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Inulin Improves the Redox Response in Rats Fed a Diet Containing Recommended Copper Nanoparticle (CuNPs) Levels, While Pectin or Psyllium in Rats Receive Excessive CuNPs Levels in the Diet
No full textThe study aimed to determine the effect of dietary inclusion of the recommended (6.5 mg Cu/kg diet) or double the recommended (13.0 mg Cu/kg diet) levels of copper nanoparticles (CuNPs) in combination with different types of dietary fibre on selected redox status indicators in the blood and tissues of male Wistar rats. Control groups were fed diets containing cellulose and a mineral mixture with standard or enhanced content of CuCO3. The experimental groups were fed a diet supplemented with CuNPs (6.5 or 13 mg/kg) and combined with various fibre types—cellulose, pectin, inulin, or psyllium. After the feeding period, rats’ organs were collected to assess selected indicators of redox status. The obtained results suggest that the addition of dietary fibre in the form of inulin may beneficially stimulate the response of the redox system in the conditions of CuNPs nutrition at the recommended dose, pectin, or psyllium in the case of an excessive supply of CuNPs in the diet. Thus, selecting the appropriate type of dietary fibre based on the CuNPs’ level in the diet may effectively protect the organism from the potentially harmful prooxidative effect of CuNPs, ultimately contributing to a favourable regulation of their metabolic impact in the body.</p
Natural protein variants in the saliva of patients with Warthin's tumor
No full textNatural protein variants in the saliva of patients with Warthin's tumorWarthin's tumor, also known as papillary cystadenoma lymphomatosum, is one of the most common types of salivary gland (SG) tumors. Although it is generally accepted that the most common type of SG tumor is a mixed tumor (pleomorphic adenoma), research indicates that Warthin's tumors are increasingly becoming the predominant type. Therefore, a better understanding of these tumors seems to be a promising and important research topic.The classical approach to the diagnosis of SG cancers is based on imaging techniques and fine needle biopsy, followed by histopathological analysis of the removed tumors. The use of saliva as a diagnostic material remains unexplored, although it allows non-invasive testing for the patient.In the present study, we performed proteomic analysis of saliva samples collected from patients with Warthin's tumor and control samples from healthy subjects .The results of our previous research on the proteome composition of saliva from patients with salivary gland tumors suggest the presence of certain sequence variants that may be potential markers of diagnostic significance. Previous studies were conducted on samples from different types of salivary gland tumors, while the current study focuses specifically on one type of tumor. To identify potential protein variants, we used the AliceDB database (www.alicedb.ug.edu.pl) developed in our laboratory, which allows for identification based on data from mass spectrometry measurements of canonical protein sequences (UniProt database) as well as isoforms and variants described in the literature.In the present study, we performed a proteomic analysis of saliva samples collected from patients with Warthin tumors (12 samples), patients with Mixed tumors (12 samples) and control samples from healthy individuals (12 samples). An additional aspect of the research that we decided to focus on was the analysis of naturally occurring protein variants in patient samples, as opposed to only canonical protein sequences identified in classical proteomic approaches using databases such as UniProt. For this purpose, we used AliceDB, a bioinformatics tool developed in our research group, enabling the analysis of both canonical protein sequences as well as isoforms, naturally occurring variants and mutations. </p
Oddziaływanie niezależnych archiwów społecznych - wywiady z ekspertami
