PubMed İndeksli Yayınlar Koleksiyonu
Permanent URI for this collectionhttps://hdl.handle.net/20.500.12573/397
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Article Bi-Allelic Variants in OLA1 Cause a Neurodevelopmental Disorder with Joint Hypermobility(Cell Press, 2026-04) Cevik, Sebiha; Alzahrani, Fatema; Sezer, Abdullah; AlAbdi, Lama; Demir, Zanyar; Abdullah, Nor Linda; Alkuraya, Fowzan S.Cytoskeletal organization, cell adhesion, and cell motility are key to neuronal development and functional synapses. Obg-like ATPase 1 (OLA1) regulates cell-matrix adhesion by modulating focal adhesion kinase (FAK) levels, therefore regulating cytoskeletal dynamics and cell motility. To date, however, no Mendelian phenotypes in humans have been linked to OLA1. We identified fourteen individuals from nine families in whom hypermobility-neurodevelopmental disorder with distinct facies is linked to bi-allelic deleterious variants in OLA1. The hypermobility phenotype evoked a diagnosis of Ehlers-Danlos syndrome (EDS) in some affected individuals. The loss-of-function nature of these variants is confirmed in proband-derived fibroblasts, recapitulating the impaired migration and proliferation phenotype previously described in OLA1-deficient cells. To explore the pathogenesis of abnormal neurodevelopment in our probands, we investigated neurons derived from proband fibroblasts and identified impaired adhesion and cytoskeletal control. Modeling ola-1 deficiency in C. elegans revealed reduced neurite numbers compared to the wild type. Additionally, transcriptomic analysis of the ola-1-deficient worms suggested that dysregulation of key signaling pathways results in suppression of microtubule dynamics and axon regrowth, ultimately crippling the regenerative competence of mutant animals compared to wild-type controls. Our results support an autosomal-recessive OLA1-related hypermobility-neurodevelopmental disorder and suggest that dysregulation of key signaling pathways results in the suppression of microtubule dynamics as a potential underlying mechanism.Article GraphUnet-SS: A Novel Deep Learning Model for Protein Secondary Structure Prediction Based on U-Net Architecture(Elsevier Ltd, 2026-04) Aydin, Zafer; Görmez, Yasin; Sabzekar, MostafaArticle Does Your Love Lift Me Higher? A Direct Replication of the Energising Role of Secure Relationships(John Wiley & Sons Ltd, 2025-12-07) Lagap, Adar Cem; Harma, MehmetPrevious work has revealed that priming people with significant others increases feelings of security and energy, and in turn, boosts exploration motivations. In this preregistered study, we directly replicated Luke et al.'s (2012) Study 2 (N = 281). We found similar results as the replicated study regarding increased security feelings and exploration motivations on the self-report measures after the priming. However, we did not find any support for the increased energy feelings after the attachment security priming. In addition, contrary to Luke et al.'s (2012) results, energy feelings did not mediate the relationship between security priming and exploration motivations. A discussion of null findings, along with the limitations of self-reports and potential misinterpretation of the mediational analyses, follows. We also discuss possible future implications of the current findings.Article Citation - WoS: 1Citation - Scopus: 1Development and Characterization of Starch-Fatty Acid Complexes Produced with Buckwheat Starch and Capric/Stearic Acid Using Different Reaction Conditions(Elsevier, 2025-12) Oskaybas-Emlek, Betul; Ozbey, Ayse; Aydemir, Levent Yurdaer; Kahraman, KevserThe aim of present study was to investigate the impact of reaction parameters on the complex formation between buckwheat starch and capric acid (B-Capric) or stearic acid (B-Stearic). The most effective parameters on complex formation indicator (Complex index (CI) value) were found as reaction temperature (60-90 degrees C) and pH (5-8). Additionally, the effect of these parameters on physicochemical, pasting, and in-vitro digestibility properties of complex samples were evaluated. XRD and FTIR was also used in characterize the complex samples. In general, increasing pH increased the CI values of B-Stearic samples while decreasing those of B-Capric samples. Syneresis of buckwheat starch increased after complexation while paste clarity and swelling power diminished. The pasting properties of native starch significantly changed after complex formation. The FTIR results showed that starch structure changed with complex formation. XRD revealed that buckwheat starch, having an A-type pattern, converted to V-type pattern after complexation. Complex formation of buckwheat starch with capric and stearic acid significantly increased the RS content of buckwheat starch (19.01 %) by up to 36.25 % and 30.60 %, respectively. These results highlight the possibility of using buckwheat starch-capric acid/stearic acid complexes in food formulation to enhance the RS content.Article Citation - WoS: 4Citation - Scopus: 4Pangenome Analysis and Genome-Guided Probiotic Evaluation of Cyclic Dipeptides Producing Levilactobacillus Brevis DY55bre Strain From a Lactic Acid Fermented Shalgam to Assess Its Metabolic, Probiotic Potentials, and Cytotoxic Effects on Colorectal Cancer Cells(Springer, 2025-10-01) Yetiman, Ahmet