Organic Chemistry (OCHd)
Design, synthesis and the biological profile of novel lipid alkaloids as modulators of sphingolipid metabolism
SK
The Chiron approach leading to novel types of lipid alkaloids bearing a polar piperidine core decorated with a lipophilic chain will rely on: (i) olefination reactions for the creation of allylic systems, (ii) olefin cross-metathesis for the installation of an alkyl segment, (iii) three prototypes of [3,3]-heterosigmatropic rearrangements for the instalment of stereogenic centres with an amino group carried out under conditions of 1,3-chirality transfer and simple asymmetric induction, (iv) the study of cyclisation protocols for the creation of the piperidine skeleton. The final derivatives will be subjected to an evaluation of their ability to alter proliferation of human cancer cell lines. To allow comparison, the cytotoxic effect against non-malignant cells will also be tested. Mechanistic considerations suggest that the resulting piperidine pharmacophores could inhibit glucosylceramide synthase and trigger the apoptotic processes in cancer cells. In addition, the target sphingomimetics will be incorporated into the selected MOF systems and their transport together with the gradual release will be studied in vitro.
The stereodivergent synthesis of a small library of novel piperidine-containing lipid alkaloids as modulators of sphingolipid metabolism will be achieved. The expected activity of the target compounds could be based on the inhibition of glucosylceramide synthase (GCS) and the triggering of the apoptotic processes in cancer cells.
1. Available journal literarure 2. Chemical online databases (Reaxys, SciFinder)
doc. RNDr. Miroslava Martinková, PhD., univerzitná profesorka
Analytical Chemistry (AnCHd)
Dynamická extrakcia v kvapalnej fáze v headspace
EN; SK
The main approach to headspace liquid-phase microextraction (HS-LPME) is to hold the extraction phase at the tip of a microsyringe needle located in the headspace above the sample solution in a hermetically sealed vial. The use of passive HS-LPME mode often results in low extraction efficiency, for example, for semi-volatile compounds. Achieving extraction equilibrium sometimes requires a long extraction time. These disadvantages are greatly increased when extracting from sample volumes larger than 5–10 mL. The potential of the dynamic HS-LPME mode, which uses effective displacement of the volatile analyte by a gas flow and absorption by a microvolume of extractant to improve extraction kinetics and completeness of extraction, remains underutilized. A new dynamic variant of HS-LPME termed in-trap HS-LPME will be further developed. In this method, the donor phase and the microvolume of the extraction phase are placed in two different hermetically sealed vessels connected by a tube. To intensify the mass transfer of volatile compounds, air or an inert gas is passed through both phases in series. The potential of the method will be evaluated by determining a number of inorganic and organic substances by the molecular spectroscopy and gas chromatography methods after preconcentration with in-trap HS-LPME. The high efficiency achieved by in-trap HS-LPME and big ratio of donor and acceptor phases can bring a new level of sensitivity to methods that utilize sample preparation by headspace LPME. In this context, it is useful that complete separation of the extracting phase from the sample is achieved in HS-LPME. Separation of analytes by in-trap HS-LPME will be combined with long-path spectrophotometry. A drawback of in-trap HS-LPME is the relatively large volume of the extraction phase (0.25-1.0 mL). A second extraction with a microvolume of organic solvent is proposed, which would allow for very high preconcentration factors (>1000).
Development of dynamic headspace microextraction methods for concentration and separation of volatile inorganic substances
1. Tamen A.-E., Vishnikin A. In-vessel headspace liquid-phase microextraction. Anal. Chim. Acta. 1172 (2021) 338670 https://doi.org/10.1016/j.aca.2021.338670 2. Skok A., Bazel Y., Vishnikin A., Toth J. Direct immersion single-drop microextraction combined with fluorescence detection using an optical probe. Application for highly sensitive determination of rhodamine 6G. Talanta. – 2024. – Vol. 269. – 125511. https://doi.org/10.1016/j.talanta.2023.125511 3. Vishnikin A., Tamen A.-E., Fedoseenko D., Bazel Y. In-trap headspace liquid-phase microextraction for highly sensitive spectrophotometric determination of bromide in water samples. Analytica Chimica Acta 1382 (2026) 344832 https://doi.org/10.1016/j.aca.2025.344832
prof. Dr. Andrii Vyshnikin, DrSc.
