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The motif EXEXXXL in the cytosolic tail of the secretory human proprotein convertase PC7 regulates its trafficking and cleavage activity
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In vitro Culture and Bulblets Induction of Asiatic Hybrid Lily ‘Red Alert’
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Protective effect of Aronia melanocarpa polyphenols against cadmium-induced disorders in bone metabolism: A study in a rat model of lifetime human exposure to this heavy metal
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Molecular basis of lipopolysaccharide heterogeneity in Escherichia coli: envelope stress-responsive regulators control the incorporation of glycoforms with a third 3-deoxy-α-D-manno-oct-2-ulosonic acid and rhamnose.
PublikacjaMass spectrometric analyses of lipopolysaccharide (LPS) from isogenic Escherichia coli strains with nonpolar mutations in the waa locus or overexpression of their cognate genes revealed that waaZ and waaS are the structural genes required for the incorporation of the third 3-deoxy-α-D-manno-oct-2-ulosonic acid (Kdo) linked to Kdo disaccharide and rhamnose, respectively. The incorporation of rhamnose requires prior sequential incorporation...
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Multiple transcriptional factors regulate transcription of the rpoE gene in Escherichia coli under different growth conditions and when the lipopolysaccharide biosynthesis is defective.
PublikacjaThe RpoE sigma factor is essential for the viability of Escherichia coli. RpoE regulates extracytoplasmic functions including lipopolysaccharide (LPS) translocation and some of its non-stoichiometric modifications. Transcription of the rpoE gene is positively autoregulated by EσE and by unknown mechanisms that control the expression of its distally located promoter(s). Mapping of 5′ ends of rpoE mRNA identified five new transcriptional...
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Molecular and structural basis of inner core lipopolysaccharide alterations in Escherichia coli: incorporation of glucuronic acid and phosphoethanolamine in the heptose region.
PublikacjaIt is well established that lipopolysaccharide (LPS) often carries nonstoichiometric substitutions in lipid A and in the inner core. In this work, the molecular basis of inner core alterations and their physiological significance are addressed. A new inner core modification of LPS is described, which arises due to the addition of glucuronic acid on the third heptose with a concomitant loss of phosphate on the second heptose. This...
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Assembly of Lipopolysaccharide in Escherichia coli Requires the Essential LapB Heat Shock Protein
PublikacjaHere, we describe two new heat shock proteins involved in the assembly of LPS in Escherichia coli, LapA and LapB (lipopolysaccharide assembly protein A and B). lapB mutants were identified based on an increased envelope stress response. Envelope stress responsive pathways control key steps in LPS biogenesis and respond to defects in the LPS assembly. Accordingly, the LPS content in ΔlapB or Δ(lapA lapB) mutants was elevated, with...
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Role of the disulfide bond in stabilizing and folding of the fimbrial protein DraE from uropathogenic Escherichia coli
PublikacjaDr fimbriae are homopolymeric adhesive organelles of uropathogenic Escherichia coli composed of DraE subunits, responsible for the attachment to host cells. These structures are characterized by enormously high stability resulting from the structural properties of an Ig-like fold of DraE. One feature of DraE and other fimbrial subunits that makes them peculiar among Ig-like domain-containing proteins is a conserved disulfide bond...
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Monitoring of lysozyme thermal denaturation by volumetric measurements and nanoDSF technique in the presence of N-butylurea
PublikacjaThe results of thermal studies of denaturation of hen egg white lysozyme (HEWL) in water and an aqueous solution of N-butylurea (BU) are presented. High-precision densimetric measurements were used to characterize and analyze the changes of the specific volume, v, during temperature elevation. The temperature of the midpoint of protein denaturation was also determined by nanoDSF technique (differential scanning fluorimetry). The...
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Interaction of the conserved region 4.2 of sigma(E) with the RseA anti-sigma factor
PublikacjaEo-E RNA polymerase transcribes a regulon of folding factors for the bacterial envelope and is induced by physical and chemical stresses. The RseA anti-sigma factor inhibits the activity of Esigma(E) RNA, polymerase. It is shown here that the N-terminal portion of sigma(E), residues 1-153, binds core RNA polymerase. RseA interacts with residues 154-191 of sigma(E), a site that is homologous to region 4, the sigma factor binding...
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Escherichia coli K-12 suppressor-free mutants lacking early glycosyltransferases and late acyltransferases. Minimal lipopolysaccharide structure and induction of envelope stress response.
