Genome sequence and probiotic potential of newly isolated Enterococcus durans strain MN187066.

Enterococci are commensals of the human intestinal tract. Their use as probiotics is supported by their ability to confer several health benefits and eliminate foodborne pathogens but is controversial due to the presence of virulence and antibiotic resistance traits. To use them as probiotics requires thorough research to establish their safety. Here, we sequenced the whole genome of a newly isolated Enterococcus durans MN187066 and used a suite of bioinformatics tools to analyze its beneficial probiotic traits as well as antimicrobial resistance and virulence genes. The whole genome had a length of 2 978 152 bp, and an average G + C content of 37.88%. The bopABCD genes involved in biofilm formation were annotated in the genome. However, further analysis showed that these genes are mostly helpful in strengthening their colonization and establishment in the gastrointestinal tract. Also, we identified secondary metabolite gene clusters and the bacteriocins Enterolysin A and Enterocin P. We also identified repUS15 and rep1 replicons and genes that were associated with antimicrobial resistance and virulence. Nevertheless, vancomycin resistance genes were not detected. Our results show that the Ent. durans strain MN187066 can be considered a nontoxigenic strain and produces beneficial metabolites that are critical for their success as probiotics.

Higher titer hyaluronic acid production in recombinant Lactococcus lactis.

Hyaluronic acid (HA) is a natural biopolymer and has long been attracting the attention of biotechnology industry due to its various biological functions. HA production with natural producer Streptococcus equi subsp. zooepidemicus has not been preferred because it has many drawbacks due to its pathogenicity. Therefore, in the present study, Streptococcal hyaluronan synthase gene (hasA) was introduced and expressed in Lactococcus lactis, through the auto inducible NICE system and the effect of nisin amount on the production of HA was examined. Newly constructed plasmid was transformed into L. lactis CES15, produced 6.09 g/l HA in static flask culture after three hours of induction period with initial 7.5 ng/ml nisin concentration within total six hours of incubation. The highest HA titer value ever was reported for recombinant HA-producing L. lactis by examining the effect of initial nisin concentration. We have shown that initial nisin concentration, which used to initiate the auto-inducing mechanism of NICE system and consequently hyaluronan synthase expression, has a direct and significant effect on the produced HA amount. Recently constructed recombinant L. lactis CES15 strain provide significant advantages for industrial HA production than those in literature in terms of production time, energy demand, carbon usage, and safety status.

Optimization of hyaluronic acid production and its cytotoxicity and degradability characteristics.

In the present study, culture conditions of Streptococcus equi was optimized through Box-Behnken experimental design for hyaluronic acid production. About 0.87 gL-1 of hyaluronic acid was produced under the determined conditions and optimal conditions were found as 38.42 °C, 24 hr and 250 rpm. The validity and practicability of this statistical optimization strategy were confirmed relation between predicted and experimental values. The hyaluronic acid obtained under optimal conditions was characterized. The effects of different conditions such as ultraviolet light, temperature and enzymatic degradation on hyaluronic acid produced under optimal conditions were determined. 118 °C for 32 min of autoclaved HA sample included 63.09 µg mL-1 of d-glucuronic acid, which is about two-fold of enzymatic effect. Cytotoxicity of hyaluronic acid on human dermal cells (HUVEC, HaCaT), L929 and THP-1 cells was studied. In vitro effect on pro or anti-inflammatory cytokine release of THP-1 cells was determined. Although it varies depending on the concentration, cytotoxicity of hyaluronic acid is between 5 and 30%. However, it varies depending on the concentration of hyaluronic acid, TNF-α release was not much increased compared to control study. Consequently, purification procedure is necessary to develop and it is worth developing the bacterial hyaluronic acid.

Production of an alkaline protease using Bacillus pumilus D3 without inactivation by SDS, its characterization and purification.

Abstract In this study, protease-producing capacity of Bacillus pumilus D3, isolated from hydrocarbon contaminated soil, was evaluated and optimized. Optimum growing conditions for B. pumilus D3 in terms of protease production were determined as 1% optimum inoculum size, 35 °C temperature, 11 pH and 48 h incubation time, respectively. Stability studies indicated that the mentioned protease was stable within the pH range of 7-10.5 and between 30 °C and 40 °C temperatures. Surprisingly, the activity of the enzyme increased in the presence of SDS with concentration up to 5 mM. The protease was concentrated 1.6-fold with ammonium sulfate precipitation and dialysis. At least six protein bands were obtained from dialysate by electrophoresis. Four clear protein bands with caseinolytic activity were detected by zymography. Dialysate was further purified by anion-exchange chromatography and the caseinolytic active fraction showed a single band between 29 and 36 kDa of reducing conditions.