Physical Chemistry (FYCHdas)
Electrochemical determination of anticoagulant rodenticides
SK
The aim of this work is the development of a low-cost, portable, and rapid electrochemical diagnostic system designed for the detection and quantification of anticoagulant rodenticides, particularly warfarin and brodifacoum, which are among the most common causes of poisoning in companion animals. The proposed solution represents an integrated electrochemical system consisting of a disposable non-enzymatic sensor with a working electrode modified by metallic materials, a portable potentiostat, and a mobile electronic device equipped with a specialized software application for data acquisition and evaluation. The developed sensors will be optimized and validated using electrochemical methods in solutions simulating body fluids, blood serum, and real veterinary samples within the framework of a clinical study
Main objective of the thesis Development of a low cost portable and rapid electrochemical diagnostic system for the determination of anticoagulant rodenticides especially warfarin and brodifacoum as significant causes of companion animal poisoning Specific objectives of the thesis 1. Design and fabrication of non enzymatic electrochemical sensor modified by metallic materials 2. Optimization of the composition and surface properties of the working electrode to enhance sensitivity selectivity and stability of electrochemical sensor 3. Optimization of experimental conditions for electrochemical determination including selection of supporting electrolyte, pH potential range, and measurement parameters 4. Determination of analytical characteristics of the developed sensor especially linearity, limit of detection, limit of quantification, and reproducibility 5. Integration of the sensor with a portable potentiostat and a mobile electronic device with a dedicated software application for data acquisition processing and evaluation 6. Validation of the sensor using electrochemical methods in solutions simulating biological fluids 7. Verification of measurement performance and reliability in blood serum samples 8. Testing of the developed system on real veterinary samples within a clinical study 9. Comparison of the obtained results with reference analytical methods and evaluation of the application potential of the system in veterinary diagnostic practice
Scientific journal literature
RNDr. Ivana Šišoláková, PhD.
Organic Chemistry (OCHd)
Photoactive anthracene-based hydrazone and thiazolidinone systems: synthesis, photoswitching mechanisms and functional applications
SK
The PhD thesis will focus on the design, synthesis and comprehensive physicochemical investigation of new anthracene-based hydrazone, thiosemicarbazone and thiazolidinone derivatives as promising photoactive molecular systems. These compounds combine the favorable photophysical properties of the anthracene chromophore with the conformational flexibility of the C=N bond, enabling reversible light-induced E/Z isomerization. Such systems represent an attractive platform for the development of molecular switches, fluorescent sensors and photoresponsive materials. The research will build on previous studies of photoinduced E/Z isomerization and extend them toward the synthesis of a new generation of derivatives featuring extended π-conjugation, donor–acceptor architectures and improved solubility or supramolecular self-assembly ability. The experimental work will include modern synthetic methodologies, comprehensive structural characterization (NMR, IR, HR-MS, X-ray diffraction) and detailed investigation of photophysical properties using UV/Vis and fluorescence spectroscopy. Particular attention will be devoted to the kinetics of photoisomerization, quantum yields, switching stability and the differences between solution and solid-state behavior. An important part of the thesis will be the study of supramolecular interactions and the incorporation of selected photoswitches into polymeric or thin-film systems to demonstrate their functional applicability. Experimental results will be complemented by quantum-chemical calculations (DFT/TD-DFT) to elucidate the mechanisms of photoinduced processes and to establish structure–property relationships. The expected outcomes include new insights into organic photoswitches, publications in international peer-reviewed journals and the establishment of a foundation for further research on photoactive molecular materials.
The aim of the PhD thesis is to design, synthesize and comprehensively characterize new anthracene-based hydrazone, thiosemicarbazone and thiazolidinone derivatives as promising photoactive molecular systems capable of reversible light-induced E/Z switching. The research will focus on elucidating the mechanisms of photoisomerization, establishing structure–property relationships, and evaluating the kinetics and stability of photoswitching in both solution and solid state. An additional objective is to investigate supramolecular interactions and to incorporate selected photoswitches into polymeric and thin-film systems in order to demonstrate their potential applications as molecular switches, fluorescent sensors and photoresponsive materials. The experimental work will be complemented by quantum-chemical calculations to provide a detailed understanding of photoinduced processes.