No full textZbiór zawiera dane badawcze wytworzone w toku pierwszej fazy projektu pt. "Oddziaływanie niezależnych archiwów społecznych" (strona www projektu: https://impact.umk.pl/) realizowanego na Uniwersytecie Mikołaja Kopernika w Toruniu (2023-2026, kierownik: dr Magdalena Wiśniewska-Drewniak). Celem projektu jest zrozumienie społecznego i afektywnego oddziaływania niezależnych archiwów społecznych poprzez badania empiryczne oparte w szczególności na wywiadach jakościowych z osobami tworzącymi i związanymi z archiwami społecznymi.Pierwsza faza projektu, której dotyczą dane znajdujące się w tym zbiorze, polegała na budowie ramy teoretycznej i analitycznej zastosowanej w późniejszych stadiach badania. Jednym z elementów tej fazy projektu były wywiady z dwunastoma ekspertami w dziedzinie archiwistyki społeczne pochodzącymi z Polski i innych krajów. Celem wywiadów było uzupełnienie listy potencjalnych wpływów archiwów społecznych. Eksperci odpowiadali na pytania dotyczące wpływu archiwów społecznych na społeczności, które dokumentują; szeroko rozumiane społeczeństwo; archiwistów społecznych; naukę o archiwach oraz profesjonalną praktykę archiwalną.Wywiady zostały przeprowadzone przez Magdalenę Wiśniewską-Drewniak oraz Adrianę Kapałę między marcem a listopadem 2024 r.The collection contains research data produced in the course of the first phase of the project titled “Impact of independent community archives” (project website: https://impact.umk.pl/) carried out at Nicolaus Copernicus University in Toruń (2023-2026, Primary Investigator: Dr. Magdalena Wiśniewska-Drewniak). The aim of the project is to understand the social and affective impact of independent community archives through empirical research based in particular on qualitative interviews with people who create and are associated with community archives.The first phase of the project, which is addressed by the data in this collection, consisted of building the theoretical and analytical framework used in the later stages of the study. One of the components of this phase of the project was interviews with twelve experts in the field of community archives from Poland and other countries. The purpose of the interviews was to complete the list of potential influences of community archives. The experts answered questions about the impact of community archives on the communities they document; society at large; community archivists; archival science and professional archival practice. The interviews were conducted by Magdalena Wiśniewska-Drewniak and Adriana Kapała between March and November 2024.</p
BSr3 superalkali as a promising catalyst for ambient nitrogen reduction: a pathway toward efficient ammonia synthesis
No full textThe Gaussian output files containing relaxed structures of BSr3-NHxNHy (x,y=0-3) systems. The BSr3-NHxNHy (x,y=0-3) structures have been relaxed at the Perdew–Burke–Ernzerhof (PBE0) exchange-correlation hybrid functional with dispersion correction by Grimme et al., with Becke–Johnson damping (PBE0-D3) method with the Pople split-valence basis sets of triple zeta quality, 6-311++G(3df,3pd). The output files contain the final energies estimated at the coupled cluster method (CCSD) theory level and using the 6-311+G(3df,3pd) basis set for the PBE0/6-311++G(3df,3df) equilibrium geometries, i.e. CSD/6-311+G(3df,3pd)//PBE0/6-311++G(3df,3pd).</p
Ex vivo permeation of agomelatine from DLP 3D-printed pyramid microneedle systems containing a 3% AGM-drug resin mixture
No full textRaw data from ex vivo permeation test (IVPT) of agomelatine (AGM) from microneedle systems.Microneedle system specifications:3D printing method: DLPmicroneedle shape: pyramidcoating-gel type: - (no coating) 3% AGM mix within resin (served as printing material)Drug permeation studies:The permeation of agomelatine (AGM) was evaluated using Franz Diffusion Cells (Teledyne Hanson 376 Research, USA) with full-thickness human skin as the diffusion membrane. The skin was thawed in PBS at room temperature, mounted on the diffusion cells, and conditioned for 30 min. After this time the microneedle system was placed onto the chamber opening (1 cm²) with full-thickness human skin as the diffusion membrane. The study lasted for 7 days and sodium azide 0.02% w/v was added to the acceptor fluid as an antimicrobial agent. At specific time points, 0.3 mL samples were taken and analyzed using High-Performance Liquid Chromatography (HPLC). The amount of the acceptor medium taken for the analysis was immediately replaced with the fresh portion of the fluid. Six replications were performed for each formulation. After the study, the epidermis and dermis from each skin sample were separated manually using scissors and forceps and inserted in tubes with 3 mm zirconium beads (Benchmark Scientific Inc., Sayreville, NJ, USA). Next, 1 mL of water and ethanol solution (50:50 v/v) was added to each tube, and the samples were homogenized for 9 min using a BeadBug Microtube Homogenizer (Benchmark Scientific Inc., USA). Then, the samples were centrifuged for 5 min at 10,000 rpm, and the supernatant was analyzed using HPLC to examine the amount of the drug in the tissue.Quantification of AGM:The amount of AGM permeated was analyzed using High-Performance Liquid Chromatography (HPLC) (Shimadzu Nexera-I LC-2040C, Japan) with LabSolution Lite software.Chromatographic Conditions:Column: Reversed-phase C18 (HyperClone BDS C18, 5 µm, 4.6 × 250 mm, Phenomenex, Torrance, CA, USA)Column Temperature: 30.0 ± 0.2°CMobile Phase: Acetonitrile and 0.05 M potassium dihydrogen phosphate solution (pH = 2.9, adjusted with 85% orthophosphoric acid) in a 35:65 ratioMode: IsocraticFlow Rate: 1.0 mL/minDetection Wavelength: 230 nmThe set contains data in LCD/ LCB format, created using the LabSolutions software (HPLC, Nexera LC 2040C). Data file (.lcd) contains all analysis results and acquisition information from the following files. Data in .txt format can be read without the need for LabSolutions software.</p
