Master Degree / Yüksek Lisans Tezleri

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Author: search.filters.author.Bulmuş Zareie, Esma VolgaPublisher: search.filters.publisher.01. Izmir Institute of Technology

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Now showing 1 - 4 of 4
  • Master Thesis
    Effect of Gold Nanorod Properties on Lspr Response
    (01. Izmir Institute of Technology, 2023) Bulmuş Zareie, Volga; Tekin, Hüseyin Cumhur; Bulmuş Zareie, Esma Volga; Tekin, Hüseyin Cumhur; 03.01. Department of Bioengineering; 03. Faculty of Engineering; 01. Izmir Institute of Technology
    Optical qualities make gold nanorods (GNRs) excellent for plasmonic biosensors. Localized surface plasmon resonance (LSPR) phenomenon which occurs on GNR surfaces enables the creation of highly sensitive biosensors. The physical properties such as aspect ratio and size are directly related to the LSPR response of GNRs. The aim of this study is to investigate the impact of the aspect ratio (AR) and the interparticle distance on the localized surface plasmon resonance (LSPR) response of GNRs decorated glass sensor chips. For this aim, GNRs were first synthesized using a seed-mediated growth method. The effect of AgNO3 concentration on the AR of GNRs was investigated. It was observed that increasing AgNO3 concentration resulted in GNRs with higher AR and a red shift in the longitudinal plasmon peak wavelength. GNRs with an AR of 4, 6 and 8 were successfully synthesized. Next, the effect of the stabilizer molecule type and molecular weight on the distribution of GNRs on the silanized glass surface was investigated. It was found that the APTES modified glass surfaces cannot be coated with CTAB stabilized GNRs. Using GNRs stabilized with PEG5K resulted in a more homogeneous distribution of GNRs on the glass surface with respect to GNRs stabilized with PEG2K. The interparticle distance between GNRs on the glass surface was successfully controlled by simply concentrating or diluting the GNR solution used for coating the glass surfaces. It was observed that the LSPR peak shifts decreased upon binding of analytes as the interparticle distance between GNRs decreased in the studied range. On the other hand, as the AR decreased, the LSPR response of the GNRs shifted blue. The results presented in this thesis may contribute to future research to improve the potential of LSPR-based biosensors for diverse biomedical and diagnostic applications.
  • Master Thesis
    Development of Polymeric Carriers for Mrna Delivery
    (01. Izmir Institute of Technology, 2023) Bulmuş Zareie, Volga; Bulmuş Zareie, Esma Volga; 03.01. Department of Bioengineering; 03. Faculty of Engineering; 01. Izmir Institute of Technology
    Development of efficient delivery systems is a constraint on the delivery of messenger RNA (mRNA). In gene therapy, it is crucial that mRNA molecules are efficiently delivered into cells. The thesis study has focused on the development of a relatively new polymer, P(OEGMA)-b-P(AEAEMA) as a new mRNA delivery system. P(OEGMA)-b-P(AEAEMA) block copolymers with changing block lengths (P(OEGMA)42-b-P(AEAEMA)48 and P(OEGMA)42-b-P(AEAEMA)71) were first synthesized via RAFT polymerization. The synthesized block copolymers efficiently complexed with eGFP encoded mRNA as shown by gel electrophoresis. The hydrodynamic size of polyplexes was less than 150 nm, as determined by dynamic light scattering measurements. Zeta potential measurements showed that the surface charge of the polymer-mRNA complexes was slightly negative. The eGFP-encoding mRNA transfection ability of the copolymers was investigated via fluorescence microscopy and Image J analyses. The block copolymers showed mRNA transfection efficiency on human embryonic kidney (HEK293T) and mouse fibroblast (L929) cell lines higher than the golden standard polymer, branched PEI. P(OEGMA)42-b-P(AEAEMA)48 and P(OEGMA)42-b-P(AEAEMA)71 showed a transfection efficiency of 54 and 64% of the positive control (cells transfected with Lipofectamine-mRNA complexes), respectively, on human embryonic kidney (HEK293T) cell line. On mouse fibroblast (L929) cell line, P(OEGMA)42-b-P(AEAEMA)48 and P(OEGMA)42-b-P(AEAEMA)71 block copolymers showed a transfection efficiency of 61 and 56% of the positive control, respectively. The polymer complexes showed tolerable (>70%) or no cytotoxicity on the cells in the tested range. In summary, P(OEGMA)-b-P(AEAEMA) block copolymers have shown promising mRNA transfection ability on both HEK293T and L929 cell lines.
