Reversible inhibition of caspase-3 activity by iron(III): potential role in physiological control of apoptosis

Desferoxamine is known to induce apoptosis in cancer cells, but the mechanisms are still not fully understood. We have shown that iron(III) is a potent caspase-3 inhibitor, and the inhibition is reversible by the iron chelating agent desferoxamine. Also, protein disulfide isomerase (PDI) is capable of activating caspase-3 inhibited by iron(III), likely by formation of iron-sulfur complex through its active site thiols. Data presented here suggests that iron(III) could be a potential inhibitor of apoptosis in vivo, by caspase-3-dependent inhibition with a possibility of recovery through PDI overexpression.     

Monte carlo simulations of site-specific radical attack to DNA bases

An atomistic biophysical model permitting the calculation of initial attacks to a 38-bp representation of B-DNA base moieties by water radicals is presented. This model is based on a previous radiation damage model developed by Aydogan et al. (Radiat. Res. 157, 38-44, 2002). Absolute efficiencies for radical attack to the 38-bp DNA molecule are calculated to be 41, 0.8 and 15% for hydroxyl radical ((.)OH), hydrogen radical (H(.)), and hydrated electron (e(aq))(,) respectively. Among the nucleobases, guanine is found to have the highest percentage (.)OH attack probability at 36%. Adenine, cytosine and thymine moieties have initial attack probabilities of 24, 18 and 22%, respectively. A systematic study is performed to investigate (.)OH attack probabilities at each specified attack site in four molecular models including free bases, single nucleotides, single base pairs, and the central eight base pairs of the 38-bp DNA molecule. Cytosine is the free base moiety for which the closest agreement is observed between the model prediction and the experimental data. The initial (.)OH attack probabilities for cytosine as the free base are calculated to be 72 and 28%, while experimental data are reported at 87 and 13% for the C5 and C6 positions on the base, respectively. In this study, we incorporated atomic charges to scale the site-specific (.)OH reaction rates at the individual atomic positions on the pyrimidine and purine bases. Future updates to the RIDNA model will include the use of electron densities to scale the reaction rates. With respect to reactions of the aqueous electron with DNA, a comparison of the initial distribution of electron attack sites calculated in this study and experimental results suggests an extremely rapid and extensive redistribution of the e(-)(aq) after their initial reactions with DNA.     

Enzyme Characteristics of Extremely Halophilic Archaeal Community in Tuzkoy Salt Mine,Turkey

Tuzkoy is a large and unpolluted salt mine in Central Anatolia, Turkey. High quality salt in this mine may be supplied to the table salt market after a simple process instead of complicated refining. However, the extremely halophilic microbial content of the salt has not yet been investigated which may result in detrimental effects in industrial processes such the food and leather industries, if unprocessed salt is directly used. Therefore, to identify and characterize the microbial contaminants in Tuzkoy salt, chemical and microbial analyses were conducted on salt crystal samples collected from three different locations of the mine. Generally 10⁵–10⁶ colony forming units of extremely halophilic microorganisms were detected per gram of salt samples. Twelve colonies were selected randomly for further characterization. Phenotypic characterization, lipid analysis, antibiotic susceptibility tests and positive PCR amplification results with Archaea-specific primers confirmed that all strains were halophilic Archaea belong to family Halobacteriaceae. According to denaturing gradient gel electrophoresis (DGGE) results, 10 comparatively different strains were selected for DNA sequencing. DNA sequences and phylogenetic analyses revealed that the isolated strains were mainly species of the genera Halobacterium, Haloarcula, Natrinema and Halorubrum. In addition enzymatic activity tests were also conducted to evaluate the salt quality for industrial applications. Results of gelatinase, caseinase, amylase, cellulase and lipase activity tests revealed that the isolated strains produced hydrolytic enzymes, which could cause deterioration in salt-treated food and hide. It may be pointed out that cellulase activity in halophilic Archaea has not been reported previously. Moreover, β-galactosidase activity has been reported in some Haloferax and Halorubrum species but not in the genus Halobacterium. This revised version was published online in July 2006 with corrections to the Cover Date.     