Source data for: Top on a smooth plane
No full textWe investigate the dynamics of a sliding top that is a rigid body with an ideal sharp tip moving in a perfectly smooth horizontal plane, so no friction forces act on the body. We prove that this system is integrable only in two cases analogous to the Euler and Lagrange cases of the classical top problem. The cases with the constant gravity field with acceleration and without external field are considered. The non-integrability proof for is based on the fact that the equations of motion for the sliding top are a perturbation of the classical top equations of motion. We show that the integrability of the classical top is a necessary condition for the integrability of the sliding top. Among four integrable classical top cases, the corresponding two cases for the sliding top are also integrable, and for the two remaining cases, we prove their non-integrability by analyzing the differential Galois group of variational equations along a certain particular solution. In the absence of a constant gravitational field , the integrability is much more difficult. First, we proved that if the sliding top problem is integrable, then the body is symmetric. In the proof, we applied the Ziglin theorem concerning the splitting of separatrices phenomenon. Then, we prove the non-integrability of the symmetric sliding top using the differential Galois group of variational equations except two the same as for cases. The integrability of these cases is also preserved when we add to equations of motion a gyrostatic term.</p
Development of catalytic systems for reduction of electrochemically inert inorganic molecules: carbon dioxide and nitrogen
No full textThe data set contains a figure illustrating unique examples of electroreduction processes of both carbon dioxide and nitrogen in semi-acidic medium. Furthermore, the thermodynamic potentials characteristic of both processes mentioned above are also provided as schemes. It is noteworthy that the practical CO2 and N2 reduction potentials would be much more negative than the standard (E0) values.The review article presents overview of recent results concerning electrocatalytic reduction of CO2 and N2. There has been growing interest in environmentally friendly alternative energy sources, energy conversion, and low-temperature methods of formation of fuels or utility chemicals. In this respect, the development of catalysts for effective electroreduction of small inert inorganic molecules, such as CO2, and N2, is of primary importance.Regarding the continuously rising levels of atmospheric carbon dioxide, the development of advanced technologies permitting CO2 utilization (reduction) is highly desirable. In principle, conventional electrocatalytic and visible-light-induced photoelectrochemical approaches are well-suited for reducing carbon dioxide and, possibly, generating carbon-based fuels or chemicals. But electroreduction of CO2 requires large over-potentials and suffers from the competitive hydrogen evolution. To overcome the problems, highly specific and selective catalysts would be required to drive effective conversion (reduction) of carbon dioxide (and water) into fuels, syn-gas, or utility chemicals. For example, the Cu-intercalated WO3 nanowires have exhibited good selectivity toward CO2-reduction, relative to the competitive hydrogen evolution, even in acidic medium.The formation of ammonia is one of the most important chemical synthetic processes. In this respect, development of a low-temperature synthetic methodology is tempting from both practical and fundamental reasons. Currently, most electrochemical approaches to drive N2-fixation suffer from slow kinetics due to the difficulty of achieving the appropriate adsorption and activation of the dinitrogen molecule, leading to cleavage of the strong triple N≡N bond. We demonstrate recent approaches in this respect. For example, the coordinatively stabilized iron catalytic sites, e.g., iron-centered heme-type porphyrins or iron phosphides, Fe2P or Fe3P, (alone or metal oxide supported) could act as efficient catalysts for the formation of NH3 in alkaline and semi-neutral media.</p