Evaluation of psychosocial risks affecting academician using the sine trigonometric pythagorean fuzzy (ST-PFN) DEMATEL method.

BACKGROUND: In the realm of academia, psychosocial risk factors play a pivotal role, exerting considerable influence on the well-being and performance of scholars. Factors such as excessive workloads, unrelenting performance expectations, time constraints, and competitive atmospheres can detrimentally affect their health and overall quality of life. Moreover, issues like social isolation, work-life imbalance, and academic anxiety further compound these challenges, impeding academic progress and success. OBJECTIVE: Thus, it is imperative to identify, mitigate, and manage psychosocial risk factors effectively to foster a conducive academic environment conducive to productivity and achievement. METHODS: This study employs a novel approach, integrating expert opinions and utilizing sine trigonometry Pythagorean fuzzy numbers to ascertain the degrees of importance and rank psychosocial risk factors through the DEMATEL method. This methodology presents a unique contribution to existing literature, offering fresh insights into this critical area of study. RESULTS: Evaluation of 25 factors reveals burnout, job dissatisfaction, precarious working conditions, lack of trust, unfair treatment, job insecurity, and limited developmental opportunities as primary concerns, underscoring the multifaceted nature of these challenges. CONCLUSIONS: In the occupational sphere, active participation from all stakeholders in addressing psychosocial risks is paramount for effective problem resolution. It is incumbent upon parties involved to discharge their duties, foster collaboration, enhance working conditions, ensure equity, and facilitate avenues for professional growth. Each identified risk factor addressed and preempted translates into a tangible reduction in workplace accidents and occupational ailments, underscoring the tangible benefits of proactive risk management.

Bionic Nanocoating of Prosthetic Grafts Significantly Reduces Bacterial Growth.

Prosthetic materials are a source of bacterial infections, with significant morbidity and mortality. Utilizing the bionic "Lotus effect," we generated superhydrophobic vascular prostheses by nanocoating and investigated their resistance to bacterial colonization. Nanoparticles were generated from silicon dioxide (SiO2), and coated vascular prostheses developed a nanoscale roughness with superhydrophobic characteristics. Coated grafts and untreated controls were incubated with different bacterial solutions including heparinized blood under mechanical stress and during artificial perfusion and were analyzed. Bioviability- and toxicity analyses of SiO2 nanoparticles were performed. Diameters of SiO2 nanoparticles ranged between 20 and 180 nm. Coated prostheses showed a water contact angle of > 150° (mean 154 ± 3°) and a mean water roll-off angle of 9° ± 2°. Toxicity and viability experiments demonstrated no toxic effects of SiO2 nanoparticles on human induced pluripotent stem cell-derived cardiomyocytes endothelial cells, fibroblasts, and HEK239T cells. After artificial perfusion with a bacterial solution (Luciferase+ Escherichia coli), bioluminescence imaging measurements showed a significant reduction of bacterial colonization of superhydrophobic material-coated prostheses compared to that of untreated controls. At the final measurement (t = 60 min), a 97% reduction of bacterial colonization was observed with superhydrophobic material-coated prostheses. Superhydrophobic vascular prostheses tremendously reduced bacterial growth. During artificial perfusion, the protective superhydrophobic effects of the vascular grafts could be confirmed using bioluminescence imaging.

Dye decolorization of magnetically retrievable formulation of laccase with amine-functionalized microparticles.