Chem. Soc. Rev., 2001, 30, 248–263 Chem. Soc. Rev., 2000, 29, 43–55 Photochem. Photobiol. Sci., 2014, 13, 316–323 Photochem. Photobiol. Sci., 2016, 15, 1071
doc. RNDr. Mária Vilková, PhD.
Biochemistry (BICHd)
Immobilization of enzymes on a synthetic polymer matrix
SK
doc. RNDr. Rastislav Varhač, PhD.
fyzikálna chémia (FYCHdase)
High-entropy material-based catalysts for electrochemical CO2 reduction
SK
The aim of the doctoral thesis is the development of high-entropy material-based catalysts for the electrochemical reduction of CO2 into useful chemicals and fuels, such as methanol. The objective is the preparation of various catalyst compositions based on high-entropy materials, their structural characterization, and the study of their electrocatalytic properties. Furthermore, the work aims to identify the optimal composition of high-entropy material-based catalysts for the efficient production of valuable chemicals and fuels. The findings acquired during the PhD study should contribute valuable knowledge to the field of heterogeneous catalysis.
Scientific journals and internet.
prof. RNDr. Renáta Oriňaková, DrSc.
Physical Chemistry (FYCHdas)
High-entropy material based catalysts for electrochemical water splitting
SK
The aim of the dissertation is the preparation of high-entropy material based bifunctional catalysts, their structural characterization and the study of their properties. We will focus on the study of electrocatalytic activity in the hydrogen evolution reaction and oxygen evolution reaction. Another goal of the work is to find the optimal composition of high-entropy material based catalysts for highly efficient electrochemical water splitting.
Scientific publications and internet.
prof. RNDr. Renáta Oriňaková, DrSc.
Inorganic Chemistry (ACHd)
Transition metal complexes with coumarin and quinoline derivatives for biological applications.
SK
RNDr. Miroslava Matiková Maľarová, PhD.
Inorganic Chemistry (ACHd)
Coordination Compounds as Multifunctional Systems in Bioinorganic Research
SK
The doctoral thesis focuses on the investigation of preparation conditions of coordination compounds, predominantly of transition metal ions, with N- and/or O-donor bioligands, as well as on their synthesis with the aim of obtaining compounds with anticipated antimicrobial activity. Solution studies will be carried out mainly using potentiometric and spectroscopic methods (NMR, UV–Vis, and fluorescence spectroscopy). The isolated synthetic products will be characterized by available techniques (IR, UV–Vis, NMR, CHN elemental analysis, thermal analysis, and X-ray structural analysis). For further biological evaluation, various approaches ranging from molecular modelling to biological testing will be employed.
prof. RNDr. Zuzana Vargová, Ph.D.
Mgr. Gabriela Kuzderová, PhD.
Inorganic Chemistry (ACHd)
MIL-101 as a Platform for the Preparation of Functional Porous Materials for Environmental Applications
SK
The doctoral thesis is focused on the study of the metal–organic framework MIL-101 as a platform for the preparation of functional porous materials with potential applications in environmental technologies. The main objective of the work will be the synthesis of MIL-101 and its modified forms, as well as the preparation of new porous materials derived from MIL-101, particularly via hard-template synthetic approaches. The work will include optimization of synthetic conditions and investigation of the physicochemical properties of the prepared materials using appropriate analytical and characterization techniques. The prepared materials will be evaluated in terms of their application potential in environmental technologies, specifically for the adsorption of greenhouse gases (CO₂ and CH₄) and for the photocatalytic degradation of organic pollutants in aqueous environments.
doc. RNDr. Miroslav Almáši, PhD.
Inorganic Chemistry (ACHdAj)
Nanoporous Materials for Sustainable Technologies 1.) To review literature data on the synthesis and properties of ordered nanoporous materials (silica, MOF, ZIF...), their modification possibilities and their potential appl
EN
The dissertation thesis and its topic are an integral part of several years of research carried out at the Faculty of Science UPJŠ in Košice, focused on the preparation of new types of functional materials that are/will be the answer to the challenges posed by human society. The power of nanoporous materials lies in their unique properties such as huge specific surface area, tunable pore size, high adsorption capacity and easy surface modification for specific purposes and applications. Thus, the content of the thesis will be the synthesis, characterization and study of the properties of new types of nanoporous materials as well as the subsequent modification of their properties so that they demonstrate potential and challenge for applications in the field of capture and storage of gases of technological importance (e.g. CO2, H2) but also, after appropriate modification, for their use as carriers in the process of drug delivery to specific sites in the body, i.e., controlled and targeted delivery. In addition to chemical synthesis, the realization of the topic requires knowledge of basic physicochemical techniques used in inorganic chemistry, solid state chemistry and materials research.