Interactive effects of cyanobacterial metabolites aeruginosin-98B, anabaenopeptin-B and cylindrospermopsin on physiological parameters and novel in vivo fluorescent indicators in Chironomus aprilinus larvae
No full textInteraktywne efekty metabolitów sinic aeruginozyny-98B, anabaenopeptyny-B i cylindrospermopsyny na parametry fizjologiczne i nowe wskaźniki fluorescencyjne in vivo u larw Chironomus aprilinus</p
Experimental data for sedimenting rigid particles of certain shapes approaching a stationary orientation
No full textExperimental data used in the manuscript "Sedimenting rigid particles of certain shapes approach a stationary orientation" by C. Shekhar, H. N. Mirajkar, P. Zdybel, Y. Melikhov and M. L. Ekiel-Jeżewska (submitted to J. Fluid Mech.). Seven types of millimeter-sized rigid particles with two orthogonal symmetry planes were used in the experiments, with the following shapes: cone (C), crescent moon (M), arrowhead (A), rings with the 1 mm (R1), 2 mm (R2), 3 mm (R3), and 4 mm (R4) openings. The particles were provided by Koniarscy S. C., Poland (the product codes: for crescent moons 13014 5, for cones 12973 8, for arrowheads KAHE106, for rings SMKSC0506C; the rings were opened manually).The particles were settling in the tank filled with silicon oil at a Reynolds number much smaller than unity. We used three types of initial orientations of the particles when released at the fluid surface: inverted (I), stationary (S), and inclined (IN). In the repository, the evolution of the shape orientation and of the center position are shown for 138 experimental trials.For each trial, we present the superposition of a sequence of the processed images recorded by two cameras placed perpendicularly to the front and side of the tank, separated by the same time interval. The names of the files contain the name of the particle according to the abbreviations presented above, the initial orientation, and the label of the trial. The number and labels of experimental trials with the stationary, selected inverted and selected inclined orientations are listed in a separate file.In the manuscript, the following trials were shown:C_I_T2, A_I_T2, M_I_T2, R1_I_T4, R2_I_T5, R3_I_T3, R4_I_T3 (Figures 4, 5, 6, 7);A_IN_T4, R1_IN_T3 (Figure 8);M_I_T0, R1_I_T3, R4_IN_T6 (Figure 12).</ul
Polarization spontaneous/piezo and polar surfaces: fundamentals and their implementation in ab initio calculations
No full textFiles can be viewed by free Origin Viewer software.Files contain numerical data of figures from 6 to 11 in Microcal Origin 7.5 format. The data refers to the spontaneous polarization of AlN, BN, GaN, InN as well as electric fields in their heterostructures.Fig. 6. Dipole moment of the AlN wurtzite unit cell in the function of the shift of the cell along the c-axis.Fig. 7. Axial density distribution for wurtzite AlN. The distribution is plotted on the length of 3 lattice constants along: (a) 0x axis - over , (b) 0y axis - over , (c) 0z axis – over . The red points represent the DFT obtained plane averaged values, the blue line is cubic spline approximation of these data.Fig. 8. Spontaneous polarization z-component of the wurtzite nitrides: a) BN, b) AlN, c) GaN, d) InN in the unction of the number of divisions of the cell along axis: N3. The number of divisions along two other axes was .The green dashed lines are for guiding the eye only, the red line is an approximation in accordance with Eqs. 3 form original paper.Fig. 9. Spontaneous polarization y-component of wurtzite AlN in function of the number of division of the cell length along axis: N2. The number of divisions along two other axis.Fig. 10. Spontaneous polarization z-component of the zinc blende AlN in the function of the number of division of the cell length along axis: N3. The number of divisions along two other axes. The green and blue symbols denote data obtained for HSE and PBE approximations, respectively. The dashed lines are for guiding the eye, the red solid lines are approximations in accordance with Eqs 4.Fig. 11. Averaged electric potential profiles along axis in wurtzite superlattice vs. distance measured in metal atomic layers (AL) determined for structures with 8 AL for both the well and the barrier thicknesses (i.e. ) : (a) AlN/GaN , (b) GaN/InN; (c) BN/AlN; (d) AlN/InN. Green and blue lines correspond to larger/smaller lattice parameters (i.e. fractionally strained/compressed), respectively. Red lines represent linear slopes of the potential, i.e. electric fields.</p
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