Laccase is an important enzyme used in many industries because of its multi-substrate catalyst. New immobilization agents are excellent tools for enhancing the abilities of this enzyme. In this study, immobilization of laccase on silica microparticles with NH2 (S-NH2) surface modification to use in dye removal applications was aimed. The yield of immobilization by this method was found to be 93.93 ± 2.86% under optimum conditions. In addition, this newly created immobilized enzyme was adapted to a decolorization application with 87.56 ± 1.60% efficiency. Silica microparticles with NH2 (S-NH2) surface modification were used for laccase immobilization and this immobilized laccase had quite good potential. Besides, Random Amplified Polymorphic DNA (RAPD) analysis in evaluating the toxicity of the decolorization process was utilized. After amplification with two RAPD primers, decreased toxicity of dye in this study was observed. This study showed that RAPD analysis in toxicity testing could be accepted as an alternative and practical method that this approach will contribute to the literature in terms of providing fast and reliable results. The use of amine-modified surface silica microparticles for laccase immobilization and RAPD for toxicity testing is a crucial aspect of our investigation.

A novel higher polyhydroxybutyrate producer Halomonas halmophila 18H with unique cell factory attributes.

For cost-competitive biosynthesis of polyhydroxybutyrate (PHB), the screening of efficient producers and characterization of their genomic potential is fundamental. In this study, 94 newly isolated halophilic strains from Turkish salterns were screened for their polyhydroxyalkanoates (PHAs) biosynthesis capabilities through fermentation. Halomonas halmophila 18H was found to be the highest PHB producer, yielding 63.72 % of its biomass as PHB. The PHB produced by this strain was physically and chemically characterized using various techniques. Its genome was also sequenced and found to be large (6,713,657 bp) and have a GC content of 59.9 %. Halomonas halmophila 18H was also found to have several copies of PHB biosynthesis genes, as well as 20 % more protein-coding genes and 1075 singletons compared to other high PHB producers. These unique genomic features make it a promising cell factory for the simultaneous production of PHAs and other biotechnologically important secondary metabolites.

Evaluation of occupational health and safety risk factors in Turkish marine fish hatcheries.

In this study, the approaches of employees in marine fish hatcheries to occupational health and safety were determined. Cronbach's α coefficient was calculated as 0.858 in the reliability of the scale and scale factors based on internal consistency. In addition,factor analysis according to the varimax method was found to be approximately 64%. It was determined that 68% of the employees were not aware of the relevant laws. In addition,85% of the employees are aware of the dangers and risks in their workplaces. In the event of a negative situation in the workplace,the rate of those who know their legal rights is 73% (p ≤ 0.05). In addition,91% of the employees stated that they would use their right to object in a risky situation and quit the job. Sixty per cent of the employees stated that their jobs can satisfy them sociologically and economically throughout their life.

Bacterial Membrane Vesicles as Smart Drug Delivery and Carrier Systems: A New Nanosystems Tool for Current Anticancer and Antimicrobial Therapy.

Bacterial membrane vesicles (BMVs) are known to be critical communication tools in several pathophysiological processes between bacteria and host cells. Given this situation, BMVs for transporting and delivering exogenous therapeutic cargoes have been inspiring as promising platforms for developing smart drug delivery systems (SDDSs). In the first section of this review paper, starting with an introduction to pharmaceutical technology and nanotechnology, we delve into the design and classification of SDDSs. We discuss the characteristics of BMVs including their size, shape, charge, effective production and purification techniques, and the different methods used for cargo loading and drug encapsulation. We also shed light on the drug release mechanism, the design of BMVs as smart carriers, and recent remarkable findings on the potential of BMVs for anticancer and antimicrobial therapy. Furthermore, this review covers the safety of BMVs and the challenges that need to be overcome for clinical use. Finally, we discuss the recent advancements and prospects for BMVs as SDDSs and highlight their potential in revolutionizing the fields of nanomedicine and drug delivery. In conclusion, this review paper aims to provide a comprehensive overview of the state-of-the-art field of BMVs as SDDSs, encompassing their design, composition, fabrication, purification, and characterization, as well as the various strategies used for targeted delivery. Considering this information, the aim of this review is to provide researchers in the field with a comprehensive understanding of the current state of BMVs as SDDSs, enabling them to identify critical gaps and formulate new hypotheses to accelerate the progress of the field.

Dechlorination of chlorinated compounds by Trametes versicolor ATCC 200801 crude laccase and quantitative structure-activity relationship of toxicity.

