Master Degree / Yüksek Lisans Tezleri

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

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Author: search.filters.author.Doğanlar, SamiSubject: search.filters.subject.Plant genomes

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Now showing 1 - 3 of 3
  • Master Thesis
    The Use of Crispr Cas9 Technology To Reduce Polyphenol Oxidase (PPO) Enzyme Activity in Eggplant
    (01. Izmir Institute of Technology, 2024) Doğanlar, Sami; Dalgıç, Fatma Hacımalak; Doğanlar, Sami
    Patlıcan (Solanum melongena), Solanaceae ailesinin önemli bir üyesidir ve ekonomik potansiyeli ve zengin besin değeriyle öne çıkmaktadır. Patlıcan, dünyada en fazla üretimi yapılan sebzelerden biridir. Ayrıca, patlıcanın benzersiz genetik yapısı ve zorlu çevre koşullarına uyum sağlayabilme potansiyeli, ürün dayanıklılığı, verim ve besin içeriğini yükseltmeyi amaçlayan çalışmalar için önemli bir hedef haline getirmektedir. Genom düzenleme teknolojilerindeki son gelişmeler, özellikle CRISPR/Cas9 teknolojisi, patlıcanda spesifik genlerin düzenlemesi için umut vadetmektedir. Patlıcanın hasat edildikten sonra işlenmesinde önemli bir sorun olan enzimatik kararma, fenolik bileşiklerin oksidasyon reaksiyonundan kaynaklanmaktadır. Polifenol oksidazlar, kısaca PPO'lar bu reaksiyonu katalize etmektedir. Patlıcanda enzimatik esmerleşme yalnızca görünümde olumsuz etkilere neden olmamakla birlikte, raf ömrünü ve tüketici talebini de negatif şekilde etkilemektedir. Çalışmada, bir Türk patlıcan çeşidi olan Aydın Siyahı çeşidinin enzimatik esmerleşme sorununa hızlı ve kalıcı bir çözüm sağlamak amacıyla CRISPR/Cas9 teknolojisi kullanılmıştır. PPO genlerinde mutasyonlar oluşturularak, ilgili genlerin ifadesinde azalma ve esmerleşmenin azalması hedeflenmektedir. Geleneksel yöntemlerle esmerleşme probleminin çözümü zaman alıcı olacaktır ve ayrıca tüketicilerin tercih ettiği özelliklerin kaybolmasına neden olabilir. Sonuç olarak, bu çalışma ile Türk tipi patlıcanda birden fazla PPO genini hedefleyebilen CRISPR/Cas9 protokolü başarıyla optimize edilmiş ve uygulanmıştır. Bir Türk patlıcan çeşidi olan Kemer tipi Aydın Siyahı için, maksimum üç rehber RNA içerecek şekilde hazırlanan vektörler ve doku kültürü rejenerasyon protokolleri bu çalışmanın önemli başarılarıdır.
  • Master Thesis
    Molecular Mapping of N Gene Conferring Resistance To Root-Knot Nematodes in Pepper
    (Izmir Institute of Technology, 2013) Arslan, Mehmet Enes; Doğanlar, Sami; Doğanlar, Sami
    Pepper (C. annuum) is one of the most important agricultural crops worldwide and Turkey ranks third among all countries in pepper production. Pepper species have economical and also pharmaceutical importance so, it is vital to develop different methods to increase pepper yields. The root-knot nematode (Meloidogyne species) is one of the most important biotic factors that affect pepper growth and development in Turkey. The dominantly inherited N gene which was mapped on chromosome P9, 7 cM from Me1 and 2 cM from Me3, confers resistance to pepper species against Meloidogyne species. The aim of this work was to develop a marker tightly linked to the N gene which can be used in marker-assisted selection. A total of 132 SSR Hpms primers, 230 EST-SSR markers and 45 chromosome 9 specific primers were used to a construct linkage map and find an N linked marker. Hpms SSR markers gave 19% polymorphism by capillary electrophoresis, EST-SSR markers showed 5.2% polymorphism by agarose gel electrophoresis while the chromosome 9 specific markers, yielded 20% polymorphism by fragment analyzer. When all 407 analyzed markers are considered, only 11.3% polymorphism was observed and these results were expected because we used an intraspecific population. The, polymorphic markers were mapped in a "Carolina Wonder" X "AZN-1" F2 population and analyzed with JoinMap software. Three markers were linked with the N gene. These markers are ScarPM6a (3.6 cM), ScarPM6b (10.2 cM) and ScarN (22.6 cM) which are located with same segregation group with the N gene. These markers will allow development of a marker tightly linked to the N gene which can be used in marker-assisted selection to increase the efficiency and effectiveness of pepper breeding for nematode resistance.
  • Master Thesis
    Development of Ssr Markers in Poppy (papaver Somniferum L.)
    (Izmir Institute of Technology, 2011) Çelik, İbrahim; Doğanlar, Sami
    The opium poppy (Papaver somniferum L.) belongs to the family Papaveraceae. Opium poppy is an important agronomic plant due to its production of more than 80 different alkaloids. In addition, poppy oil and seeds are used in food. The number of molecular markers for opium poppy is limited. To date, molecular characterization of opium poppy has been done using general marker systems such as AFLP, RAPD, ESTSSR and ISSR. However, development of other molecular markers systems is essential for more comprehensive analysis of the opium poppy genome. A genomic library was constructed from opium poppy DNA. Genomic DNA was sequenced by Roche 454 SequencingTM platform. Genomics reads were clustered by MIRA software. Di-, tri-, tetra-, penta- and hexanucleotide SSR repeats were identified and flanking primers were designed by Batchprimer3 software. A total of 1399 contigs containing 3284 SSRs were identified. A total of 1820 primer pairs which fulfilled the criteria for primer design were designed from flanking sequence of SSRs. A total of 100 SSR primers were tested in six Papaver somniferum accessions. No polymorphism was found among the Papaver somniferum accessions. Transferability of the markers was tested in seven Papaver species. SpSSR-6, spSSR-8 and spSSR-23 detected polymorphic alleles in these species. These markers are the first set of opium poppy-specific SSR markers derived from genomic sequence of this crop. These markers can be used for assessment of genetic diversity, mapping and marker assisted selection in opium poppy.