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Development and Assessment of Regeneration Methods for Peptide-Based QCM Biosensors in VOCs Analysis Applications
PublikacjaCleaning a quartz crystal microbalance (QCM) plays a crucial role in the regeneration of its biosensors for reuse. Imprecise removal of a receptor layer from a transducer’s surface can lead to unsteady operation during measurements. This article compares three approaches to regeneration of the piezoelectric transducers using the electrochemical, oxygen plasma and Piranha solution methods. Optimization of the cleaning method allowed...
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Mixed integer nonlinear optimization of biological processes in wastewater sequencing batch reactor
PublikacjaWastewater treatment plays a key role for humanity. The waste entering lakes, rivers, and seas deteriorates daily quality of life. Therefore, it is very important to improve the efficiency of wastewater treatment. From a control point of view, a biological wastewater treatment plant is a complex, non-linear, multidimensional, hybrid control system. The paper presents the design of the optimizing hierarchical control system applied...
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Novel application of terminal restriction fragments length polymorphism method (t-RFLP) for identification of six clinically important Candida sp.
PublikacjaTerminal restriction fragments length polymorphism method (t-RFLP) is a modified classical RFLP method. The main difference is based on carrying out PCR using a fluorescently labeled primer or primers. The result of such modification is that after digestion of amplicons only terminal fragments of PCR product (containing fluorescent dye) are visualized. T-RFLP method has found application in environmental microbiology and epidemiology....
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Intercalation complex of imidazoacridinone C-1311, a potential anticancer drug, with DNA helix d(CGATCG)2: stereostructural studies by 2D NMR spectroscopy.
PublikacjaImidazoacridinone C-1311 (Symadex®) is a powerful antitumor agent, which successfully made its way through the Phase I clinical trials and has been recommended for Phase II few a years ago. It has been shown experimentally that during the initial stage of its action C-1311 forms a relatively stable intercalation complex with DNA, yet it has shown no base-sequence specificity while binding to DNA. In this paper, the d(CGATCG)2:C-1311...
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Image Classification Based on Video Segments
PublikacjaIn the dissertation a new method for improving the quality of classifications of images in video streams has been proposed and analyzed. In multiple fields concerning such a classification, the proposed algorithms focus on the analysis of single frames. This class of algorithms has been named OFA (One Frame Analyzed).In the dissertation, small segments of the video are considered and each image is analyzed in the context of its...
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Coupling of Blood Pressure and Subarachnoid Space Oscillations at Cardiac Frequency Evoked by Handgrip and Cold Tests: A Bispectral Analysis
PublikacjaThe aim of the study was to assess blood pressure–subarachnoid space (BP–SAS) width coupling properties using time–frequency bispectral analysis based on wavelet transforms during handgrip and cold tests. The experiments were performed on a group of 16 healthy subjects (F/M; 7/9) of the mean age 27.2 ± 6.8 years and body mass index of 23.8 ± 4.1 kg/m². The sequence of challenges was first handgrip and then cold test. The handgrip...
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A highly thermostable, homodimeric single-stranded DNA-binding protein from Deinococcus radiopugnans
PublikacjaWe report the identification and characterization of the single-stranded DNA-binding protein (SSB) from the mesophile and highly radiation-resistant Deinococcus radiopugnans (DrpSSB). PCR-derived DNA fragment containing the complete structural gene for DrpSSB protein was cloned and expressed in Escherichia coli. The gene consisting of an open reading frame of 900 nucleotides encodes a protein of 300 amino acids with a calculated...
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3D Object Shape Reconstruction from Underwater Multibeam Data and Over Ground Lidar Scanning
PublikacjaThe technologies of sonar and laser scanning are an efficient and widely used source of spatial information with regards to underwater and over ground environment respectively. The measurement data are usually available in the form of groups of separate points located irregularly in three-dimensional space, known as point clouds. This data model has known disadvantages, therefore in many applications a different form of representation,...