Chlorinated compounds constitute an important class of xenobiotics. Crude laccase was produced using Trametes versicolor ATCC (200801) in potato dextrose broth, with wheat bran as an inducing medium, and its ability to dechlorinate eight compounds was determined. The compounds were 2-chlorophenol, 4-chlorophenol, 2,4-dichlorophenol, 2,6-dichlorophenol, 2,4,5-trichlorophenol, 2,4,6-trichlorophenol, heptachlor and pentachlorophenol. A range of parameters for the dechlorination of some compounds was tested, including incubation period, pH, initial substrate concentration, temperature, and enzyme quantity. The oxygen consumption was determined during each dechlorination process, under pre-determined optimum conditions. The changes in chemical structure of the compounds were also determined, by using FTIR analysis, following dechlorination of test chlorophenolics. Strong interactions were found to lead to the reactivity of hydroxyl groups in some cases and chlorine atoms were released from the benzene ring. The changes in compound toxicity were monitored before and after enzymatic treatment, using Microtox. Quantitative structure-activity relationships for the toxicity of the chlorinated compounds were developed. Consequently, the toxic activity of the test compounds was controlled by electrophilic index and electronic properties.

Estimation of biosurfactant production parameters and yields without conducting additional experiments on a larger production scale.

In this study, a Plackett-Burman design was applied to investigate critical factors for surface tension. After adding a new factor called "production scale", a central composite design (CCD) was constructed to examine nonlinear relations among factors and surface tension. An artificial neural network (ANN) was trained using data from CCD experiments. The ANN with the best structure of 5-6-1 was then tested with different unseen data sets. The predictions from ANN were within the 95% confidence interval (CI), even for a larger production scale, determined by using the replicates. A genetic algorithm (GA) was developed to check how the values of the factors vary if the production scale was set to a user-defined value. Based on the validation experiments, it was observed that the 95% confidence interval of surface tension was 36.83 ± 1.00 mN m-1 while pH 8, temperature 35 °C, incubation time 12 h, and amount of inoculum 2.30%, respectively, for the production scale of 600 mL. The proposed methodological approach with the integration of ANN and GA is considered to make a serious economic contribution as it allows predicting a proper setup for larger production scales without conducting additional experiments.

Bacterial membrane vesicle functions, laboratory methods, and applications.

Bacterial membrane vesicles (BMVs) are cupped-shaped structures formed by bacteria in response to environmental stress, genetic alteration, antibiotic exposure, and others. Due to the structural similarities shared with the producer organism, they can retain certain characteristics like stimulating immune responses. They are also able to carry molecules for long distances, without changes in the concentration and integrity of the molecule. Bacteria originally secrete membrane vesicles for gene transfer, excretion, cell to cell interaction, pathogenesis, and protection against phages. These functions are unique and have several innovative applications in the pharmaceutical industry that have attracted both scientific and commercial interest.This led to the development of efficient methods to artificially stimulate vesicle production, purification, and manipulation in the lab at nanoscales. Also, for specific applications, engineering methods to impart pathogen antigens against specific diseases or customization as cargo vehicles to deliver payloads to specific cells have been reported. Many applications of BMVs are in cancer drugs, vaccines, and adjuvant development with several candidates in clinical trials showing promising results. Despite this, applications in therapy and commercialization stay timid probably due to some challenges one of which is the poor understanding of biogenesis mechanisms. Nevertheless, so far, BMVs seem to be a reliable and cost-efficient technology with several therapeutic applications. Research toward characterizing more membrane vesicles, genetic engineering, and nanotechnology will enable the scope of applications to widen. This might include solutions to other currently faced medical and healthcare-related challenges.

A Comparative Study of Receptor-Targeted Magnetosome and HSA-Coated Iron Oxide Nanoparticles as MRI Contrast-Enhancing Agent in Animal Cancer Model.