E.; Horzum, Mehmet; Kanbur, Ertan; Cadir, Mehmet; Bahar, Dilek; Gurbuz, Serife; Akbulut, MikailThis study investigates the genetic, metabolic, and probiotic characteristics of Levilactobacillus brevis DY55bre, a strain isolated from the traditional Turkish fermented beverage, shalgam. Whole-genome sequencing revealed a circular genome of 2.485 Mb with a GC content of 45.72%, predicted 2791 genes, and multiple CRISPR-Cas systems. Pangenome analysis demonstrated an open structure, with 18.9% core genes and 103 strain-specific genes, highlighting its genetic diversity. The DY55bre exhibits heterofermentative carbohydrate metabolism due to the presence of the araBAD operon and the lack of 1-phosphofructokinase (pfK) and fructose-1,6-bisphosphate aldolase enzymes. Probiotic evaluation revealed firm survival under simulated gastrointestinal conditions, including resistance to acidic pH (as low as 3.0) and bile salts (up to 1%), along with significant adhesion to intestinal epithelial cell lines (HT29;59.3%, Caco-2;87%, and DLD-1;60.8%). The strain exhibited high auto-aggregation (84.55%) and cell surface hydrophobicity (56.69%), essential for gut colonization. Safety assessments confirmed its non-hemolytic nature and absence of horizontally acquired antibiotic resistance genes. Notably, GC-MS analysis identified bioactive cyclic dipeptides, Cyclo(D-Phe-L-Pro) and Cyclo(L-Leu-L-Pro), which demonstrated cytotoxic effects against colorectal cancer cell lines, with IC50 values of 7.71 mg/mL for HT29 and 3.19 mg/mL for DLD-1. The cell-free supernatant exhibited antimicrobial activity against pathogens, likely due to the synergistic effects of cyclic dipeptides, organic acids, and other metabolites. Antioxidant assays revealed significant ABTS+ (76.63%) and DPPH (34.25%) radical scavenging activities, while cholesterol assimilation tests showed a 27.29% reduction. These findings position the DY55bre as a promising candidate for functional foods, nutraceuticals, and therapeutic applications, warranting further in vivo validation.Article Citation - WoS: 16Citation - Scopus: 17Unravelling the Moderating Roles of Environmental Regulations on the Impact of Foreign Direct Investment on Environmental Sustainability(Academic Press Ltd- Elsevier Science Ltd, 2025-02) Ehigiamusoe, Kizito Uyi; Chen, Danqing; Dogan, Eyup; Binsaeed, Rima H.In the era of economic globalization, China attracts significant foreign direct investment (FDI) to accelerate economic prosperity. FDI inflows could have ramifications on environmental degradation (ED) despite the enactment of different environmental regulations (ERs) such as market-incentive, command-and-control as well as informal regulations. Though some studies have shown that FDI and ED have significant relationship, the moderating roles of different ERs on the environmental impact of FDI has not been empirically unraveled. This study fills this research gap by analyzing the direct impact of FDI on ED (i.e., carbon dioxide emissions, ecological footprint) using the provincial panel data. Second, it unravels the moderating roles of different ERs on the environmental impact of FDI in the provinces and regions. The results indicate that FDI directly mitigates ED, verifying the pollution halo hypothesis while ERs directly alleviate ED in China. However, the interaction between FDI and ERs do not alleviate ED in China albeit regional heterogeneity exist. The economic implication is that FDI is not a channel through which ERs enhance environmental sustainability in China. This study recommends some policy options arising from the findings.Article Citation - WoS: 23Citation - Scopus: 28Ultra-Rapid Catalytic Degradation of 4-Nitrophenol With Ionic Liquid Recoverable and Reusable Ibuprofen Derived Silver Nanoparticles(Elsevier Sci Ltd, 2018-06) Hassan, Syeda Sara; Carlson, Krista; Mohanty, Swomitra Kumar; Sirajuddin; Canlier, AliThis study reports a one-pot and eco-friendly method for the synthesis of spherical ibuprofen derived silver nanoparticles (IBU-AgNPs) in aqueous media using ibuprofen analgesics drug as capping as well as reducing agent. Formation of AgNPs occurred within a few min (less than 5 min) at room temperature without resorting to any harsh conditions and hazardous organic solvents. Synthesized AgNPs were characterized with common analytical techniques. Transmission electron microscope (TEM) images confirmed the formation of spherical particles having a size distribution in the range of 12.5 +/- 1.5 nm. Employment of IBU analgesic aided the control of better size distribution and prevented agglomeration of particles. Such AgNPs solution was highly stable for more than two months when stored at ambient temperature. The IBU-AgNPs solution showed excellent ultra-rapid catalytic activity for the complete degradation of toxic 4-nitrophenol (4-NPh) into non-toxic 4-aminophenol (4-APh) within 40 s. AgNPs were recovered with the help of water insoluble-room temperature ionic liquid and reused with enhanced catalytic potential. This method provides a novel, rapid and economical alternative for the treatment of toxic organic pollutants to maintain water quality and environmental safety against water pollution. It is extendable for the control of other reducible contaminants in water as well. Furthermore, this catalytic activity for an effective degradation of organic toxins is