PublikacjaTo elucidate the minimal lipopolysaccharide (LPS) structure needed for the viability of Escherichia coli, suppressor-free strains lacking either the 3-deoxy-d-manno-oct-2-ulosonic acid transferase waaA gene or derivatives of the heptosyltransferase I waaC deletion with lack of one or all late acyltransferases (lpxL/M/P) and/or various outer membrane biogenesis factors were constructed. Δ(waaC lpxL lpxM lpxP) and waaA mutants exhibited...
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Fatty acyl benzamido antibacterials based on inhibition of DnaK-catalyzed protein folding
PublikacjaWe have reported that the hsp70 chaperone DnaK from Escherichia coli might assist protein folding by catalyzing the cis/trans isomerization of secondary amide peptide bonds in unfolded or partially folded proteins. In this study a series of fatty acylated benzamido inhibitors of the cis/trans isomerase activity of DnaK was developed and tested for antibacterial effects in E. coli MC4100 cells. Nα-[Tetradecanoyl-(4-aminomethylbenzoyl)]-l-asparagine...
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Butyrylcholinesterase signal sequence self-aggregates and enhances amyloid fibril formation in vitro
PublikacjaAlzheimer’s disease (AD) pathogenesis has been attributed to extracellular aggregates of amyloid β (Aβ) plaques and neurofibrillary tangles in the human brain. It has been reported that butyrylcholinesterase (BChE) also accumulates in the brain Aβ plaques in AD. We have previously found that the BChE substitution in 5′UTR caused an in-frame N-terminal extension of 41 amino acids of the BChE signal peptide. The resultant variant...
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A novel nucleotide found in human erythrocytes, 4-pyridone-3-carboxamide-1-beta-D-ribonucleoside triphosphate
PublikacjaZidentyfikowano nowy, nieznany nukleotyd, występujący w erytrocytach osób chorych na przewlekłą niewydolność nerek, w stężeniu porównywalnym do zawartości ATP. Nukleotyd ten wyizolowano chromatograficznie, a jego strukturę określono jako trójfosforan 4-piridono-3-karboksyamido-1-b-D-rybonukleozydu, na podstawie danych spektralnych UV, MS, IR i NMR.
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Green porous benzamide-like nanomembranes for hazardous cations detection, separation, and concentration adjustment
PublikacjaGreen biomaterials play a crucial role in the diagnosis and treatment of diseases as well as health-related problem-solving. Typically, biocompatibility, biodegradability, and mechanical strength are requirements centered on biomaterial engineering. However, in-hospital therapeutics require an elaborated synthesis of hybrid and complex nanomaterials capable of mimicking cellular behavior. Accumulation of hazardous cations like...
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Mine counter vehicles for Baltic navy. W: [CD-ROM] Conference proceedings. UDT EUROPE 2002. Undersea Defence Technology Conference and Exhibition. La Spezia, Italy, 18-20 June 2002. Classified Conference, La Spezia, Italy, 21 June 2002 [B.m.w.]**2002 [6 s. 3 rys.]. Pojazdy przeciwminowe dla marynarki dzialającej na Bałtyku.
PublikacjaW opracowaniu omówiono przeciwminowe systemy opracowane przez PolitechnikęGdańską dla potrzeb Marynarki Wojennej RP. Przedstawiono podstawowe wymaga-nia rozwiązań konstrukcyjnych i zasady użycia.
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Transcriptomic landscape of blood platelets in healthy donors
PublikacjaBlood platelet RNA-sequencing is increasingly used among the scientific community. Aberrant platelet transcriptome is common in cancer or cardiovascular disease, but reference data on platelet RNA content in healthy individuals are scarce and merit complex investigation. We sought to explore the dynamics of platelet transcriptome. Datasets from 204 healthy donors were used for the analysis of splice variants, particularly with...
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A BODIPY‐Based Molecular Rotor in Giant Unilamellar Vesicles: A Case Study by Polarization‐Resolved Time‐Resolved Emission and Transient Absorption Spectroscopy
PublikacjaBODIPY and BODIPY-derived systems are widely applied as fluorophores and as probes for viscosity detection in solvents and biological media. Their orientational and rotational dynamics in biological media are thus of vital mechanistic importance and extensively investigated. In this contribution, polarization-resolved confocal microscopy is used to determine the orientation of an amphiphilic BODIPY-cholesterol derivative in homogeneous...
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Olfactory receptor-based biosensors as potential future tools in medical diagnosis
PublikacjaThe detection of biomarkers is the future of non-invasive medical diagnosis and screening. Discovery and identification of reliable disease specific volatile organic compounds is dependent on repeatable, accurate analysis of trace level gaseous analytes mainly in breath samples. Natural variety of the olfactory systems and the compounds capable of gas molecules binding creates wide possibilities of acquisition and implementation...