Magnetosomes are specialized organelles arranged in intracellular chains in magnetotactic bacteria. The superparamagnetic property of these magnetite crystals provides potential applications as contrast-enhancing agents for magnetic resonance imaging. In this study, we compared two different nanoparticles that are bacterial magnetosome and HSA-coated iron oxide nanoparticles for targeting breast cancer. Both magnetosomes and HSA-coated iron oxide nanoparticles were chemically conjugated to fluorescent-labeled anti-EGFR antibodies. Antibody-conjugated nanoparticles were able to bind the MDA-MB-231 cell line, as assessed by flow cytometry. To compare the cytotoxic effect of nanoparticles, MTT assay was used, and according to the results, HSA-coated iron oxide nanoparticles were less cytotoxic to breast cancer cells than magnetosomes. Magnetosomes were bound with higher rate to breast cancer cells than HSA-coated iron oxide nanoparticles. While 250 µg/ml of magnetosomes was bound 92 ± 0.2%, 250 µg/ml of HSA-coated iron oxide nanoparticles was bound with a rate of 65 ± 5%. In vivo efficiencies of these nanoparticles on breast cancer generated in nude mice were assessed by MRI imaging. Anti-EGFR-modified nanoparticles provide higher resolution images than unmodified nanoparticles. Also, magnetosome with anti-EGFR produced darker image of the tumor tissue in T2-weighted MRI than HSA-coated iron oxide nanoparticles with anti-EGFR. In vivo MR imaging in a mouse breast cancer model shows effective intratumoral distribution of both nanoparticles in the tumor tissue. However, magnetosome demonstrated higher distribution than HSA-coated iron oxide nanoparticles according to fluorescence microscopy evaluation. According to the results of in vitro and in vivo study results, magnetosomes are promising for targeting and therapy applications of the breast cancer cells.

Study on the characterization of lead (II) biosorption by fungus Aspergillus parasiticus.

The lead (II) biosorption potential of Aspergillus parasiticus fungal biomass has been investigated in a batch system. The initial pH, biosorbent dosage, contact time, initial metal ion concentrations and temperature were studied to optimize the biosorption conditions. The maximum lead (II) biosorption capacity of the fungal biosorbent was found as 4.02 x 10(-4) mol g(-1) at pH 5.0 and 20 degrees C. The biosorption equilibrium was reached in 70 min. Equilibrium biosorption data were followed by the Langmuir, Freundlich and Dubinin- Radushkevich (D-R) isotherm models. In regeneration experiments, no significant loss of sorption performance was observed during four biosorption-desorption cycles. The interactions between lead (II) ions and biosorbent were also examined by FTIR and EDAX analysis. The results revealed that biosorption process could be described by ion exchange as dominant mechanism as well as complexation for this biosorbent. The ion exchange mechanism was confirmed by E value obtained from D-R isotherm model as well.

Biosorption characteristics of Bacillus sp. ATS-2 immobilized in silica gel for removal of Pb(II).

The bacterial strain Bacillus sp. ATS-2 isolated from Pb(II) polluted soil was immobilized with a silica matrix and Pb(II) biosorption properties of immobilized biosorbent were examined. Optimum biosorption conditions were investigated in the fixed bed column with the variation in the parameters of pH, bed length, flow rate and influent concentration. The Pb(II) biosorption equilibrium was attained within 60 min and the maximum biosorption yield for silica gel immobilized Bacillus sp. ATS-2 was determined as 91.73% at pH 4.0. The higher biosorption yields were observed at flow rates of 60 and 180 ml h(-1). The optimum bed length for the column was found as 10 cm. Data obtained from batch studies were evaluated by Freundlich, Langmuir and Dubinin-Radushkevich (D-R) isotherm models. The maximum monolayer capacity of Bacillus sp. ATS-2 for Pb(II) was 2.36 x 10(-5) mol g(-1). The involvement of the functional groups on the surface of immobilized cells in biosorption process was also evaluated by FTIR spectral analysis.

Diversity of acidophilic prokaryotes at two acid mine drainage sites in Turkey.

The biodiversity of acidophilic prokaryotes in two acidic (pH 2.8-3.05) mine drainage (AMD) sites (Balya and Çan) in Turkey was examined using a combined cultivation-based and cultivation-independent approach. The latter included analyzing microbial diversity using fluorescent in situ hybridization (FISH), terminal restriction enzyme fragment length polymorphism (`T-RFLP), and quantitative PCR (qPCR). Numbers of cultivatable heterotrophic acidophilic bacteria were over an order of magnitude greater than those of chemolithotrophic acidophiles in both AMD ponds examined. Isolates identified as strains of Acidithiobacillus ferrivorans, Acidiphilium organovorum, and Ferrimicrobium acidiphilum were isolated from the Balya AMD pond, and others identified as strains of Leptospirillum ferriphilum, Acidicapsa ligni, and Acidiphilium rubrum from Çan AMD. Other isolates were too distantly related (from analysis of their 16S rRNA genes) to be identified at the species level. Archaeal diversity in the two ponds appeared to be far more limited. T-RFLP and qPCR confirmed the presence of Ferroplasma-like prokaryotes, but no archaea were isolated from the two sites. qPCR generated semiquantitative data for genera of some of the iron-oxidizing acidophiles isolated and/or detected, suggesting the order of abundance was Leptospirillum > Ferroplasma > Acidithiobacillus (Balya AMD) and Ferroplasma > Leptospirillum > Acidithiobacillus (Çan AMD).

