WoS İndeksli Yayınlar Koleksiyonu / WoS Indexed Publications Collection
Permanent URI for this collectionhttps://hdl.handle.net/11147/7150
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Article Citation - WoS: 4Citation - Scopus: 5Antioxidant and Antimicrobial Activities of Plants Grown in the Mediterranean Region(John Wiley and Sons Inc., 2022) Kaçar, D.; Bayraktar, Oğuz; Erdem, C.; Alamri, A.S.; Galanakis, C.M.Background: The main objective of this research was to identify plant species with possible bioactivities based on their total phenol content, antioxidant, and antimicrobial properties. Therefore, different parts of 42 plant species grown in the Mediterranean region were extracted with aqueous ethanol solutions to prepare extracts with antioxidant and antimicrobial activities, mainly resulting from their total phenol contents. No detailed laboratory data on the flora of this area exists regarding their total phenol contents and total antioxidant activities. Results: Yields of extraction for each plant material were determined. Extracts were characterized based on their total phenol contents, total antioxidant (both hydrophilic and lipophilic), and antimicrobial activities using Folin–Ciocalteu, Photochemiluminescence, disc diffusion, and microdilution methods, respectively. The extract of Hypericum empetrifolium had the relatively highest total water-soluble and lipid-soluble antioxidant activities. Sarcopoterium spinosum extract had relatively high total phenol content. Preliminary screening study was conducted with the disc diffusion method to evaluate the extracts' antimicrobial activities. 26 out of 42 plant species showed significant antimicrobial activities against the growth of microorganisms. Microdilution assays were performed to evaluate the most active plant species with their minimum inhibition concentrations. H. empetrifolium, Pistacia terebinthus, Arbutus unedo, and Cistus parviflorus were the most antimicrobial plant species among those investigated. CONCLUSION: The new potential sources for the isolation of bioactive natural compounds from specific plant species could be possible with the help of this present screening study. Isolated bioactive natural compounds can be utilized as raw materials in cosmetics, nutraceuticals, food supplements, and pharmaceutical industries. © 2022 Society of Chemical Industry.Article Citation - WoS: 1Citation - Scopus: 1Association Mapping of Plant Structure and Yield Traits in Faba Bean (vicia Faba L.)(John Wiley and Sons Inc., 2023) Abuzayed, M.A.; Baytar, A.A.; Yanar, E.G.; Doğanlar, Sami; Frary, AnneTens of thousands of faba bean accessions are available in germplasm collections throughout the world. Morphological characterization of these materials can enrich these collections and aid in the selection of genotypes for use in breeding programs. Results: In this study, 26 morphological characters were analyzed for 61 faba bean landraces and 53 cultivars over two seasons in Izmir, Turkey. The genotypes had high diversity for several yield traits including number of pods per plant, dry seed yield, and 100-seed weight. Association mapping was conducted for the morphological characters using 651 alleles from 100 simple sequence repeat (SSR) markers and a general linear model based on the Q matrix. A false discovery rate of 0.20 was used to test the significance of marker–trait associations resulting in 75 loci detected for 20 of the morphological characters (p ≤ 0.001). Conclusion: Overall, 44% of the quantitative trait loci (QTLs) were for seed traits, with 24%, 15%, and 17% of QTL identified for vegetative, inflorescence, and pod traits, respectively. The phenotypic data and marker–trait associations generated by this work can help breeding programs in the selection and improvement of faba bean. © 2023 Society of Chemical Industry.Article Citation - WoS: 4Citation - Scopus: 4A Polymeric Copper Complex Based on a Pyrazole Derivative: Synthesis, Spectroscopic, X-Ray, and Biological Activity Studies(John Wiley and Sons Inc., 2024) Amin,M.A.; Diker,H.; Şahin,O.; Varlıklı, Canan; Soliman,A.A.A novel 1D coordination polymeric copper complex based on 4-(4′-nitrophenylhydrazono)-5-trifluoromethyl-2,4-dihydropyrazol-3-one was prepared and characterized spectroscopically and thermally and via X-ray crystallographic investigation. The prepared copper-based structure was proved to have a 1D coordination polymer. X-ray studies showed that the polymeric copper complex was of octahedral geometry, the ligand acted as a bidentate ligand, and the nitro group attached to the ligand acted as a bridging group. The cytotoxic activities of the copper polymer were evaluated including against MCF-7 cells (breast cancer cell line), HepG-2 cells (hepatocellular carcinoma), and HCT-116 cells (colon cancer cell line). The morphological alterations of the complex treated cells were investigated using an inverted microscope. The cell cycle and apoptosis were evaluated and reported. The copper polymer exhibited the best antitumor activity against HepG-2 cells (35.22 ± 4.80 μM) while also causing a decline in the G2/M phase and a remarkable enhancement in the early apoptosis. © 2024 John Wiley & Sons, Ltd.Article Citation - WoS: 13Citation - Scopus: 13Her2-Targeted, Degradable Core Cross-Linked Micelles for Specific and Dual Ph-Sensitive Dox Release(John Wiley and Sons Inc., 2021) Bayram, Nazende Nur; Ulu, Gizem Tuğçe; Topuzoğulları, Murat; Baran, Yusuf; Dinçer İşoğlu, SevilHere, a targeted, dual-pH responsive, and stable micelle nanocarrier is designed, which specifically selects an HER2 receptor on breast cancer cells. Intracellularly degradable and stabilized micelles are prepared by core cross-linking via reversible addition-fragmentation chain-transfer (RAFT) polymerization with an acid-sensitive cross-linker followed by the conjugation of maleimide-doxorubicin to the pyridyl disulfide-modified micelles. Multifunctional nanocarriers are obtained by coupling HER2-specific peptide. Formation of micelles, addition of peptide and doxorubicin (DOX) are confirmed structurally by spectroscopical techniques. Size and morphological characterization are performed by Zetasizer and transmission electron microscope (TEM). For the physicochemical verification of the synergistic acid-triggered degradation induced by acetal and hydrazone bond degradation, Infrared spectroscopy and particle size measurements are used. Drug release studies show that DOX release is accelerated at acidic pH. DOX-conjugated HER2-specific peptide-carrying nanocarriers significantly enhance cytotoxicity toward SKBR-3 cells. More importantly, no selectivity toward MCF-10A cells is observed compared to HER2(+) SKBR-3 cells. Formulations cause apoptosis depending on Bax and Caspase-3 and cell cycle arrest in G2 phase. This study shows a novel system for HER2-targeted therapy of breast cancer with a multifunctional nanocarrier, which has higher stability, dual pH-sensitivity, selectivity, and it can be an efficient way of targeted anticancer drug delivery.Article Citation - WoS: 8Citation - Scopus: 10Use of Magic Sandwich Echo and Fast Field Cycling Nmr Relaxometry on Honey Adulteration With Corn Syrup(John Wiley and Sons Inc., 2021) Berk, Berkay; Çavdaroğlu, Çağrı; Grunin, Leonid; Ardelean, Ioan; Kruk, Danuta; Mazı, Bekir G.; Öztop, Halil Mecitconventional time domain nuclear magnetic resonance (TD-NMR) pulse sequence: magic sandwich echo (MSE) was used to detect the adulteration of honey by glucose syrup (GS) and high fructose corn syrup (HFCS) accompanied with T-1 and T-2 relaxation times. Also, fast field cycling NMR (FFC-NMR) relaxometry and multivariate analysis were performed to investigate the adulteration. RESULTS Higher maltose in GS and changing glucose to water ratio of HFCS gave high correlation with the crystal content values. In HFCS adulteration, two separate populations of protons having different T-2 values were detected and T-1 times were also used to determine GS adulteration. Addition of GS increased T-1 while addition of HFCS increased T-2, significantly. CONCLUSION The results showed that it is possible to differentiate the unadulterated and adulterated honey samples by using TD-NMR relaxation times and crystal content values obtained by the MSE sequence. By FFC-NMR relaxometry, not only GS addition but also the amount of GS was examined. The multivariate analysis technique of principal component analysis was able to distinguish the types of adulterants.Article Citation - WoS: 12Citation - Scopus: 15Probabilistic Investigation of Error Propagation in Frequency Domain Decomposition-Based Operational Modal Analysis(John Wiley and Sons Inc., 2021) Hızal, Çağlayan; Aktaş, EnginEach operational modal analysis (OMA) technique may produce significant errors during the identification procedure due to the applied methodology, environmental/operational conditions, and instrumentation. Consequently, those errors can adversely affect the quality of identified parameters. In this context, this study aims at providing a comprehensive discussion on the propagation of predictions errors in the frequency domain OMA. To mitigate the prediction errors those considered to be induced by modeling and measurement errors, an extended formulation is presented based on a recently developed Modified Frequency and Spatial Domain Decomposition technique. A comprehensive investigation is presented for the probabilistic modeling of output power spectral density (PSD), considering prediction errors. Numerical and real data applications are conducted to show the effectiveness of the proposed methodology.Article Citation - WoS: 13Citation - Scopus: 13Authentication of Turkish Olive Oils by Using Detailed Pigment Profile and Spectroscopic Techniques(John Wiley and Sons Inc., 2020) Uncu, Oğuz; Uncu, Oğuz; Özen, Banu; Özen, Fatma Banu; Tokatlı, Figen; Tokatlı, FigenBACKGROUND Minor compounds of olive oil could have discriminatory characteristics in the authentication of this product. It was aimed to determine the detailed pigment profiles of Turkish olive oils and use them in differentiation of the samples in comparison to fast, reliable, and environmentally friendly Fourier-transform infrared (FTIR) and ultraviolet (UV)-visible spectroscopic techniques. Pigment contents of 91 olive oils obtained from different locations for two consecutive harvesting years were determined with chromatographic analysis and FTIR and