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Electrochemical Characterization of Gelatine Derived Ceramics
PublikacjaNew materials obtained by pyrolysis of gelatine (G) and poly(1,2-dimethylsilazane) (PSN) (weight ratio: G/PSN 70/30) at temperatures 700 and 900 °C were characterized by SEM and Raman spectroscopy. The presence of ceramics influences on the cluster size of the materials. Electrochemical tests were performed by cyclic voltammetry and galvanostatic cyclic polarization. The capacity of G/PSN was 464 and 527 mAh/g for materials pyrolysed...
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The Method of a Two-Level Text-Meaning Similarity Approximation of the Customers’ Opinions
PublikacjaThe method of two-level text-meaning similarity approximation, consisting in the implementation of the classification of the stages of text opinions of customers and identifying their rank quality level was developed. Proposed and proved the significance of major hypotheses, put as the basis of the developed methodology, notably about the significance of suggestions about the existence of analogies between mathematical bases of...
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Chemometrics approaches to green analytical chemistry procedure development
PublikacjaChemometric tools are widely used in analytical chemistry for the reduction of data dimensionality, grouping of variables and processing of analytical signals. They have also the potential to be applied in analytical procedure development with the aim of minimizing the procedure’s environmental impact. The design of experiment gives the possibility to obtain much better information on the system response than in case of “changing...
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Use of ICT infrastructure for teaching HPC
PublikacjaIn this paper we look at modern ICT infrastructure as well as curriculum used for conducting a contemporary course on high performance computing taught over several years at the Faculty of Electronics Telecommunications and Informatics, Gdansk University of Technology, Poland. We describe the infrastructure in the context of teaching parallel programming at the cluster level using MPI, node level using OpenMP and CUDA. We present...
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Management of Textual Data at Conceptual Level
PublikacjaThe article presents the approach to the management of a large repository of documents at conceptual level. We describe our approach to representing Wikipedia articles using their categories. The representation has been used to construct groups of similar articles. Proposed approach has been implemented in prototype system that allows to organize articles that are search results for a given query. Constructed clusters allow to...
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Molecular Dynamics to Predict Cryo-EM: Capturing Transitions and Short-Lived Conformational States of Biomolecules
PublikacjaSingle-particle cryogenic electron microscopy (cryo-EM) has revolutionized the field of the structural biology, providing an access to the atomic resolution structures of large biomolecular complexes in their near-native environment. Today’s cryo-EM maps can frequently reach the atomic-level resolution, while often containing a range of resolutions, with conformationally variable regions obtained at 6 Å or worse. Low resolution...
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Supervisory Control System for Adaptive Phase and Work Cycle Management of Sequencing Wastewater Treatment Plant
PublikacjaThe paper presents the design of the integrated control system applied to Sequencing Batch Reactor (SBR) in a biological Wastewater Treatment Plant (WWTP) in Swarzewo, which operates under activated sludge technology. Based on the real data records, ASM2d biological processes model and aeration system model, hierarchical control system for dissolved oxygen tracking and cycle management is designed. Internal Model Controller (IMC)...
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Characteristics of odors emitted from municipal wastewater treatment plant and methods for their identification and deodorization techniques
PublikacjaOdors emitted from municipal wastewater treatment plants belong to a group of pollutants, which is the main cause of people complaining about atmospheric air quality. The limitation of emissions of unpleasant odors generated by wastewater treatment plants by using appropriate deodorization methods is omitted on numerous occasions. This can have a negative inflence on public trust and the quality of atmospheric air. The article...
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The innovative exploitation of Brassica vegetables in the health quality food production chain
PublikacjaIn this overview the multidirectional opportunities of innovative exploitation of chemical and biological properties of vegetables from Brassiceae family are discussed. The specific chemical composition of brassicas, as regard both nutrients and non-nutrients, renders them particularly suitable for the health food production chain, literally from field to fork. the ability of these plants to accumulate heavy metals may be utilised...
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The innovative Exploitation of Brassica Vegetables in the Health Quality Food Production Chain
PublikacjaIn this overview the multidirectional opportunities of innovative exploitation of chemical and biological properties of vegetables from Brassiceae family are discussed. The specific chemical composition of brassicas, as regard both nutrients and non-nutrients, renders them particularly suitable for the health food production chain, literally from field to fork. the ability of these plants to accumulate heavy metals may be utilised...
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Haemocompatibility Of Non-Functionalized And Plasmachemical Functionalized Detonation Nanodiamond Particles
PublikacjaThe purpose of this paper is to present the innovative design of microwave plasma system for modification of detonation nanodiamond particles (DNP) using a special rotating drum placed inside the reactor. Nanodiamond particles manufactured by detonation method reveal the biological activity depending on surface functionalization. Plasmachemical modification of detonation nanodiamond particles gives the possibility of controlling...
