Wiley, 2024) Ciftci, Yusuf Cem; Yurtsever, Yigit; Akgul, Bunyamin
    Endoplasmic reticulum (ER) stress, which ensues from an overwhelming protein folding capacity, activates the unfolded protein response (UPR) in an effort to restore cellular homeostasis. As ER stress is associated with numerous diseases, it is highly important to delineate the molecular mechanisms governing the ER stress to gain insight into the disease pathology. Long non-coding RNAs, transcripts with a length of over 200 nucleotides that do not code for proteins, interact with proteins and nucleic acids, fine-tuning the UPR to restore ER homeostasis via various modes of actions. Dysregulation of specific lncRNAs is implicated in the progression of ER stress-related diseases, presenting these molecules as promising therapeutic targets. The comprehensive analysis underscores the importance of understanding the nuanced interplay between lncRNAs and ER stress for insights into disease mechanisms. Overall, this review consolidates current knowledge, identifies research gaps and offers a roadmap for future investigations into the multifaceted roles of lncRNAs in ER stress and associated diseases to shed light on their pivotal roles in the pathogenesis of related diseases.