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Publication year : 2020 ✕Department : Biyoloji Bölümü ✕
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Characterization of a 2,2-dichloropropionic acid (2,2-dcp) degrading alkalotorelant bacillus megaterium strain bhs1 isolated from blue lake in Turkey

Yılmaz KAYA

An acid, 2,2-dichloropropionic acid (2,2-DCP) is an active ingredient in herbicide (Dalapon®). Using 2,2-DCP as a model substrate, an alkalotolerant bacterium was successfully isolated from the Blue Lake, Turkey. This bacterium is a potential bioremediation agent of recalcitrant xenobiotic halogenated compounds. This study aimed to prove the efficacy of the alkalotolerance Bacillus megaterium BHS1 in degrading 2,2-DCP as the sole source of carbon. Biolog GEN III system and 16S rRNA analysis were used for the identification of the bacterium. It was discovered that the strain BHS1 is Bacillus m ...More

Article 2020 Fen Fakültesi Journal of Tropical Life Science (JTLS)10 ( 3 ) 26 Views
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Lichens and lichenicolous fungi from Bitlis province in Turkey

Ali ASLAN

As a result of lichenological exploration in Bitlis province (Turkey), a total of 325 lichens and 21 lichenicolous fungi, which are belonging 113 genera in Ascomycota were determined from 92 different localities. Buellia vouauxii, a lichenicolous fungus, and is new to Turkey and also new for Asia. Aspicilia glomerulans, Llimoniella muralicola, Myriolecis invadens, Ochrolechia subviridis, Placynthium hungaricum and Placynthium posterulum were reported for the second time from Turkey. Collecting localities and their substrata are presented.

Article 2020 Fen Fakültesi Lindbergia2020 ( 1 ) 35 Views
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Lichens and Lichenicolous Fungi from Muş Province in Turkey

Ali ASLAN

A contribution to the lichen flora of Turkey is presented. A total of 282 lichen taxa and 20 lichenicolous fungi, of which 4 are varieties, are determined from 87 different localities in Muş province (Turkey). Lichenostigmagracile, a lichenicolous fungus, is new to Turkey, and 274 lichen species and 20 lichenicolous fungi are new for Muş.

Article 2020 Fen Fakültesi Acta Botanica Hungarica62 ( 3-4 ) 46 Views
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Agrobacterium- mediated transformation of Turkish upland rice (Oryza sativa L.) for Dalapon herbicide tolerance

Yılmaz KAYA | İbrahim İlker ÖZYİĞİT | Ali ASLAN

Agrobacterium-mediated transformation of upland rice is established in few numbers of cultivars due to the high cultivar-specificity of regeneration from transformed explants. Further, dehalogenase E (dehE) gene had been characterized in Pseudomonas putida and it produces an enzyme that degrades dalapon. This study aimed to transform Turkish upland rice with the dehE herbicide resistant gene and addresses the challenges of transgenic rice recovery by identifying explant and transformation method. Constructed vector pCAMdehE carrying dehE gene was transferred into the rice shoot apex by Agrobac ...More

Article 2020 Fen Fakültesi Indian Journal of Biotechnology (IJBT)19 ( 4 ) 134 Views
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Further Analysis of Burkholderia pseudomallei MF2 and Identification of Putative Dehalogenase Gene by PCR

Yılmaz KAYA

Halogenated organic compounds are extensively and widely used as pesticides, herbicides, and antibiotics that contribute to the pollution. This research was aimed to further analyze and characterize a bacterium that has the ability to utilize 2,2-dichloropropionic acid (2,2-DCP) as a model to study dehalogenase enzyme production. Microscopic observation, biochemical tests and PCR technique were carried out in order to characterize the isolated bacterium. Strain MF2 showed its ability to grow on 10 mM 2,2-DCP liquid minimal medium with doubling time of 13 h with maximum chloride ion released of ...More

Article 2020 Fen Fakültesi Indonesian Journal of Chemistry20 ( 2 ) 64 Views
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Gene transfer to plants by electroporation: methods and applications

İbrahim İlker ÖZYİĞİT

Developing gene transfer technologies enables the genetic manipulation of the living organisms more efficiently. The methods used for gene transfer fall into two main categories; natural and artificial transformation. The natural methods include the conjugation, transposition, bacterial transformation as well as phage and retroviral transductions, contain the physical methods whereas the artificial methods can physically alter and transfer genes from one to another organisms

Review 2020 Fen Fakültesi Molecular Biology Reports47 ( 4 ) 55 Views
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Molecular docking and molecular dynamics simulations studies on beta-glucosidase and xylanase Trichoderma asperellum to predict degradation order of cellulosic components in oil palm leaves for nanocellulose preparation