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A state of the art review on the use of fungi in biofiltration to remove volatile hydrophobic pollutants
PublikacjaThe physical/chemical abatement of gas pollutants creates many technical problems, is costly and entails significant environmental impacts. Biological purification of off-gases is a cheap and ecologically safe way of neutralization of gas pollutants. Despite the recent advances, the main technological challenge nowadays is the purification of volatile organic compounds (VOCs) of hydrophobic character due to their low solubility...
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Analytical Strategies and Applications in Lipidomics
PublikacjaLipidomics is a field of study aiming at a comprehensive analysis of a set of lipids in biological systems. This includes both quantitative and qualitative characterization of lipid profiles, comparative studies of lipidomes, and analysis of lipid-protein interactions. Lipids are structurally diversified that make their analysis a challenging task. The constant advances in analytical technologies, especially in the field of high-performance...
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Structural changes of bacterial cellulose due to incubation in conditions simulating human plasma in the presence of selected pathogens
PublikacjaBacterial nanocellulose (BNC) is a natural biomaterial with a wide range of medical applications. However, it cannot be used as a biological implant of the circulatory system without checking whether it is biodegradable under human plasma conditions. This work aimed to investigate the BNC biodegradation by selected pathogens under conditions simulating human plasma. The BNC was incubated in simulated biological fluids with or...
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DATABASE AND BIGDATA PROCESSING SYSTEM FOR ANALYSIS OF AIS MESSAGES IN THE NETBALTIC RESEARCH PROJECT
PublikacjaA specialized database and a software tool for graphical and numerical presentation of maritime measurement results has been designed and implemented as part of the research conducted under the netBaltic project (Internet over the Baltic Sea – the implementation of a multi-system, self-organizing broadband communications network over the sea for enhancing navigation safety through the development of e-navigation services.) The...
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Processing of Satellite Data in the Cloud
PublikacjaThe dynamic development of digital technologies, especially those dedicated to devices generating large data streams, such as all kinds of measurement equipment (temperature and humidity sensors, cameras, radio-telescopes and satellites – Internet of Things) enables more in-depth analysis of the surrounding reality, including better understanding of various natural phenomenon, starting from atomic level reactions, through macroscopic...
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Shoreline Extraction Based on LiDAR Data Obtained Using an USV
PublikacjaThis article explores the use of Light Detection And Ranging (LiDAR) derived point clouds to extract the shoreline of the Lake Kłodno (Poland), based on their geometry properties. The data collection was performed using the Velodyne VLP‐16 laser scanner, which was mounted on the HydroDron Unmanned Surface Vehicle (USV). A modified version of the shoreline extraction method proposed by Xu et al. was employed, comprising of the following...
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Tribological Properties of Thermoplastic Materials Formed by 3D Printing by FDM Process
PublikacjaThe dataset entitled 3D printed ABS thermoplastic vs. steel. Dry sliding wear test in constant load & velocity ring on flat configuration. Test parameters: print layer thickness and orientation. Test symbol: 019_h_4 contains: the time base (expressed in seconds and minutes), the friction torque for sliding friction, rotational velocity of the counter – specimen (velocity of sliding), friction coefficient, load in the friction contact...
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Theoretical Organic Rankine Cycle efficiency depending on different thermodynamic work variables.
PublikacjaOne of promising technologies of utilizing low- temperature waste heat is through ORC (Organic Rankine Cycle) system implementation. A primary objective in designing in-stallations based on such systems is to maximize the installation's work efficiency. On the other hand, ecological factors are commonly considered a natural barrier in introducing new, often very expensive technologies. Ecological effect of a potential modernization...
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Analysis and evaluation of grouping methods for effective cutting tool operation
PublikacjaThis article presents the possibilities for using cluster analysis in the assignment of machine tools in automated manufacturing systems. Based on the similarity of manufacturing processes in the system, cutting tools have been grouped. The objective was to obtain groups of similar objects, which could potentially ensure the reduction of the frequency and time of setups, optimizing the maintenance of tool resources and improving...
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Persistent organic pollutants (POPs) as an indicator of surface water quality in the vicinity of the Polish Polar Station, Horsund
PublikacjaSurface waters were collected in the vicinity of the Polish Polar Station in Hornsund (Svalbard) to determine their concentration of various persistent organic pollutants (POPs), such as polycyclic aromatic hydrocarbons (PAHs) and polychlorinated biphenyls (PCBs). In addition, parameters such as pH, SEC and TOC were measured. In total, 15 samples of lake water from and 15 samples of stream water were analysed. The sampling took...