  • Master Thesis
    Development of an Advanced Lspr-Based Biosensor Chip for Rapid Detection of Border Disease Virus
    (01. Izmir Institute of Technology, 2023) Bulmuş Zareie, Volga; Tekin, Hüseyin Cumhur; Bulmuş Zareie, Esma Volga; Tekin, Hüseyin Cumhur; 03.01. Department of Bioengineering; 03. Faculty of Engineering; 01. Izmir Institute of Technology
    The Border Disease Virus (BDV) is responsible for causing fetal deathly infection, leading to annual occurrences of affected farms. BDV, along with other pestiviruses such as classical swine fever virus (CSFV) and bovine viral diarrhea virus (BVDV), are known to cause major losses in stock farming. These losses can result in reproductive failure, expensive inspections, and other impacts on livestock health. The current detection methods of BDV include various techniques such as RT-PCR, ELISA, VNT, and immunofluorescence assays. These methods, although reliable, may require specialized equipment, time-consuming procedures, and laboratory facilities, making them less suitable for rapid on-site detection. Hence, it is imperative to employ diverse methodologies for detection of BDV. LSPR-based biosensors are a subset of plasmonic biosensors that exhibit numerous advantages for diverse applications. LSPR-based biosensors are particularly well-suited for the production of compact, practical devices for rapid, on-site detection of analytes. The aim of this study is to design and fabricate a biosensor chip utilizing LSPR technology for potential BDV detection. For this aim, glass surfaces were functionalized with gold nanorods modified with a BDV-specific primer sequence, complementary single-strand DNA sequence of 19 bases, and fabricated with PMMA microchannels. Different concentrations of target BDV-DNAsequence ranging from 0.01 pM to 100 nM were exposed to the channels, and the LSPR response was quantified using a Vis-NIR spectrometer. The limit of quantification of the biosensor chips was determined to be 10 pM, while the limit of detection was found to be less than or equal to 1 pM. The sensitivity of the biosensor chips was calculated to be 0.0567 nm/RIU. The dynamic range of the biochips lies between 10 pM to 100 pM.
  • Master Thesis
    Enhancement of Bioavailability of Vitamin D by Nano-Sized Delivery Systems
    (01. Izmir Institute of Technology, 2023) Bulmuş Zareie, Volga; Kılıç Özdemir, Sevgi; Kılıç Özdemir, Sevgi; Bulmuş Zareie, Esma Volga; 03.01. Department of Bioengineering; 03.02. Department of Chemical Engineering; 03. Faculty of Engineering; 01. Izmir Institute of Technology
    Studies have indicated that Vitamin D (VitD) may decrease tumor invasiveness and propensity to metastasize. Cholecalciferol (VitD3) is the passive form of VitD3 and converts to active calcitriol through two-step hydroxylation reactions in the body, promoting binding to VitD-receptors (VDR). However, some breast cancer cells, especially MDA-MB-231, have very low levels of VDR. Besides, VitD3 suffers from first pass-effect of the liver which causes deactivation of VitD3. Therefore, new approaches are needed to increase VitD3 level in the cancerous sites. In this study, VitD3 was loaded into liposomes, which were subsequently coated by Fucoidan (FUC) to promote their binding to MDA-MB-231 cancer cells. Fucoidan strongly binds to P-selectins overexpressed in the breast cancer cells, blocking the cancer cells to adhere on the platelets to carry within the body, causing metastasis. Doxorubicin (DOX), being considered as the one of the most effective chemotherapeutic agents against breast cancer, was also loaded into liposomes in a similar manner. By liposomal encapsulations and fucoidan coating, it was aimed to deliver the all-cargo directly to the cancerous site and enhance the bioavailability of both agents at the target site. It was seen that liposomal VitD3 was more effective than free form to inhibit cell proliferation and, therapeutic potential of DOX increased with VitD3.VitD3 loaded FUC coated liposomes at optimized concentrations has a comparable effect with DOX-loaded liposomes with and without FUC coating. Overall, these results suggested that VitD3 and DOX loaded and FUC coated liposomes can be applied as combined therapy in cancer treatment.