Plasma membrane cholesterol content affects nitric oxide diffusion dynamics and signaling

Nitric oxide (NO) signaling is inextricably linked to both its physical and chemical properties. Due to its preferentially hydrophobic solubility, NO molecules tend to partition from the aqueous milieu into biological membranes. We hypothesized that plasma membrane ordering provided by cholesterol further couples the physics of NO diffusion with cellular signaling. Fluorescence lifetime quenching studies with pyrene liposome preparations showed that the presence of cholesterol decreased apparent diffusion coefficients of NO approximately 20-40%, depending on the phospholipid composition. Electrochemical measurements indicated that the diffusion rate of NO across artificial bilayer membranes were inversely related to cholesterol content. Sterol transport-defective Niemann-Pick type C1 (NPC1) fibroblasts exhibited increased plasma membrane cholesterol content but decreased activation of both intracellular soluble guanylyl cyclase and vasodilator-stimulated phosphoprotein (VASP) phosphorylation at Ser(239) induced by exogenous NO exposure relative to their normal human fibroblast (NHF) counterparts. Augmentation of plasma membrane cholesterol in NHF diminished production of both cGMP and VASP phosphorylation elicited by NO to NPC1-comparable levels. Conversely, decreasing membrane cholesterol in NPC1 resulted in the augmentation in both cGMP and VASP phosphorylation to a level similar to those observed in NHF. Increasing plasma membrane cholesterol contents in NHF, platelets, erythrocytes and tumor cells also resulted in an increased level of extracellular diaminofluorescein nitrosation following NO exposure. These findings suggest that the impact of cholesterol on membrane fluidity and microdomain structure contributes to the spatial heterogeneity of NO diffusion and signaling.     

Cheese whey treatment performance of an aerobic jet loop membrane bioreactor

The raw chess whey (CW) treatment capacity of a jet loop membrane bioreactor (JLMBR) was evaluated. Raw CW was first characterized for carbonaceous, nitrogenous and phosphorus compounds. The total COD range of the raw CW was between 73 and 86 kg m⁻³ and 82% of the total COD was found to be soluble. The JLMBR system, of 32 l capacity was operated continuously for 3 months with a sludge age of 1.1–2.8 days and COD loads of 3.5–33.5 kg-COD m⁻³ per day. A treatment efficiency of 97% was obtained for 1.6 days of sludge age and COD loads of 22.2 kg-COD m⁻³ per day. The sludge flocks observed in the system were highly motile, dispersed and had poor settling properties. The membrane filtration characteristics of this sludge were investigated and increasing MLSS concentration decreased membrane flux values.     

Factors Affecting Turkish Dog Owners’ Breed Choices,and Their Associations with Socio-demographic and Dog-Related Variables

ABSTRACT

The aim of this study was to identify factors affecting dog owners’ breed choices at the time of acquisition and whether they were associated with socio-demographics and dog-related variables (size, temperament, function). Answers (n = 581) to a questionnaire formed the data for this study. In order to determine which factors affected breed choice, a principal component analysis (PCA) was conducted. This revealed that owners were influenced by adaptation ability, social influence, working expectation, and breed characteristics at the time of dog acquisition, all of which explained 54.8% of the total variance. In order to determine the relationships between these influences, demographics, and dog-related factors, both univariate and multiple regression analyses were conducted. It was found that gender, education level, housing type, number of children, having another pet, and owners’ self-classification of professionalism were significantly associated with the factors affecting owners’ choices. Furthermore, dog-related factors were found to be a better predictor than the demographics of the owner in determining the factors affecting breed choices.     