Sequential treatment of olive oil mill wastewater with adsorption and biological and photo-Fenton oxidation.

Olive oil mill wastewater (OMWW), a recalcitrant pollutant, has features including high phenolic content and dark color; thereby, several chemical or physical treatments or biological processes were not able to remediate it. In this study, the treatment efficiencies of three treatments, including adsorption, biological application, and photo-Fenton oxidation were sequentially evaluated for OMWW. Adsorption, biological treatment, and photo-Fenton caused decreasing phenolic contents of 48.69 %, 59.40 %, and 95 %, respectively. However, after three sequential treatments were performed, higher reduction percentages in phenolic (total 99 %) and organic contents (90 %) were observed. Although the studied fungus has not induced significant color reduction, photo-Fenton oxidation was considered to be an attractive solution, especially for color reduction. Besides, toxicity of OMWW treatment was significantly reduced.

Biosorption of acidic textile dyestuffs from aqueous solution by Paecilomyces sp. isolated from acidic mine drainage.

Removal of textile dyestuffs from aqueous solution by biosorption onto a dead fungal biomass isolated from acidic mine drainage in the Çanakkale Region of Turkey was investigated. The fungus was found to be a promising biosorbent and identified as Paecilomyces sp. The optimal conditions for bioremediation were as follows: pH, 2.0; initial dyestuff concentration, 50 mg l(-1) for Reactive Yellow 85 and Reactive Orange 12, and 75 mg l(-1) for Reactive Black 8; biomass dosage, 2 g l(-1) for Reactive Yellow 85, 3 g l(-1) for Reactive Orange 12, 4 g l(-1) for Reactive Black 8; temperature, 25 °C; and agitation rate, 100 rpm. Zeta potential measurements indicated an electrostatic interaction between the binding sites and dye anions. Fourier transform infrared spectroscopy showed that amine, hydroxyl, carbonyl, and amide bonds were involved in the dyestuff biosorption. A toxicity investigation was also carried out before and after the biosorption process. These results showed that the toxicities for the reactive dyestuffs in aqueous solutions after biosorption studies decreased. The Freundlich and Langmuir adsorption models were used for the mathematical description of the biosorption equilibrium, and isotherm constants were evaluated for each dyestuff. Equilibrium data of biosorption of RY85 and RO12 dyestuffs fitted well to both models at the studied concentration and temperature.

Decolorization potential of some reactive dyes with crude laccase and laccase-mediated system.

In this study, decolorization of dyestuffs, such as Reactive Red 198, Rem Blue RR, Dylon Navy 17, Rem Red RR, and Rem Yellow RR was studied using laccase and laccase-mediated system. The laccases are known to have an important potential for remediation of pollutants. Among these dyestuffs, decolorization of Rem Blue RR and Dylon Navy 17 was performed with crude laccase under optimized conditions. Vanillin was selected as laccase mediator after screening six different compounds with Rem Yellow RR, Reactive Red 198, and Rem Red RR as substrates. However, Rem Yellow RR was not decolorized by either laccase or laccase-mediated system. It is observed that the culture supernatant contained high laccase activity after treatment with catalase that was responsible for the decolorization. Besides, culture supernatant with high laccase activity as enzyme source was treated with catalase; in this way, the hypothesis that laccase was the enzyme responsible for decolorization was supported. The Rem Blue RR was decolorized with 64.84% under the optimum conditions and Dylon Navy 17 with 75.43% with crude laccase. However, using the laccase and vanillin, the decolorization of Reactive Red 198 and Rem Red RR was found to be 62% and 68%, respectively. Our study demonstrated that the decolorization abilities of laccase and/or laccase mediator systems were based on the types of mediator, the dye structure, and the standard experimental conditions. Also, the electrochemical behaviors of some samples were studied. The redox potentials of these samples were determined using cyclic voltammetry on glassy carbon electrode in phosphate buffer (pH 6) solution.