Recep Tayyip Erdoğan Üniversitesi Kurumsal Akademik Arşivi
DSpace@RTEÜ, Recep Tayyip Erdoğan Üniversitesi tarafından doğrudan ve dolaylı olarak yayınlanan; kitap, makale, tez, bildiri, rapor, araştırma verisi gibi tüm akademik kaynakları uluslararası standartlarda dijital ortamda depolar, Üniversitenin akademik performansını izlemeye aracılık eder, kaynakları uzun süreli saklar ve yayınların etkisini artırmak için telif haklarına uygun olarak Açık Erişime sunar.
Güncel Gönderiler
Whole genome analysis of Diplodia bulgarica associated with apple canker disease provides new insights into its virulence and host-pathogen interactions
(Academic Press, 2026) Nabi, Sajad Un; Kamil, Deeba; Parray, Rouf; Watpade, Santosh; Verma, M. K.; Mansoor, Sheikh; Banday, Saba
Diplodia bulgarica, an ascomycetous fungus, causing apple canker disease belongs to family Botryosphaeriaceae. The genomic basis and pathogenicity mechanisms of D. bulgarica are still in the research domain. Here we are presenting the D. bulgarica isolate Sun2024a draft genome sequence completed through hybrid assembly. The genome of Diplodia bulgarica Sun2024a was estimated to be approximately 40.92 Mb with 23 contigs and 11,827 protein coding genes, with an overall GC content of 54.88%. Total of 1072 proteins were identified with signal peptides, along with 237 predicted effectors. The number of exons and introns identified was 35562 and 23717 respectively. Accordingly, 11,827 protein-coding genes were grouped into three categories based on gene ontology, BP (3764 genes), CC (3625 genes), and MF (3243 genes). Carbohydrate-active enzymes (CAZymes) were predictable to play an important role in the degradation of plant cell walls. The DFVF database identified the homologs of 1547 pathogenicity-associated genes, while the PHI database predicted 3990 homologs. To cover evolutionary details, 7918 SSRs were identified throughout the genome. This complete genome sequence analysis of Diplodia bulgarica Sun2024a causing apple canker augments our understanding of its pathogenesis and virulence. This study provides a framework for further investigation into D. bulgarica Sun2024a pathogenic mechanisms and the creation of improved methods for effective control of apple canker disease.
A national multicenter study on initial antiviral treatment preferences on chronic hepatitis b: entecavir versus tenofovir disoproxil fumarate
(AVES, 2026) Yamazhan, Tansu; Zerdali, Esra; Onlen, Yusuf; Tosun, Selma; Günal, Özgür; Yıldız, İlknur Esen; Güner, Rahmet
Background/Aims: Selecting the initial antiviral regimen for chronic hepatitis B (CHB) requires balancing patients' comorbidities and long-term safety. This study examines the differences in patient and disease-related factors that guide clinicians to prescribe either entecavir (ETV) or tenofovir disoproxil fumarate (TDF) as the initial treatment. Materials and Methods: The study included treatment-na & iuml;ve CHB patients aged 18 or older who had been diagnosed for at least 1 year since 2010 and initiated on antiviral therapy. The data included variables such as age, gender, body mass index (BM!), comorbidities, liver disease activity, biopsy results, cirrhosis, hepatic steatosis, hepatitis B e-antigen status, hepatitis B virus DNA levels, triglycerides, cholesterol, renal function, and baseline bone mineral density (BMD), which were assessed by dual-energyx-ray absorptiometry (DEXA). Results: Among 2259 patients (61.6% male), 1270 patients (56.22%) received TDF, while 989 patients (43.78%) received ETV as first-line therapy. The TDF was more commonly prescribed to patients with a lower BM! (median 25.7 vs. 26.2, P = .001) and lower baseline creatinine (0.75 vs. 0.80 for ETV, P < .001). Clinicians preferred ETV among patients with an estimated glomerular filtration rate (eGFR) < 60 (n = 36), (P < .001). The BMD was evaluated in 365 patients (16.3%). The DEXA scans were performed for 116 patients (11.8%) in the ETV group and 249 patients (19.8%) in the TDF group (P < .001). Conclusions: This national multicenter study emphasizes that patient-related factors, including gender, age, baseline renal function, and liver disease severity, significantly influence the choice of first-line antiviral therapy for CHB, often outweighing disease-specific factors.