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Human verbal memory encoding is hierarchically distributed in a continuous processing stream
PublikacjaProcessing of memory is supported by coordinated activity in a network of sensory, association, and motor brain regions. It remains a major challenge to determine where memory is encoded for later retrieval. Here we used direct intracranial brain recordings from epilepsy patients performing free recall tasks to determine the temporal pattern and anatomical distribution of verbal memory encoding across the entire human cortex. High...
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Import Intensity of Production, Tasks and Wages: Microlevel Evidence for Poland.
PublikacjaObjective: This article relates to recent literature on labour market consequences of production fragmentation within Global Value Chains, analysed in the presence of workers’ heterogeneity and differences in the task content of jobs. The main aim is to assess if there is a relationship between wages of Polish workers and the degree of Polish production dependence on imported inputs. Research Design & Methods: Using microdata from...
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Reliability of nitrogen removal processes in multistage treatment wetlands receiving high-strength wastewater
Publikacjareatment wetlands have been proved to be more effective than conventional treatment processes in case of high-strength wastewater containing high concentrations of ammonium nitrogen and recalcitrant organic matter. In this study nitrogen removal processes and reliability of nitrogen removal at two identical pilot-scale multistage treatment wetlands (MTWs) receiving real, non-synthetic wastewater were discussed. The wastewater discharged...
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PTD4 Peptide Increases Neural Viability in an In Vitro Model of Acute Ischemic Stroke
PublikacjaIschemic stroke is a disturbance in cerebral blood flow caused by brain tissue ischemia and hypoxia. We optimized a multifactorial in vitro model of acute ischemic stroke using rat primary neural cultures. This model was exploited to investigate the pro-viable activity of cell-penetrating peptides: arginine-rich Tat(49–57)-NH2 (R49KKRRQRRR57-amide) and its less basic analogue, PTD4 (Y47ARAAARQARA57-amide). Our model included glucose...
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Micro-cracking pattern recognition of hybrid CNTs/GNPs cement pastes under three-point bending loading using acoustic emission technique
PublikacjaThe generation of microcracks has an important influence on the behaviour of concrete structures. In this study, the acoustic emission (AE) technique was used to investigate the fracture phenomena and micro-cracking behavior of hybrid carbon nanotubes (CNTs, the 1-D allotrope of carbon atoms) and graphene nanoplatelets (GNPs, 2D monolayer of sp2-hybridized carbon atoms), cement composites under three-point bending loading. In...
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Towards a modification of a regulatory framework aiming at bunker oil spill prevention from ships - A design aspect of bunker tanks vents location guided by CFD simulations
PublikacjaAlthough accidental bunker oil spills at seaway are relatively rare events, they can be pose real threat to the natural marine environment. One of the reasons for the bunker spill to occur is a design failure; one of the ways it can demonstrate is an improper location or height of vent heads, leading to a bunker oil discharge during heavy rolling, due to sloshing phenomenon. Design of a ship and her systems is guided by various...
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Potential Skyrmion Host Fe(IO3)3: Connecting Stereoactive Lone-Pair Electron Effects to the Dzyaloshinskii-Moriya Interaction
PublikacjaMagnetic skyrmions, which are topologically distinct magnetic spin textures, are gaining increased attention for their unique physical properties and potential applications in spintronic devices. Here we present a design strategy for skyrmion host candidates based on combinations of magnetic spin, asymmetric building units having stereoactive lone-pair electrons, and polar lattice symmetry. To demonstrate the viability of the proposed...
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Trace Metal Contamination of Bottom Sediments: A Review of Assessment Measures and Geochemical Background Determination Methods
PublikacjaThis paper provides an overview of different methods of assessing the trace metal (TM) contamination status of sediments affected by anthropogenic interference. The geochemical background determination methods are also described. A total of 25 papers covering rivers, lakes, and retention tanks sediments in areas subjected to anthropogenic pressure from the last three years (2019, 2020, and 2021) were analysed to support our examination...