1.) To review literature data on the synthesis and properties of ordered nanoporous materials (silica, MOF, ZIF...), their modification possibilities and their potential applications in various fields, with emphasis on gas adsorption or as drug carriers. 2.) To prepare samples of ordered nanoporous materials and characterize them using relevant physicochemical methods. 3.) To modify the prepared samples by chemical methods and assess the effect of modification on gas sorption or drug release. 4.) To compare the potential of different types of prepared and studied materials (silica, MOF, ZIF...) for different applications.
1. V. Zeleňák, M. Skřinská, A. Zukal, J. Čejka, Carbon dioxide adsorption over amine modified silica: Effect of amine basicity and entropy factor on isosteric heats of adsorption, Chemical Engineering Journal 348 (2018)327-337. 2. V. Zeleňák, D. Halamová, M. Almáši, L. Žid, A. Zeleňáková, O. Kapusta, Ordered cubic nanoporous silica support MCM-48 for delivery of poorly soluble drug indomethacin, Applied Surface Science 443 (2018) 525-534. 3. M. Vallet-Regí, F. Schüth, D. Lozano, M. Colilla, M. Manzano, Engineering mesoporous silica nanoparticles for drug delivery: where are we after two decades?, Chem. Soc. Rev., 51 (2022) 5365-5451.
prof. RNDr. Vladimír Zeleňák, DrSc.
Inorganic Chemistry (ACHd)
Nanoporous Materials for Sustainable Technologies
SK
The dissertation thesis and its topic are an integral part of several years of research carried out at the Faculty of Science UPJŠ in Košice, focused on the preparation of new types of functional materials that are/will be the answer to the challenges posed by human society. The power of nanoporous materials lies in their unique properties such as huge specific surface area, tunable pore size, high adsorption capacity and easy surface modification for specific purposes and applications. Thus, the content of the thesis will be the synthesis, characterization and study of the properties of new types of nanoporous materials as well as the subsequent modification of their properties so that they demonstrate potential and challenge for applications in the field of capture and storage of gases of technological importance (e.g. CO2, H2) but also, after appropriate modification, for their use as carriers in the process of drug delivery to specific sites in the body, i.e., controlled and targeted delivery. In addition to chemical synthesis, the realization of the topic requires knowledge of basic physicochemical techniques used in inorganic chemistry, solid state chemistry and materials research.
1.) To review literature data on the synthesis and properties of ordered nanoporous materials (silica, MOF, ZIF...), their modification possibilities and their potential applications in various fields, with emphasis on gas adsorption or as drug carriers. 2.) To prepare samples of ordered nanoporous materials and characterize them using relevant physicochemical methods. 3.) To modify the prepared samples by chemical methods and assess the effect of modification on gas sorption or drug release. 4.) To compare the potential of different types of prepared and studied materials (silica, MOF, ZIF...) for different applications.
1. V. Zeleňák, M. Skřinská, A. Zukal, J. Čejka, Carbon dioxide adsorption over amine modified silica: Effect of amine basicity and entropy factor on isosteric heats of adsorption, Chemical Engineering Journal 348 (2018)327-337. 2. V. Zeleňák, D. Halamová, M. Almáši, L. Žid, A. Zeleňáková, O. Kapusta, Ordered cubic nanoporous silica support MCM-48 for delivery of poorly soluble drug indomethacin, Applied Surface Science 443 (2018) 525-534. 3. M. Vallet-Regí, F. Schüth, D. Lozano, M. Colilla, M. Manzano, Engineering mesoporous silica nanoparticles for drug delivery: where are we after two decades?, Chem. Soc. Rev., 51 (2022) 5365-5451.
prof. RNDr. Vladimír Zeleňák, DrSc.