expected to play a crucial role for achieving the Sustainable Development Goal 6 set by United Nations. (C) 2017 Elsevier Ltd. All rights reserved.Article Citation - WoS: 28Citation - Scopus: 29Three-Dimensional Au-Coated Electrosprayed Nanostructured BODIPY Films on Aluminum Foil as Surface-Enhanced Raman Scattering Platforms and Their Catalytic Applications(Amer Chemical Soc, 2017-05-16) Yilmaz, Mehmet; Erkartal, Mustafa; Ozdemir, Mehmet; Sen, Unal; Usta, Hakan; Demirel, GokhanThe design and development of three-dimensional (3D) nanostructures with high surface-enhanced Raman scattering (SERS) performances have attracted considerable attention in the fields of chemistry, biology, and materials science. Nevertheless, electrospraying of organic smalt molecules on low-cost flexible substrates has never been studied to realize large-scale SERS-active platforms. Here, we report the facile, efficient, and low-cost fabrication of-Stable and reproducible Au-coated electrosprayed organic semiconductor films (Au@BDY-4TEBDY) on flexible regular aluminum foil at a large scale (5 cm X 5 cm) for practical SERS and catalytic applications. To this end, a well-designed-acceptor-donor-atceptor-type solution-processable molecular semiconductor, BDY-4T-BDY, developed by our group, is used because of its advantageous structural and electrical properties. The morphology of the electrosprayed organic film changes by solution concentration, and two different 3D morphologies with out-of-plane features are obtained. Highly uniform dendritic nanoribbons with sharp needle-like tips and vertically oriented nanoplates (similar to 50 nm thickness) are achieved when electrospraying solution concentrations of 240 and 253% w/v.(mgimL) are, respectively, used. When these electrosprayed organic films are coated with a nanoscopic thin (30 nm) Au layer, the resulting Au@BDY-4T-BDY platforms demonstrate remarkable SERS enhancement factors up to 1.7 X 10(6) with excellent Raman signal reproducibility (relative standard deviation <= 0.13) for methylene blue over the entire film. Finally, Au@BDY-4T-BDY films showed good catalytic activity for the reduction of 4-nitrophenol to 4-aminophenol with rate constants of 1.3 X 10(-2) and 9.2 X 10(-3) min(-1). Our results suggest that electrospraying of rationally designed organic semiconductor molecules on flexible substrates holds great promise to enable low-cost, solution-processed, SERS-active platforms.Article Citation - WoS: 361Citation - Scopus: 396The Use of Ecological Footprint in Estimating the Environmental Kuznets Curve Hypothesis for BRICST by Considering Cross-Section Dependence and Heterogeneity(Elsevier, 2020-06) Dogan, Eyup; Ulucak, Recep; Kocak, Emrah; Isik, CemA vast body of literature estimates the impact of economic growth on environmental degradation in the framework of EKC model. Typical empirical studies proxy environmental degradation with CO2 emissions; however, this indicator does not consider the complex nature of environmental degradation. To fulfill this omission, ecological footprint that tracks the use of multiple categories of productive surface areas is used as proxy for the environment. Moreover, studies that do not consider issues of heterogeneity and cross-sectional dependence may not produce reliable outcomes. Hence, the present study re-investigates the validity of the EKC hypothesis for BRICST (Brazil, Russia, India, China, South Africa, Turkey) by using ecological footprint and considering the mentioned issues in the estimation process. Based on the annual data covering the period of 1980-2014, excluding Russia due to data unavailability, empirical results show that the EKC hypothesis is not valid, and energy intensity and energy structure are important determinants of environmental degradation. In line with the empirical outputs, possible policy suggestions are discussed in the present study. (C) 2020 Elsevier B.V. All rights reserved.Article Citation - WoS: 175Citation - Scopus: 198The Significance of Renewable Energy Use for Economic Output and Environmental Protection: Evidence From the Next 11 Developing Economies(Springer Heidelberg, 2017-04-08) Paramati, Sudharshan Reddy; Sinha, Avik; Dogan, EyupIncreasing economic activities in developing economies raise demand for energy mainly sourced from conventional sources. The consumption of more conventional energy will have a significant negative impact on the environment. Therefore, attention of policy makers has recently shifted towards the promotion of renewable energy generation and uses across economic activities to ensure low carbon economy. Given the recent scenario, in this paper, we aim to examine the role of renewable energy consumption on the economic output and CO2 emissions of the next fastest developing economies of the world. The study employs several robust panel econometric models by using annual data from 1990 to 2012. Empirical findings confirm the significant long-run association among the variables. Similarly, results show that renewable energy consumption positively contributes to economic output and has an adverse effect on CO2 emissions. Given our findings, we suggest policy makers of those economies to initiate further effective policies to promote more renewable energy generation and uses across economic activities to ensure sustainable economic development.