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A Fail-Safe NVRAM Based Mechanism for Efficient Creation and Recovery of Data Copies in Parallel MPI Applications
PublikacjaThe paper presents a fail-safe NVRAM based mechanism for creation and recovery of data copies during parallel MPI application runtime. Specifically, we target a cluster environment in which each node has an NVRAM installed in it. Our previously developed extension to the MPI I/O API can take advantage of NVRAM regions in order to provide an NVRAM based cache like mechanism to significantly speed up I/O operations and allow to preload...
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HMSE: A tool for coupling MODFLOW and HYDRUS-1D computer programs
PublikacjaA new software HMSE has been developed to facilitate external coupling between two well-known programs for subsurface flow modeling: MODFLOW-2005 (saturated zone flow) and HYDRUS-1D (unsaturated zone flow). Two coupling schemes have been implemented. In the first case the groundwater recharge flux is calculated by HYDRUS-1D assuming a fixed water table position and then passed to MODFLOW input files. In the second case the water...
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The investment risk forecasting in a local energy market
PublikacjaThe paper considers the general problems faced when evaluating the risk of investing in a local energy market by computer tools. The proposal formulated for the emerging local energy markets suggests broadening the method of evaluating investment risk so as to include elements of cluster analysis. The paper also discusses the significance of estimating investment risk in market terms and the importance and range of the local energy...
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Analytical methods for exhaustive characterization of Brassica plants and dietary products based on them
PublikacjaGlucosinolates (GLs), and particularly two classes of their degradation products - isothiocyanates (ITC) and indoles - released upon myrosinase catalyzed hydrolysis, belong to the most promising chemopreventive dietary components. Despite their wide use in plant research, studies on chemopreventive mechanisms and industrial utilization in the production of e.g. dietary supplements, the methods of reliable characterization of myrosinase-GLs...
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Microstructure and residual stresses in surface coatings with PTFE reservoirs
PublikacjaThe paper presents the results of experimental study into the microstructure and changes in residual stresses resulting from sliding and rolling/sliding loaded interaction between metallic surface coatings with embedded PTFE reservoirs and various counter faces. It was found that before testing surface coatings had compressive residual stresses. Molybdenum coating with all types of PTFE reservoirs displayed, as a result of testing,...
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Analysis of MArkers of Exposure to Constituents of Environmental Tobacco Smoke (ETS)
PublikacjaTobacco smoke is a complex mixture of more than 4000 chemical compounds, many of which are harmful to human health. These compounds belong to various chemical classes, including amides, imides, lactams, carboxylic acids, aldehydes, ketones, alcohols, phenols, amines, hydrocarbons, ethers, and inorganic compounds. There are three types of tobacco smoke streams: the mainstream, the sidestream, and environmental tobacco smoke (ETS)....
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Fractionation and origin of dissolved and colloidal organic nitrogen in BNR plant effluent
PublikacjaThe characteristics of effluent dissolved and colloidal organic nitrogen (DON and CON) as well as their origin, fate and biodegradability in wastewater treatment plants and receiving waters were identified as the major issues that limit the ability to achieve low total N in the effluent. This study presents the results of a comprehensive survey, which was conducted in eight biological nutrient removal (BNR) WWTPs in northern Poland....
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Localization and Orientation of Xanthophylls in a Lipid Bilayer
PublikacjaXanthophylls (polar carotenoids) play diverse biological roles, among which are modulation of the physical properties of lipid membranes and protection of biomembranes against oxidative damage. Molecular mechanisms underlying these functions are intimately related to the localization and orientation of xanthophyll molecules in lipid membranes. In the present work, we address the problem of localization and orientation of two xanthophylls...
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Cannabinoids: Challenges, opportunities and current techniques towards its extraction and purification for edibles
PublikacjaDue to the multiple health benefits associated with the consumption of cannabinoids, there is a current trend on continuing to explore their biological properties. Cannabidiol (CBD) is likely to be the most investigated endocannabinoid from the cannabis plant. Unfortunately, the purification of CBD from its natural source and psychotropic analogue (tetrahydrocannabinol, THC) is timely challenging for the research community based...
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Application of 3D- printed hydrogels in wound healing and regenerative medicine
PublikacjaHydrogels are three-dimensional polymer networks with hydrophilic properties. The modifiable properties of hydrogels and the structure resembling living tissue allow their versatile application. Therefore, increasing attention is focused on the use of hydrogels as bioinks for three-dimensional (3D) printing in tissue engineering. Bioprinting involves the fabrication of complex structures from several types of materials, cells,...