Biochemistry (BICHd)
Non canonical Structural Motifs in Nucleic Acids as Next Generation Bioactive Modules
SK
Non‑canonical nucleic acid structures (NCS) represent a dynamic and rapidly evolving field of molecular biology that fundamentally broadens our understanding of gene expression regulation, signaling processes, and the structural diversity of both DNA and RNA. Although many of these motifs—such as G‑quadruplexes, i‑motifs, or hybrid DNA/RNA forms—are intensely studied, some have so far been described only to a limited extent. However, growing evidence suggests that they constitute key bioactive modules with significant impact on cellular physiology, including pathological processes. These motifs can be considered an additional essential component falling under epigenetic factors.
The main goal of the study will be the systematic identification and characterization of established NCS as well as entirely new, previously unexplored motifs arising from specific nucleic acid sequences, and determining their occurrence across the animal and plant kingdoms—from viruses and unicellular organisms to more complex eukaryotes. The ambition is to elucidate their roles in molecular mechanisms, interaction dynamics, and functions in the regulation of genetic processes. Another objective is to explore the biotechnological and biomedical application potential of these motifs
scientific papers
doc. RNDr. Viktor Víglaský, PhD.
Analytical Chemistry (AnCHd)
New extraction and non-extraction methods for determination of inorganic and organic substances using ion associates of organic dyes and their automation
SK
Extraction-photometric techniques using ion associates (IA) have several serious drawbacks. They use large volumes of organic solvents that are toxic to humans and harmful to the environment. The separation stage makes the determination more difficult and time-consuming. Due to the extraction stage, such techniques are difficult to automate. Modern requirements for "green" analytical chemistry demand a shift towards the alternative methods in which the use of organic solvents is limited or excluded. In the last two decades, new IA-based methods have appeared and become more common, in which the extraction stage is absent. One of the important types of non-extraction methods is the formation of specific poorly soluble nanoparticles of IA with cationic or anionic dyes. This approach will be extended to the development of the methods for the determination of pharmaceutical compounds containing nitrogen atoms capable of protonation at suitable pHs and quaternary ammonium salts. In addtition, new manual and automated spectrophotometric and luminescent methods based on the formation of ternary IAs with dianionic form of sulfonophtaleine or fluoresceine dyes will be developed. The use of sequential injection analysis (SIA) for extraction-spectrophotometric determination is mainly limited to the determination of metal ions. We have found only one example of the automation of spectrophotometric determinations of pharmaceutical substances by SIA using IA formation reactions with organic dyes. A new automated methods will be developed using dynamic liquid-phase microextraction of IAs. Dynamic liquid-phase microextraction will be improved by use of extensive mixing of organic solvent phase caused by intensive turbulent moving the sample phase through the extracting solvent in a designed flow-through chamber.
Development of new non-extraction and extraction methods for concentration and separation of inorganic and organic substances by molecular spectroscopy methods using ionic associates of organic dyes
1. Hedjazi M., Vishnikin A.B., Okovytyy S.I., Miekh Yu.V., Bazel Ya.R. Use of dye aggregation phenomenon for spectrophotometric and SIA-LAV determination of bismuth(III) as a specific ion association complex between tetraiodobismuthate and Astra Phloxine. J. Molec. Struct. – 2022. – Vol. 1251. – 132015 (12 p). https://doi.org/10.1016/j.molstruc.2021.132015 2. Al-Shwaiyat M., Vishnikin A., Kharadzha A., Bazel Y. A non-extraction sequential injection method for determination of loratadine using formation of its ion-association complex with bromocresol purple in acetonitrile. Talanta. – 2024. – Vol. 272. – 125844 https://doi.org/10.1016/j.talanta.2024.125844 3. Vishnikin A., Hedjazi M., Al-Shwaiyat M., Skok A., Bazel Y. Consecutive spectrophotometric determination of phosphate and silicate in a sequential injection lab-at-valve flow system. Anal. Chim. Acta – 2023. – Vol. 1273. – 341464. https://doi.org/10.1016/j.aca.2023.341464
prof. Dr. Andrii Vyshnikin, DrSc.
Physical Chemistry (FYCHdas)
Optimization of functional properties of novel materials for energy applications
SK
he objective of this thesis is the preparation of materials for various types of Li-ion and redox flow batteries, and their characterization using both simulation and experimental techniques. Furthermore, the work aims to perform electrochemical characterization of individual battery components and evaluate their compatibility. Subsequently, the overall efficiency, performance, and cyclability of the new material types will be tested and compared with simulation results.