Electrical-control of third-order nonlinearity via Fano interference
(IOP Publishing, 2026) Eren Mol, Deniz; Asrin Uzguc, Ibrahim; Eyüpoğlu, Ulaş; Atar, Kübra; Taşkıran, Sena; Ovalı, Rasim Volga; Taşgın, Mehmet Emre
Programmable photonic computers necessitate the integration of electrically-tunable compact components into the photonic devices. In the state-of-the-art photonic quantum computers (PQCs), phase-shift and displacement gates can be implemented in an electrically-programmable way. An efficient PQC, however, necessitates also the tuning of third or higher order nonlinearity for implementing continuous-variable gates at a shorter sequence. Here, we demonstrate that such an optical component can be designed using Fano interference and Stark effect in a nonlinear nano-plasmonic system. We study the coupling of a broadband bright plasmon mode to a narrow linewidth quantum object(s), QO(s). We show that by shifting the level-spacing of the QO via Stark effect, one can continuously tune the third-order nonlinearity gate within a picosecond response time. We also present finite-difference time domain simulations that take the retardation effects into account. In addition, we also show that enhancement due to Fano interference degrades if the QOs are positioned randomly as each QO introduces different phases. This reveals the importance of the spatial extent of the QO-ensemble to be employed in the experiments.
Mesoscale damping and stiffening in silicon microbeams: A heat-map study using a memory-dependent Green-Naghdi model
(Pergamon-Elsevier, 2026) Sur, Abhik; Lotfy, Khaled; Yaylacı, Murat; Das, Soumik
By investigating the vibration characteristics of a generalized thermoelastic silicon microbeam in the context of crossover thermoelasticity, this study opens up novel opportunities that assumes the temporally crossover of thermal conduction with acceleration, in the sense that the thermal conductivity starts low and becomes relatively high eventually. A novel spatiotemporal nonlocal elasticity theory is proposed by taking into account one dynamical scalar nonlocal kernel. In line with the theory, an isotropic nonlocal elasticity model of the Klein-Gordon type is formulated, incorporating both a characteristic internal length scale and an essential internal time scale parameter. The Euler-Bernoulli assumption is proposed subject to the influence of the prescribed temperature on the upper surface of the beam. Heat transport process for the present problem is deigned in the context of modified Green-Naghdi models. Finite Fourier sine transform and the Laplace transform mechanism have been adopted to determine the solution of the governing equations. However, the Laplace transform is then numerically inverted using a method based on the method of Zakian. For numerous modified Green-Naghdi models, thermoelastic vibrations for thermal moment and lateral deflection have been estimated and the superiority of the modified models over the conventional Green-Naghdi model is analyzed. The amplification due to the spatiotemporal nonlocal parameters and the relaxation parameter is also reported. The significance of memory response and various kernel function is analyzed too. In conclusion, it is also investigated that Silicon beam exhibits a dependence on size and nonlocal behavior in heat conduction at the nano-/microscale, where the main carriers of heat travels anomalously instead of through the usual diffusive process within the medium.
New 2,3-dihydrothiazole derivatives against Helicobacter pylori: Synthesis, biological evaluation and molecular docking studies
(Elsevier, 2026) Tok, Fatih; Keskin, Zeynep; Baltaş, Nimet; Rayaman, Erkan; Atıcı, Ceyda Ekentok; Turgut-Solak, Zeynep Dilan; Tatar-Yilmaz, Gizem
New, selective and effective molecules are needed to prevent Helicobacter pylori infections that cause gastroduodonal disorders. For this purpose, some new 2-hydrazono-2,3-dihydrothiazole derivatives were synthesized and their structures were confirmed by IR, NMR (H-1, C-13, APT, 2D-NMR) and elemental analysis. The antioxidant activities of the compounds were tested and compound 4f was found to be the most potent compound in three different antioxidant tests (CUPRAC, FRAP and DPPH assays). The inhibitory activities of the compounds against H. pylori and urease enzyme were evaluated. In vitro antibacterial activity tests against H. pylori showed that compounds 4b, 4e, 4h and 4n were the most potent compounds with MIC values of 60.0 mu g/mL. Compounds 4k and 4n exhibited higher anti-urease activity than the reference standard thiourea (IC50 = 15.14 mu M) with IC50 values of 0.95 mu M and 3.43 mu M, respectively. The cytotoxicity of the compounds 4h, 4k and 4n on L929 healthy cells was also investigated. Furthermore, molecular docking and MD simulation studies of the most potent compounds 4h, 4k and 4n with urease enzyme were performed. Thus, unlike current urease inhibitors, new compounds have been obtained that possess anti-urease as well as anti-H. pylori activity and low cytotoxicity.
