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  • Küçük Resim
    Öğe
    Çermik - Termal Kaplıcalarında izole edilen bacillus subtilis’in plazmidleri ile kalıtılan karakterlerinin incelenmesi
    (2018) İnce, Ebru; Ensari, N. Yavuz
    Bu çalışmada, Diyarbakır-Çermik termal kaplıcalarından izole edilmiş olan Bacillus subtilis'm plazmidleri ve bu plazmidler ile karıtılan özellikleri incelendi. Saflaştınlan plazmidlerin molekül ağırlığı ve molekül uzunluğu tespit edildi. Bu plazmidler, metabolik enzim üretimi, bakteriyosin üretimi ve antibiyotiklere dirençlilik gibi plazmidler özgü bazı karakterler açısından incelendi. B.subtilis'm endüstriyel açıdan önemli ekstraselüler bir enzimi olan a-amilazm optimal sekresyon koşullan belirlendi. B.subtilis hücrelerinden saflaştınlan plazmidler üzerinde a-amilaz ile ilgili bir gen bulunup bulunmadığı biyokimyasal olarak incelendi. Çalışmalar sonucunda B.subtilis'm 20.6 kb uzunluğunda ve 13x1 06 dalton ağırlığında bir plazmid içerdiği tespit edildi. Bu plazmidin bakteriyosin ürettiği ve antibiyogram çalışmaları sonucunda Penisilin G'ye dirençli olduğu saptandı. Ayrıca plazmidin üzerinde a-amilazla ilgili bir gen olabileceği düşünüldü.
  • Küçük Resim
    Öğe
    Genome-guided investigation of secondary metabolites produced by a potential new strain Streptomyces BA2 isolated from an endemic plant rhizosphere in Turkey
    (Springer, 2021) Kum, Ekrem; İnce, Ebru
    Terrestrial actinomycetes are the important sources of secondary metabolites that serve as a major source of drugs. Recent advances in genome mining have revealed that Streptomyces genomes have a wide range of undiscovered secondary metabolite biosynthetic gene clusters. In the present study, genome mining was employed to discover biosynthetic potential of plant-associated strain Streptomyces BA2. Based on 16S rRNA gene sequencing, this strain was found to be closely related to Streptomyces durmitorensis, Streptomyces alboniger, and Streptomyces kanamyceticus with similarity of 99.71%, 99.64%, and 99.56%, respectively. The genome of BA2 contained 10.043.478 base pairs with G + C content of 69.92%. The annotation results revealed the presence of 9.056 protein coding genes, 88 tRNA and 18 rRNA genes. The dDDH and ANI values of genome sequences between strain BA2 and closely related type strains were considerably lower than the recommended threshold values. A total of 33 secondary metabolite biosynthetic gene clusters responsible for the biosynthesis of known and/or novel secondary metabolites, including non-ribosomal peptides, polyketides, terpenes, siderophores, bacteriocins, ectoines, and lassopeptides were identified. Metabolic profiling of Streptomyces sp. BA2 grown in three different culture media was determined by a non-targeted LC-MS/MS approach coupled with spectral networking. Significant bioactive natural products such as actinomycin D, desferrioxamine E, malyngamide K, and bouillonamide B were detected. Malyngamide K and bouillonamide B, known as marine cyanobacterial-derived compounds, were first reported from a Streptomyces strain in this study. Our study demonstrated the potentially novel strain Streptomyces sp. BA2 as a valuable source of new bioactive secondary metabolites.
  • Küçük Resim
    Öğe
    Investigation of angucycline compounds as potential drug candidates against SARS Cov-2 main protease using docking and molecular dynamic approaches
    (Springer, 2021) Al-Bustany, Hazem Abbas; Ercan, Selami; İnce, Ebru; Pirinççioğlu, Necmettin
    The emerged Coronavirus disease (COVID-19) causes severe or even fatal respiratory tract infection, and to date there is no FDA-approved therapeutics or efective treatment available to efectively combat this viral infection. This urgent situation is an attractive research area in the feld of drug design and development. One of the most important targets of SARScoronavirus-2 (SARS Cov-2) is the main protease (3CLpro). Actinomycetes are important resources for drug discovery. The angucylines that are mainly produced by Streptomyces genus of actinomycetes exhibit a broad range of biological activities such as anticancer, antibacterial and antiviral. This study aims to investigate the binding afnity and molecular interactions of 157 available angucycline compounds with 3CLpro using docking and molecular dynamics simulations. MM-PBSA calculations showed that moromycin A has a better binding energy (−30.42 kcal mol−1) compared with other ligands (in a range of−18.66 to−22.89 kcal mol−1) including saquayamycin K4 (−21.27 kcal mol−1) except the co-crystallized ligand N3. However, in vitro and in vivo studies are essential to assess the efectiveness of angucycline compounds against coronavirus.