Master Degree / Yüksek Lisans Tezleri

Permanent URI for this collectionhttps://hdl.handle.net/11147/3008

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Department: search.filters.department.Thesis (Master)--İzmir Institute of Technology, ChemistrySubject: search.filters.subject.Proteomics

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Now showing 1 - 3 of 3
  • Master Thesis
    Mass Spectrometry-Based Proteome Analysis of Leishmania Major Parasite in Two Clinical Isolates Which Exhibit Different Impact on Virulence
    (Izmir Institute of Technology, 2018) Güvenç, Nazlı; Yalçın, Talat; Yalçın, Talat; 04.01. Department of Chemistry; 04. Faculty of Science; 01. Izmir Institute of Technology
    Leishmaniasis is a disease that covered under the title of neglected tropical diseases caused by protozoan parasites called Leishmania which can classify into three groups as visceral, cutaneous and mucocutaneous leishmaniasis. L. major is a type of parasite that causes cutaneous leishmaniasis and it is endemic in Iran, and Syria. However, cutaneous type leishmaniasis caused by L. major has been begun to detect in Turkey due to its close location to such countries. Moreover, the variety in the infectivity of L. major in a different region of Turkey has detected. Therefore, the uncertainty under the virulence effect of L. major is aimed to investigate. Large-scale protein analysis by mass spectrometry based proteomics has cleared up to proteome mapping for different organism recently. Generally, although two methodologies that involve gel-free and gel-based approaches have widely accepted for proteomic analysis, gel-free LC-MS/MS analysis were applied to characterize the proteome analysis of L. major parasite in two clinical case exhibiting passive and aggressive virulence effect on leishmaniasis. Finally, differential and common proteins that can affect the infectivity of L. major invastigated by shotgun analysis. As a result, samples showed that there are conflict results with the literature about GP63, secreted acid proteases, cysteine proteases and Peroxiredoxin proteins existence and also in the aggressive L. major cystathionine beta-synthase protein which has an role to synthesis of CPs and pyridoxal phosphate binding activity were proposed as a critical protein for L. major infectivity due to its association with SAPs, CPs.
  • Master Thesis
    Mass Spectrometry-Based Comparative Proteomic Analysis of Drug Resistant and Nonresistant Strains of Parasite Trichomonas Vaginalis
    (Izmir Institute of Technology, 2018) Özyağcı, Begüm; Yalçın, Talat; Yalçın, Talat; 04.01. Department of Chemistry; 04. Faculty of Science; 01. Izmir Institute of Technology
    Trichomonas vaginalis (T. vaginalis) causes sexually transmitted disease, trichomoniasis. Acute infections can result in cervical cancer, pelvic inflammatory disease, HIV-1 infection, preterm births, and low birth weight. Metronidazole, an antibiotic, is the standard treatment of the disease. However, in some cases T. vaginalis shows resistance to metronidazole thus treatment fails. Nevertheless, resistance mechanism of the parasite is not fully understood. Mass spectrometry has become an important tool in proteomic analysis with the emergence of soft ionization techniques instead of traditional protein identification and sequencing methods. In this study, a comparative gel-free proteomic analysis based on mass spectrometry with soft ionization technology was performed in two sets for resistant and non-resistant strains of T. vaginalis parasite isolated from clinical cases. Total proteins were digested by in solution digestion method and separated with high pH reversed-phase liquid chromatography. After fractions were concatenated, each fraction of sample was analyzed by reversed-phase liquid chromatography electrospray ionization tandem mass spectrometry (LC-ESI-MS/MS) and proteins were identified by database search. Common and differential proteins between resistant and two sensitive trichomoniasis samples were compared according to their molecular function. Results indicate that ferredoxin 5 and hydroxyl amine reductase are differential proteins with iron-sulfur cluster binding activity identified for only resistant strain. Thioredoxin reductase, alcohol dehydrogenase, superoxide dismutase, pyruvate:ferredoxin oxidoreductase are studied proteins in the literature and also identified as common proteins in all strains for this study. These proteins might have a role in drug resistance mechanism of T. vaginalis.
  • Master Thesis
    Changes in Protein Profiles in Bortezomib Applied Multiple Myeloma Cells
    (Izmir Institute of Technology, 2011) Turan, Taylan; Şanlı Mohamed, Gülşah; Şanlı Mohamed, Gülşah; 04.01. Department of Chemistry; 04. Faculty of Science; 01. Izmir Institute of Technology
    Multiple Myeloma is a malignant B-cell neoplasm that is characterized by the accumulation of malignant plasma cells in the bone marrow. Over the recent years, several novel agents have been introduced in the treatment of this disease. Bortezomib is the first of a new class of agents known as proteasome inhibitors. The main objective of the project was basically to both determine the cytotoxic and apoptotic effects of Bortezomib on Multiple Myeloma U-266 cells and compare and explore the differences between Bortezomib applied Multiple Myeloma cells and control group Multiple Myeloma cells, by proteomics studies. In order to achieve our aims in the project, variety of multidisciplinary subjects were come together. Cancer research techniques, biochemical studies at protein level and proteomics were combined in our studies. In this study, our experimental results demonstrated that Bortezomib has antiproliferative and apoptotic effects on MM U-266 cells. On the other hand, the responsible proteins for the effect mechanism of anti-cancer agent on cells were determined by MALDI-TOF-TOF Mass Spectrometry for the first time. According to the mass spectrometric analysis, 37 protein spots were differentially expressed. Among them, five proteins were newly formed, ten proteins lost, twelve proteins were up-regulated and ten proteins were down-regulated as compared to control group (untreated cells).These differential expressed proteins in response to Bortezomib have different important functions ranging from cell signaling transduction, cell cycle regulation, apoptosis to immunity and defense mechanism. In conclusion, it was identified which proteins have a central role behind the effect of Bortezomib on MM U-266 cells. The identified proteins may let to be possible to treat other cancer types by same anticancer agent. The data obtained by this study may also be helpful for medical schools and drug designers and may also provide new treatments.