Yılmaz KAYA

Literature has shown that oil palm leaves (OPL) can be transformed into nanocellulose (NC) by fungal lignocellulosic enzymes, particularly those produced by the Trichoderma species. However, mechanism of beta-glucosidase and xylanase selectivity to degrade lignin, hemicellulose and cellulose in OPL for NC production remains relatively vague. The study aimed to comprehend this aspect by an in silico approach of molecular docking, molecular dynamics (MD) simulation and Molecular-mechanics Poisson-Boltzmann surface area (MM-PBSA) analysis, to compare interactions between the beta-glucosidase- and ...More

Article 2020 Fen Fakültesi Journal of Biomolecular Structure and Dynamics39 ( 7 ) 77 Views
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THE PHYSIOLOGICAL AND DNA DAMAGE RESPONSE OF IN THE LICHEN HYPOGYMNIA PHYSODES TO UV AND HEAVY METAL STRESS

Ali ASLAN

This work aims to determine the response of Hypogymnia physodes (L.) Nyl. (hooded tube lichen) collected in an unpolluted site (Yenice Forest in Karabiik, Turkey) to stress conditions. In the present study, the effect of exposure to different heavy metals (Cd 2, Pb 2, and Cr 6) for different durations and UV radiations dosages on lichen was examined at the physiological and molecular levels. The effects of stress conditions were determined in the case of different parameters concerning heavy metal, protein, chlorophyll, and carotenoid contents and changes in the DNA profiles. According to the ...More

Article 2020 Fen Fakültesi Applied Ecology and Environmental Research18 ( 2 ) 37 Views
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Exploration of two major boron transport genes BOR1 and NIP5;1 in the genomes of different plants

İbrahim İlker ÖZYİĞİT

Boron (B) is an essential plant micronutrient but studies regarding its transport are still limited to a few plants. This work identified two major B transport sequences in plants, NIP5;1 boric acid channel protein and BOR1 transporter. 80 BOR1 and 34 NIP5;1 homologs were identified in 18 different plant genomes. BOR1 homologs had a HCO3-transporter domain, 649-737 amino-acid residues with mainly basic nature, putative 8-11 transmembrane domains (TMDs) and 11-13 exons. NIP5;1 homologs had a MIP family domain, 294-311 amino-acid residues with basic nature, 5-6 putative TMDs and 3-5 exons. Tyros ...More

Article 2020 Fen Fakültesi Biotechnology and Biotechnological Equipment34 ( 1 ) 49 Views
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Using the Turkish Red Pine Tree to Monitor Heavy Metal Pollution

İbrahim İlker ÖZYİĞİT

Turkish red pine is an evergreen tree species widely distributed in the Aegean and Mediterranean regions in Turkey. In the present work, the heavy metal pollution level in Istanbul was investigated using Turkish red pine as a biomonitor. For determining heavy metal concentrations (Cd, Co, Cr, Mn, Ni and Pb) in leaf (unwashed and washed) and bark samples of Turkish red pine and its co-located soil samples we used ICP-OES. Additionally, particulate matter profiles of the research areas were investigated. The samples were collected from 5 different localities: 4 from the Bosporus region (Yildiz G ...More

Article 2020 Fen Fakültesi Polish Journal of Environmental Studies29 ( 5 ) 69 Views
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INVESTIGATION OF POWDERY MILDEW DISEASE IN VARIOUS OAK (QUERCUS) TREES; A CASE STUDY FROM ISTANBUL/TURKEY

İbrahim İlker ÖZYİĞİT

Oak tree, with its different varieties, grows in almost all regions of Turkey. It is one of the wood materials valued for its timber. This noble tree is affected by powdery mildew (PM) disease, especially at its young ages. PM is a fungal disease infecting wide range of plant species as well as oak trees. It is quite harmful to nurseries, groves and coppice forests, and it reduces the quality and quantity of by-products. In this study, PM disease, its formation and spread conditions were investigated in various oak species populated in six different districts of Istanbul. Field observations, d ...More

Article 2020 Fen Fakültesi Fresenius Environmental Bulletin29 ( 7 ) 108 Views
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DETERMINING ELEMENT ACCUMULATIONS IN TURKISH RED PINE USED AS A BIOINDICATOR FOR ESTIMATING OF EXISTING POLLUTION ON BOTH SIDES OF BOSPHORUS IN ISTANBUL

İbrahim İlker ÖZYİĞİT

Evergreen Turkish red pine tree shows wide distribution around Aegean and Mediterranean regions in Turkey. Herein work investigated the mineral nutrient status of Turkish red pine as a bioindicator for revealing the impact of existing pollution on both sides of Bosphorus in Istanbul. For this, Al, B, Ca, Cu, Fe, K, Mg, Na and Zn concentrations were determined in unwashed and washed leaves and barks of the plant and soil samples. The standard procedures were applied and the determinations of element concentrations in all samples were done using ICP-OES. The sample collections were performed at ...More

Article 2020 Fen Fakültesi Fresenius Environmental Bulletin29 ( 7 ) 96 Views
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