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Direct Constraint Control for EM-Based Miniaturization of Microwave Passives
PublikacjaHandling constraints imposed on physical dimensions of microwave circuits has become an important design consideration over the recent years. It is primarily fostered by the needs of emerging application areas such as 5G mobile communications, internet of things, or wearable/implantable devices. The size of conventional passive components is determined by the guided wavelength, and its reduction requires topological modifications,...
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Cost-Efficient EM-Driven Size Reduction of Antenna Structures by Multi-Fidelity Simulation Models
PublikacjaDesign of antenna systems for emerging application areas such as the Internet of Things (IoT), fifth generation wireless communications (5G), or remote sensing, is a challenging endeavor. In addition to meeting stringent performance specifications concerning electrical and field properties, the structure has to maintain small physical dimensions. The latter normally requires searching for trade-off solutions because miniaturization...
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Expedited constrained multi-objective aerodynamic shape optimization by means of physics-based surrogates
PublikacjaIn the paper, computationally efficient constrained multi-objective design optimization of transonic airfoil profiles is considered. Our methodology focuses on fixed-lift design aimed at finding the best possible trade-offs between the two objectives: minimization of the drag coefficient and maximization of the pitching moment. The algorithm presented here exploits the surrogate-based optimization principle, variable-fidelity computational...
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How to meet when you forget: log-space rendezvous in arbitrary graphs
PublikacjaTwo identical (anonymous) mobile agents start from arbitrary nodes in an a priori unknown graph and move synchronously from node to node with the goal of meeting. This rendezvous problem has been thoroughly studied, both for anonymous and for labeled agents, along with another basic task, that of exploring graphs by mobile agents. The rendezvous problem is known to be not easier than graph exploration. A well-known recent result...
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Stability Enhancement of Grid-Connected Wind Power Generation System Using PSS, SFCL and STATCOM
PublikacjaThe stability related issues may occur in a power system due to disturbances in generating or loading conditions, especially in the presence of distributed generation (DG) based on renewable energy resources (RERs). This paper proposes a novel strategy for the stability enhancement of a wind power generation system (WPGS) by using a combination of three devices, namely, a power system stabilizer (PSS), resistive superconductor...
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Real-Time PCR: molecular technique of many applications
PublikacjaReal-Time PCR is a sensitive DNA amplification technique initially applied in genetics and molecular biology. It enables in vivo copying of the selected DNA fragment (flanked by two primers) by the thermostable polymerase (in the presence of magnesium ions and deoxynucleotide triphosphates) and simultaneous measurement of the fluorescence. For one or more specific sequences in a DNA sample, real-time PCR enables both detection...
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Fragmentomic analysis of biopeptides in silico released from milk proteins
PublikacjaThe fragmentomic-assisted method was employed to predict the biological potential of peptides derived from milk proteins hydrolyzed by papain and bromelain. Firstly, protein sequences were acquired from the BIOPEP-UWM database and then hydrolyzed by the above enzymes using a BIOPEP-UWM tool called “Enzyme(s) action”. The released peptides were defined as parent peptides and further analyzed for the presence of shorter peptidic...
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Improving Accuracy of Respiratory Rate Estimation by Restoring High Resolution Features With Transformers and Recursive Convolutional Models
PublikacjaNon-contact evaluation of vital signs has been becoming increasingly important, especially in light of the COVID- 19 pandemic, which is causing the whole world to examine people’s interactions in public places at a scale never seen before. However, evaluating one’s vital signs can be a relatively complex procedure, which requires both time and physical contact between examiner and examinee. These re- quirements limit the number...
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Secure Quaternion Feistel Cipher for DICOM Images
PublikacjaAn improved and extended version of a quaternion-based lossless encryption technique for digital image and communication on medicine (DICOM) images is proposed. We highlight and address several security flaws present in the previous version of the algorithm originally proposed by Dzwonkowski et al. (2015). The newly proposed secure quater- nion Feistel cipher (S-QFC) algorithm...
