Bioengineering / Biyomühendislik
Permanent URI for this collectionhttps://hdl.handle.net/11147/4529
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Article Citation - WoS: 2Citation - Scopus: 2Transition-Metal Direct C-H Arylation of Thiophene in Aqueous Media Via Potassium Peroxymonosulfate(John Wiley and Sons Inc., 2019) Özenler, Sezer; Kaya, Hakan; Elmacı, Nuran; Yıldız, Ümit HakanThis study covers the use of potassium peroxymonosulfate (PPS) which, is a mild and inexpensive catalyst, for direct coupling of C-H/C-H for water soluble thiophene. The 3-(4-methyl-3 '- thienyloxy)propyltriethylammonium bromide (M1) has been selected as model monomer that reacted PPS in 2.0, 0.20 and 0.020 monomer to PPS ratio. The reaction has been monitored via NMR spectroscopy revealing the monomer consumption and formation of dimers to tetramers as well as completion of reaction within 15 minutes. Resultant product is easily collected without tedious work up steps. The computational calculation has optimized the regularity of the coupling as head to tail, tail to tail, head to tail (HT-TT-HT) for tetramer. The regularity of tetramer which is further satisfied via NMR analysis showing emergence of new peaks at 3.56 and 4.48. The shifts in the UV maximum of reactive species have been monitored by absorbance spectroscopy showing time dependent red shift corresponds to growing from monomer to tetramers. The reaction has self-stopped due to low solubility of moderate condensates (higher than trimer), however further experiments have performed in water-organic mixtures showed great promises to obtain higher condensates.Article Citation - WoS: 15Citation - Scopus: 17Improved Activity of Alpha-L From Geobacillus Vulcani Gs90 by Directed Evolution: Investigation on Thermal and Alkaline Stability(John Wiley and Sons Inc., 2019) Sürmeli, Yusuf; İlgü, Hüseyin; Şanlı Mohamed, Gülşahalpha-L-Arabinofuranosidase (Abf) is a potential enzyme because of its synergistic effect with other hemicellulases in agro-industrial field. In this study, directed evolution was applied to Abf from Geobacillus vulcani GS90 (GvAbf) using one round error-prone PCR and constructed a library of 73 enzyme variants of GvAbf. The activity screening of the enzyme variants was performed on soluble protein extracts using p-nitrophenyl alpha-L-arabinofuranoside as substrate. Two high activity displaying variants (GvAbf L307S and GvAbf Q90H/L307S) were selected, purified, partially characterized, and structurally analyzed. The specific activities of both variants were almost 2.5-fold more than that of GvAbf. Both GvAbf variants also exhibited higher thermal stability but lower alkaline stability in reference to GvAbf. The structural analysis of GvAbf model indicated that two mutation sites Q90H and L307S in both GvAbf variants are located in TIM barrel domain, responsible for catalytic action in many Glycoside Hydrolase Families including GH51. The structure of GvAbf model displayed that the position of L307S mutation is closer to the catalytic residues of GvAbf compared with Q90H mutation and also L307S mutation is conserved in both variants of GvAbf. Therefore, it was hypothesized that L307S amino acid substitution may play a critical role in catalytic activity of GvAbf. (C) 2018 International Union of Biochemistry and Molecular Biology, Inc.Article Citation - WoS: 1Citation - Scopus: 1Triploid Induction of Green Tiger Shrimp, Penaeus Semisulcatus (de Haan, 1844) Using Temperature and Chemical Shock(John Wiley and Sons Inc., 2015) Kır, Mehmet; Tarhan, Gökhan; Okur, ÖzgürTriploidy in fertilized eggs of Penaeus semisulcatus was induced by temperature and chemical shocks. The eggs, which were obtained from the shrimp broodstock maintained at 29C, were exposed to cold temperature (8, 10, 12, and 14 C) and 6-dimetiloaminopurine (6-DMAP) concentrations (100, 150, 200, and 250 μM) for different durations (4, 6, and 8min) 9min after spawning was detected. While the highest triploidy rate of 49.7±4.5% was obtained with a 200μM 6-DMAP concentration for a duration of 8min, the best mean triploidy rate of 45.5±2.8% for cold shock was obtained at a temperature of 10 C for a duration of 8min. Temperature and 6-DMAP concentration did not have significant effect on triploidy rate (P>0.05) but shock duration had significant effect on triploidy rate for individual cold temperature shock or 6-DMAP chemical shock (P<0.05). Although longer durations of shock agent increased the rates of triploid induction, they generally had an adverse effect on hatching rates in the study.Article Citation - WoS: 30Citation - Scopus: 35Bioactive Sheath/Core Nanofibers Containing Olive Leaf Extract(John Wiley and Sons Inc., 2016) Doğan, Gamze; Başal, Güldemet; Bayraktar, Oğuz; Özyıldız, Figen; Uzel, Ataç; Erdoğan, İpekThis study aimed at producing silk fibroin (SF)/hyaluronic acid (HA) and olive leaf extract (OLE) nanofibers with sheath/core morphology by coaxial electrospinning method, determining their antimicrobial properties, and examining release profiles of OLE from these coaxial nanofibers. Optimum electrospinning process and solution parameters were determined to obtain uniform and bead-free coaxial nanofibers. Scanning electron microscopy and transmission electron microscopy (TEM) were used to characterize the morphology of the nanofibers. The antimicrobial activities of nanofibers were tested according to AATCC test method 100. Total phenolic content and total antioxidant activity were tested using in vitro batch release system. The quality and quantity of released components of OLE were determined by high-performance liquid chromatography. The changes in nanofibers were examined by Fourier-transform infrared spectroscopy. Uniform and bead-free nanofibers were produced successfully. TEM images confirmed the coaxial structure. OLE-loaded nanofibers demonstrated almost perfect antibacterial activities against both of gram-negative and gram-positive bacteria. Antifungal activity against C. albicans was rather poor. After a release period of 1 month, it was observed that ∼70-95% of the OLE was released from nanofibers and it was still bioactive. Overall results indicate that the resultant shell/core nanofibers have a great potential to be used as biomaterials.Article Citation - WoS: 35Citation - Scopus: 40Olive Leaf Extract as a Crosslinking Agent for the Preparation of Electrospun Zein Fibers(John Wiley and Sons Inc., 2015) Erdogan, I.; Demir, M.; Bayraktar, O.Incorporating active agents, reinforcing structure by crosslinking, thus changing release properties, can be listed as possible modifications in preparation methods of biopolymer fibers. This study introduces oleuropein, major component of olive leaf extract (OLE), as a natural functional crosslinker for electrospun zein fibers, owing to its antioxidant and antimicrobial properties. Incorporation of OLE causes morphological and structural changes indicated by a decrease in fiber diameter up to 27%, an increase in intensity of NH bending region due to interaction with -OH groups and observation of characteristic oleuropein bands. Extract addition also enhances thermal stability. Zein fibers without OLE is fully degraded at 600C, whereas 10% of OLE loaded zein fibers is left undegraded. Fifty percent of initial phenolic content loaded into fibers is released which indicate the effect of OLE incorporation as accumulation of oleuropein. OLE-incorporated fibers immersed in PBS are less fused than pure zein fibers, due to the crosslinking effect. © 2014 Wiley Periodicals, Inc.