Treatment of landfill leachate using UASB-MBR-SHARON–Anammox configuration

Leachate treatment is a challenging issue due to its high pollutant loads. There are several studies on feasible treatment methods of leachate. In the scope of this study, high organic content of young leachate was eliminated using an upflow anaerobic sludge blanket (UASB) and a membrane bioreactor (MBR) in sequence and effluent of the system was given to single reactor for high activity ammonia removal over nitrite (SHARON) and anaerobic ammonia oxidation (Anammox) reactors to remove nitrogen content. All reactors were set up at lab scale in order to evaluate the usage of these processes in sequencing order for leachate treatment. COD and TKN removal efficiencies were over 90 % in the combined processes which were operated during the study. The biodegradable portion of organic matter was removed with an efficiency of 99 %. BOD₅ concentration decreased to 50 mg/L by UASB and MBR in sequence even the influent BOD₅ concentration was over 8,000 mg/L. Although high nitrogen concentrations were observed in raw leachate, successful removal of nitrogen was accomplished by consecutive operations of SHARON and Anammox reactors. The results of this study demonstrated that with an efficient pretreatment of leachate, the combination of SHARON–Anammox processes is an effective method for the treatment of high nitrogen content in leachate.     

Synthesis,characterization and tyrosinase inhibitory properties of benzimidazole derivatives

1-Alkylbenzimidazole and 1,3-dialkyl benzimidazolium salts were synthesized and characterized by the data of IR, ¹H NMR, ¹³C NMR spectra and elemental analyses. These compounds were investigated as tyrosinase inhibitors. Tyrosinase has been purified from banana by affinity chromatography on a Sepharose 4B gel conjugated with L-tyrosine-p-aminobenzoic acid. All the synthesized compounds inhibited the tyrosinase activity. Among the compounds studied, 1,4-di(1H-benzo[d]imidazol-1-yl)butane was found to be the most active tyrosinase inhibitor (IC₅₀ 0.31 mM).     

Serological,Molecular and Entomological Surveillance Demonstrates Widespread Circulation of West Nile Virus in Turkey

West Nile virus (WNV), a mosquito-borne flavivirus with significant impact on human and animal health, has recently demonstrated an expanded zone of activity globally. The aim of this study is to investigate the frequency and distribution of WNV infections in potential vectors and several mammal and avian species in Turkey, where previous data indicate viral circulation. The study was conducted in 15 provinces across Turkey during 2011–2013. In addition, the entomological study was extended to 4 districts of the Turkish Republic of Northern Cyprus. WNV exposure was determined in humans, horses, sheep and ducks from Mersin, Sanliurfa, Van and Kars provinces of Turkey, via the detection of neutralizing antibodies. WNV RNA was sought in human and equine samples from Mersin, Adana and Mugla provinces. Field-collected mosquitoes from 92 sites at 46 locations were characterized morphologically and evaluated for viral RNA. Neutralizing antibodies were identified in 10.5% of the 1180 samples studied and detected in all species evaluated. Viral nucleic acids were observed in 5.9% of 522 samples but only in horses. A total of 2642 mosquito specimens belonging to 15 species were captured, where Ochlerotatus caspius (52.4%), Culex pipiens sensu lato (24.2%) comprise the most frequent species. WNV RNA was detected in 4 mosquito pools (1.9%), that comprise Oc. caspius Cx. pipiens s.l. and DNA barcoding revealed the presence of Cx. quinquefasciatus and Cx. perexiguus mosquitoes in infected Culex pools. All WNV partial sequences were characterized as lineage 1 clade 1a. These findings indicate a widespread WNV activity in Turkey, in Eastern Thrace and Mediterranean-Aegean regions as well as Southeastern and Northeastern Anatolia.     

NMR assignments of the binary hvDHFR1:folate complex

A better understanding of how salt affects enzyme activity can be gained via NMR studies of binary hvDHFR1:folate complex. Chemical shift assignments of the 17.9 kDa enzyme with bound substrate prepare the way for ongoing research of the effects of salt on enzyme flexibility through relaxation studies.