Optimization of functional properties of novel energy materials using simulation and experimental tools
Scopus, WoS, actual literature
doc. RNDr. Andrea Straková Fedorková, PhD.
RNDr. Natália Podrojková, PhD.
Biochemistry (BICHd)
Directed Evolution of Haloalkane Dehalogenases
SK
This doctoral thesis focuses on the engineering of haloalkane dehalogenases (HLDs), enzymes capable of degrading halogenated organic pollutants that pose a significant environmental risk. The primary objective is to develop novel enzyme variants with improved thermal stability and catalytic activity through the directed evolution of the hyperstable DhaA115 variant. The research will employ a combination of ribosome display and HaloTag technology, enabling the efficient selection of catalytically competent enzymes while overcoming the limitations associated with reversible enzyme–substrate interactions. Selected variants will be identified via high-throughput screening, recombinantly produced in E. coli, and subjected to comprehensive biophysical and structural characterization, including thermal stability assessment, kinetic analysis, and X-ray crystallography. The expected outcome is a deeper understanding of structure–function relationships in HLDs and the establishment of a transferable platform for dehalogenase evolution. The results may expand the portfolio of enzymes applicable in biocatalysis and environmental bioremediation, supporting the development of sustainable biotechnological solutions.
Main Objective: To develop novel variants of haloalkane dehalogenases with enhanced catalytic efficiency and stability using directed evolution and advanced biophysical and structural methods. Research Objectives: • Optimization of the directed evolution methodology for haloalkane dehalogenase • Identification and production of variants with improved activity and stability • Comprehensive biophysical and structural characterization and interpretation of structure-function relationships
prof. RNDr. Erik Sedlák, DrSc.
RNDr. Michal Nemergut, PhD.
Biochemistry (BICHd)
The study of the interaction of new acridine derivatives with selected proteins
SK
In the thesis, we will deal with an interaction of novel small derivatives – acridine derivatives which can influence the structure of selected proteins. The spectroscopic characteristics, stability in water solution and reactivity of the newly synthesized compounds will be studied. We will determine the mode of interaction and calculate binding constants. The effects of these compounds on serum albumin will be examined. The potential antitumor effects of these compounds will be tested against both human and mice leukemia cell lines and HeLa cell. The effect of substances on cells will be studied using flow cytometry analysis and the mode of cellular death will be determined. The localization of derivatives in cells will also be analyzed using confocal microscopy. We will also study antibacterial and antioxidant effect of these compounds.
prof. RNDr. Mária Kožurková, CSc.
Organic Chemistry (OCHd)
Study of the synthesis of homo and heterodimeric bis-indoles using ecological alternative approaches and their biological potential
SK
The dissertation will deal with the development of efficient syntheses of homo- and heterodimeric bis-indoles, where the bis-indole units will be connected by various linkers or without a linker. The research focuses on the preparation of bis-indoles of the thiourea, urea, amide type, in conjunction with a/cyclic amines and the formation of cyclic bis-indole compounds using various cyclization protocols. The work includes the use of classical synthetic approaches, but also the use of ecological, alternative methods (mechanochemical, microwave, etc.). The content of the dissertation will be the synthesis, characterization and study of the properties of bis-indole derivatives as well as their subsequent structural modification so that they demonstrate potential in the field of anticancer therapy or as inhibitors of amyloid fibrils.
The goal of the doctoral student's research work will be to develop efficient, environmentally friendly and high-yield methods for the synthesis of homo- and heterodimeric bis-indoles, which will be suitable for targeting multiple biological targets (anticancer agents, amyloid fibril inhibitors).
scientific papers
doc. RNDr. Mariana Budovská, PhD.
Analytical Chemistry (AnCHd)
Improvement of analytical procedures in the extraction step for the determination of selected analytes
SK
The aim of the work will be the design and implementation of new approaches that improve the efficiency and accuracy of the determination of selected analytes compared to traditional approaches. Emphasis will be placed on the extraction step as a key step in the separation and preconcentration of analytes with regard to miniaturization and automation as one of the principles of green analytical chemistry. The results of this work should contribute to a more efficient and environmentally friendly performance of analytical procedures.