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Mispronunciation Detection in Non-Native (L2) English with Uncertainty Modeling
PublikacjaA common approach to the automatic detection of mispronunciation in language learning is to recognize the phonemes produced by a student and compare it to the expected pronunciation of a native speaker. This approach makes two simplifying assumptions: a) phonemes can be recognized from speech with high accuracy, b) there is a single correct way for a sentence to be pronounced. These assumptions do not always hold, which can result...
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Design and numerical testing of 5-box gfrp shell footbridge
PublikacjaThe paper formulates new design conditions for composite footbridges, taking into account the material and structural specificity of these objects, i.e. the strength condition, the serviceability condition and the frequency condition. A GFRP composite footbridge labelled with CFB2 code has been designed, with the original superstructure in the form of an opened-closed 5-box girder. The foot and cycle track bridge is simply supported,...
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Orientation-aware ship detection via a rotation feature decoupling supported deep learning approach
PublikacjaShip imaging position plays an important role in visual navigation, and thus significant focuses have been paid to accurately extract ship imaging positions in maritime videos. Previous studies are mainly conducted in the horizontal ship detection manner from maritime image sequences. This can lead to unsatisfied ship detection performance due to that some background pixels maybe wrongly identified as ship contours. To address...
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Molecular dynamics simulations reveal the balance of forces governing the formation of a guanine tetrad—a common structural unit of G-quadruplex DNA
PublikacjaG-quadruplexes (G4) are nucleic acid conformations of guanine-rich sequences, in which guanines are arranged in the square-planar G-tetrads, stacked on one another. G4 motifs form in vivo and are implicated in regulation of such processes as gene expression and chromosome maintenance. The structure and stability of various G4 topologies were determined experimentally; however, the driving forces for their formation are not fully...
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PCR and real-time PCR assays to detect fungi of Alternaria alternata species
PublikacjaFungi of the Alternaria genus are mostly associated with allergic diseases. However, with a growing number of immunocompromised patients, these fungi, with A. alternata being the most prevalent one, are increasingly recognized as etiological agents of infections (phaeohyphomycoses) in humans. Nowadays, identification of Alternaria spp. requires their pure culture and is solely based on morphological criteria. Clinically, Alternaria...
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Evaluating the antibacterial activity of muramyl dipeptide derivatives, retro-tuftsin derivatives, and anthraquinone oligopeptides against a range of pathogenic bacteria
PublikacjaSearch for new and efficient antibiotic is crucial because of microbial drug resistance and problems with side effects of the administered medication. In this study, we evaluate the in vitro microbiological activity of muramyl dipeptide derivatives, retro-tuftsin derivatives (i.e., tuftsin with reversed amino acid sequences), and combinations of retro-tuftsin derivatives with substituted anthraquinones. The potency of the investigated...
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Specific detection of Alternaria alternata by PCR and real-time PCR
PublikacjaFungi of Alternaria genus are cosmopolitan organisms, which spores can be found in the air, soil, water, clothing and food. They commonly occur as saprotrophs on the plant remains, contributing to the decomposition of organic matter. Additionally, they are components of the normal human and animal skin flora. Alternaria spp. are also known human allergens, causing hay fever and allergic reactions that can lead to the development...
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Long Distance Vital Signs Monitoring with Person Identification for Smart Home Solutions
PublikacjaAbstract— Imaging photoplethysmography has already been proved to be successful in short distance (below 1m). However, most of the real-life use cases of measuring vital signs require the system to work at longer distances, to be both more reliable and convenient for the user. The possible scenarios that system designers must have in mind include monitoring of the vital signs of residents in nursing homes, disabled people, who...
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Data regarding a new, vector-enzymatic DNA fragment amplification-expression technology for the construction of artificial, concatemeric DNA, RNA and proteins, as well as biological effects of selected polypeptides obtained using this method
PublikacjaApplications of bioactive peptides and polypeptides are emerging in areas such as drug development and drug delivery systems. These compounds are bioactive, biocompatible and represent a wide range of chemical properties, enabling further adjustments of obtained biomaterials. However, delivering large quantities of peptide derivatives is still challenging. Several methods have been developed for the production of concatemers –...