UV-visible spectra of these samples were also obtained. All data were analyzed with orthogonal partial least-squares discriminant analysis to investigate the differentiation ability of these methods with regard to their detailed pigment and spectroscopic profiles. RESULTS Pheophytin a (2.78-8.98 mg kg(-1)) and lutein (1.19-4.07 mg kg(-1)) were the major pigments in all samples. Pigment profiles provided successful classification of olive oils with respect to their designated origins and harvesting year with average correct classification rates of 97%. UV-visible spectroscopy has quite similar results with pigment profiles in terms of its discriminatory power. In addition, FTIR and fused data were slightly better in discrimination of the samples, and the fused dataset has the highest correct classification rate of 100%. CONCLUSION Use of detailed pigment profiles is quite promising in authentication of olive oils. However, UV-visible and FTIR spectroscopic techniques could be reliable alternatives for the same purposes. All of the techniques studied have great potential in 'protected designation of origin' certification studies. (c) 2020 Society of Chemical IndustryArticle Citation - WoS: 2Citation - Scopus: 3Nonvisual Aspects of Spatial Knowledge: Wayfinding Behavior of Blind Persons in Lisbon(John Wiley and Sons Inc., 2020) Kan-Kılıç, Didem; Doğan, Fehmi; Duarte, EmiliaBlind individuals' wayfinding performance in complex urban environments is a complex phenomenon. This study investigates the wayfinding strategies of congenitally blind individuals in an urban context. The aim of the study was to assess the extent to which the environmental auditory cues are of primary importance for their wayfinding strategies. The study was conducted in Lisbon, Portugal. Results suggest that auditory information was the most used environmental cue and that a feeling of enclosure is the most important environmental feature during wayfinding. These results corroborate previous findings suggesting that increased familiarity with the environment results in more efficient wayfinding strategies, and that lack of environmental auditory cues could be compensated by a robust cognitive map. The study highlights multidimensional sensory experiences of urban environments and nonvisual aspects of spatial perception.Article Citation - WoS: 6Citation - Scopus: 8Outer-Membrane Protease (ompt) Based E.coli Sensing With Anionic Polythiophene and Unlabeled Peptide Substrate(John Wiley and Sons Inc., 2020) Sinsinbar, Gaurav; Gudlur, Sushanth; Wood, Sarah E.; Ammanath, Gopal; Yıldız, Ümit Hakan; Alagappan, Palaniappan; Liedberg, BoE. coli and Salmonella are two of the most common bacterial pathogens involved in foodborne and waterborne related deaths. Hence, it is critical to develop rapid and sensitive detection strategies for near-outbreak applications. Reported is a simple and specific assay to detect as low as 1 CFU mL(-1)of E. coli in water within 6 hours by targeting the bacteria's surface protease activity. The assay relies on polythiophene acetic acid (PTAA) as an optical reporter and a short unlabeled peptide (LL37(FRRV)) previously optimized as a substrate for OmpT, an outer-membrane protease on E. coli. LL37(FRRV)interacts with PTAA to enhance its fluorescence while also inducing the formation of a helical PTAA-LL37(FRRV)construct, as confirmed by circular dichroism. However, in the presence of E. coli LL37(FRRV)is cleaved and can no longer affect the conformations and optical properties of PTAA. This ability to distinguish between an intact and cleaved peptide was investigated in detail using LL37(FRRV)sequence variants.Article Citation - WoS: 4Citation - Scopus: 5Social Capital and Regional Development in Turkey(John Wiley and Sons Inc., 2020) Arslan, Hüseyin Mert; Duran, Hasan EnginThis paper aims to improve the shortcomings of the empirical literature on regional social capital. The following three research questions are addressed: (i) do regional social capital and economic growth have an endoneous (circular) relationship as opposed to the exogenous one-way relationship assumed in the literature; (ii) What are the socio-economic and demographic determinants of cross-regional variation in social capital? And (iii) Are spatial spillovers relevant in the analysis of these questions? Empirically, we pursue the analysis for 81 Turkish provinces in 2015. Indeed, regional social capital in Turkey is far less studied than country-level social capital. The methodology adopted includes kernel density estimates, ordinary least squares, three stage least squares, and spatial error models. In terms of the obtained results, First, regional social capital is heterogenously distributed across regions. Second, social capital has no significant impact on economic growth but the growth induces the generation of social capital (in social norms). This represents a first result of reserve causality in the literature. Third, a typical province that has high social capital is the one with relatively high income, more even income distribution, low unemployment, big households and older age profile. Fourth, there is the evidence of spatial dependence that should be incorporated in empirical analyses.