RNDr. Jana Šandrejová, PhD., univerzitná docentka
Analytical Chemistry (AnCHd)
Use of new types of deep eutectic solvents in the analysis of plant samples
SK
The topic is focused on the development of new innovative approaches for the analysis of plant samples. The aim is to use chemicals and procedures in accordance with the requirements of green analytical chemistry. The condition is the completion of several 3-5 months study stays at leading foreign universities.
prof. Mgr. Vasiľ Andruch, DSc.
Biochemistry (BICHd)
Development of contrast nanoconjugates based on DNA aptamers
SK
The aim of the PhD research will be the development of targeted nanoparticle–aptamer bioconjugates and the establishment of a general procedure for the efficient production of receptor-specific bio‑nano‑conjugates. Such conjugates will be taylored for the diagnostics of a broad range of molecular targets and may provide a foundation for new biomedical and bioanalytical applications.
The aim of the PhD research will be the development of targeted nanoparticle–aptamer bioconjugates and the establishment of a general procedure for the efficient production of receptor-specific bio‑nano‑conjugates. Such conjugates will be taylored for the diagnostics of a broad range of molecular targets and may provide a foundation for new biomedical and bioanalytical applications.
scientific papers
doc. RNDr. Viktor Víglaský, PhD.
Physical Chemistry (FYCHdas)
Development of Metallic Implants for Regenerative Medicine
SK
The aim of the dissertation is the development and study of metal scaffolds for use in medicine in the temporary replacement of hard tissues. Emphasis will be placed on the selection of a suitable method for the production of metal supports and the study of the physico-chemical, biological and mechanical properties of the prepared metal materials. Another goal of the work is to study the possibilities of modifying the surface of prepared metal biomaterials with bioactive components (ceramic, polymer, etc.) with a therapeutic effect and to study the mechanism and kinetics of their release.
Scientific publications and internet.
prof. RNDr. Renáta Oriňaková, DrSc.
RNDr. Radka Gorejová, PhD.
Biochemistry (BICHd)
Development of staphylokinases by methods of protein engineering
SK
Protein stability is a fundamental determinant of protein folding, function, and applicability, yet its rational optimization remains a major challenge in protein engineering. This doctoral project aims to systematically investigate and engineer protein stability using ribosome display-based directed evolution integrated with computational analysis. The goal is to establish an experimental-computational platform capable of selecting stability-enhanced protein variants while elucidating sequence-stability-function relationships. Staphylokinase will serve as the model protein due to its well-characterized structure, available functional assays, and biomedical relevance as a potential thrombolytic agent. The research will combine variant library generation, next-generation sequencing, computational modelling, and quantitative biophysical characterization to experimentally validate predicted stability effects. Expected outcomes include a transferable methodological framework for stability-directed protein evolution, high-quality datasets supporting predictive model development, and identification of stability-enhanced staphylokinase variants with potential for future biomedical applications.
Main Objective: To establish and experimentally validate a platform for systematic investigation and engineering of protein stability through directed evolution integrated with computational approaches. Specific Objectives: 1. Develop and optimize ribosome display for the selection of stability-enhanced protein variants under destabilizing conditions. 2. Identify stabilizing mutations through computational analysis. 3. Experimentally characterize the stability and functional performance of selected staphylokinase variants and validate in silico predictions using biophysical methods.
prof. RNDr. Erik Sedlák, DrSc.
Mgr. Mária Tomková, PhD.
Biochemistry (BICHd)
Establishment of advanced techniques for insect cell-based production of proteins
SK
The production of eukaryotic proteins in bacterial expression systems is challenging due to several factors—low solubility and yield of proteins, the absence of post-translational modifications, and limitations in the production of membrane proteins. Insect cell expression systems serve as an excellent alternative, offering reliable protein production with simple glycosylation, post-translational modifications, and good scalability. This work focuses on establishing a methodology for protein production in insect cells—preparing and optimizing the expression system for the production of selected model proteins. The properties of the protein preparations will be characterized in subsequent steps using biophysical methods.
Preparation of recombinant baculovirus vectors for the expression of selected proteins • Transfection of Sf9 insect cells, small-scale protein expression, and quantification of expression using Western blot • Optimization of expression and "upscaling" of protein production • Chromatographic purification of proteins and optimization of the purification process • Characterization of the biophysical properties of the prepared proteins using circular dichroism and calorimetry
prof. RNDr. Erik Sedlák, DrSc.
Mgr. Ľuboš Ambro, PhD.