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Accurate simulation-driven modeling and design optimization of compact microwave structures
PublikacjaCost efficient design optimization of microwave structures requires availability of fast yet reliable replacement models so that multiple evaluations of the structure at hand can be executed in reasonable timeframe. Direct utilization of full-wave electromagnetic (EM) simulations is often prohibitive. On the other hand, accurate data-driven modeling normally requires a very large number of training points and it is virtually infeasible...
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On Accelerated Metaheuristic-Based Electromagnetic-Driven Design Optimization of Antenna Structures Using Response Features
PublikacjaDevelopment of present-day antenna systems is an intricate and multi-step process requiring, among others, meticulous tuning of designable (mainly geometry) parameters. Concerning the latter, the most reliable approach is rigorous numerical optimization, which tends to be re-source-intensive in terms of computing due to involving full-wave electromagnetic (EM) simu-lations. The cost-related issues are particularly pronounced whenever...
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Polish Polar Research: Green-and-White Paper under the aegis of the Polish Polar Consortium (PPC)
PublikacjaPolar research is a colloquial term for cross-area, cross-domain and interdisciplinary research in the Arctic and Antarctic. Polar research is mainly the domain of natural sciences, but technical sciences and humanities also grow in importance. Being vulnerable to climate change, polar regions are commonly considered as a kind of litmus paper of changes in geosystems, hence the importance of research done there. It aims at a better...
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Numerical Issues and Approximated Models for the Diagnosis of Transmission Pipelines
PublikacjaThe chapter concerns numerical issues encountered when the pipeline flow process is modeled as a discrete-time state-space model. In particular, issues related to computational complexity and computability are discussed, i.e., simulation feasibility which is connected to the notions of singularity and stability of the model. These properties are critical if a diagnostic system is based on a discrete mathematical model of the flow...
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Karaś P., Kochanowicz K., Pitek M., Domański P., Obuchowski I., Tomiczek B., Liberek K.: Evolution towards simplicity in bacterial small heat shock protein system// eLife -, (2023), s.1-21
PublikacjaEvolution can tinker with multi-protein machines and replace them with simpler single-protein systems performing equivalent functions in an equally efficient manner. It is unclear how, on a molecular level, such simplification can arise. With ancestral reconstruction and biochemical analysis, we have traced the evolution of bacterial small heat shock proteins (sHsp), which help to refold proteins from aggregates using either...
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DNA-damaging imidazoacridinone C-1311 induces autophagy followed by irreversible growth arrest and senescence in human lung cancer cells
PublikacjaImidazoacridinone 5-diethylaminoethylamino-8-hydroxyimidazoacridinone (C-1311) is an antitumor inhibitor of topoisomerase II and FMS-like tyrosine kinase 3 receptor. In this study, we describe the unique sequence of cellular responses to C-1311 in human non-small cell lung cancer (NSCLC) cell lines, A549 and H460. In A549 cells, C-1311 (IC80 = 0.08 µM) induced G1 and G2/M arrests, whereas H460 cells (IC80 = 0.051 µM) accumulated...
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Organisational methods in teaching ergonomics
PublikacjaCivilisation generates many problems connected with job, which cannot be resolved by one field of science that deals with matters fragmentarily, only from its own point of view. Ergonomics, i.e. synthetic knowledge about job, can solve these problems by using the resources of many fields, e.g. physiology, psychology, technical science or economy. The achievements of these fields are used in ergonomics and thus problems connected...
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Influence of windsurfing fin stiffness distribution on the lift-drag characteristics
PublikacjaThis article addresses the problem of determining the hydromechanical loads generated by flexible hydrofoils. The research was done on the example of the composite windsurfing fin for the RS:X monotype class. Despite the assumption of fins identity, everyday practice showed that variations of mechanical properties occur and strongly affect their performance. Therefore, we decided to study the differences between the windsurfing...
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Potential of nanocomposites of zero valent copper and magnetite with Eleocharis dulcis biochar for packed column and batch scale removal of Congo red dye
PublikacjaThe current study is the first attempt to prepare nanocomposites of Eleocharis dulcis biochar (EDB) with nano zero-valent Copper (nZVCu/EDB) and magnetite nanoparticles (MNPs/EDB) for batch and column scale sequestration of Congo Red dye (CR) from synthetic and natural water. The adsorbents were characterized with advanced analytical techniques. The impact of EDB, MNPs/EDB and nZVCu/EDB dosage (1–4 g/L), pH (4–10), initial concentration...
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Impact of AlphaFold on structure prediction of protein complexes: The CASP15‐CAPRI experiment
PublikacjaWe present the results for CAPRI Round 54, the 5th joint CASP-CAPRI protein assembly prediction challenge. The Round offered 37 targets, including 14 homodimers, 3 homo-trimers, 13 heterodimers including 3 antibody–antigen complexes, and 7 large assemblies. On average 70 CASP and CAPRI predictor groups, including more than 20 automatics servers, submitted models for each target. A total of 21 941 models submitted by these groups...
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Evolution towards simplicity in bacterial small heat shock protein system
PublikacjaEvolution can tinker with multi-protein machines and replace them with simpler single-protein systems performing equivalent functions in an equally efficient manner. It is unclear how, on a molecular level, such simplification can arise. With ancestral reconstruction and biochemical analysis, we have traced the evolution of bacterial small heat shock proteins (sHsp), which help to refold proteins from aggregates using either two...
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Phenotypic consequences of the LYS4 gene disruption in Candida albicans
PublikacjaThe main scientific purpose of our studies was to verify the hypothesis that homoaconitase (HA) from Candida albicans, an enzyme catalyzing a second step of the α-aminoadipate pathway (AAP) of L-Lys biosynthesis may become a new target for antifungal chemotherapy. Previous studies indicated that the A. fumigatus mutant lacking the functional lysF gene, encoding HA, exhibited attenuated virulence in a low-dose mouse infection model...
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Potentiometric sensor with lipid-polymer membranes for quality assessment of French red wines
PublikacjaThe quality of wines resulting from vineyard management is important for consumers due to the taste and price of wines. In this work, the quality of red wines of three vintages has been investigated by potentiometric sensors with six all-solid-state electrodes. Two series of experiments were carried out. The first involved a qualitative analysis of wine of different vintages from freshly opened bottles. The second consisted of...
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Iron–Sulfur Cluster Biogenesis Chaperones: Evidence for Emergence of Mutational Robustness of a Highly Specific Protein–Protein Interaction
PublikacjaBiogenesis of iron–sulfur clusters (FeS) is a highly conserved process involving Hsp70 and J-protein chaperones. However, Hsp70 specialization differs among species. In most eukaryotes, including Schizosaccharomyces pombe, FeS biogenesis involves interaction between the J-protein Jac1 and the multifunctional Hsp70 Ssc1. But, in Saccharomyces cerevisiae and closely related species, Jac1 interacts with the specialized Hsp70 Ssq1,...
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Novel single-stranded DNA-binding proteins from extreme psychrophilic bacterium Psychromonas ingrahamii 37
PublikacjaWe report the identification and characterization of the single-stranded DNA binding protein (SSB) from extreme psychrophilic bacterium Psychromonas ingrahamii 37 (PinSSB) that grows expotentially at -12°C and may well grow at even lower temperatures. PinSSB is one of the largest known bacterial SSB protein consisting 222 amino acid residues with a calculated molecular mass of 25.1 kDa. The analysis by gel filtration chromatography...
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Mechanisms of azole resistance among clinical isolates of Candida glabrata in Poland
PublikacjaCandida glabrata is currently ranked as the second most frequently isolated aetiological agent of human fungal infections, next only to Candida albicans. In comparison with C. albicans, C. glabrata shows lower susceptibility to azoles, the most common agents used in treatment of fungal infections. Interestingly, the mechanisms of resistance to azole agents in C. albicans have been much better investigated than those in C. glabrata....