Charles University, Faculty of Pharmacy in Hradec Králové Department of Pharmaceutical Technology Author: Karolína Růžičková Supervisor: PharmDr. Barbora Švecová, Ph.D. Consultant: Mgr. Anna Nováčková Title of thesis: Evaluation of preparation of monolayer lipid skin barrier models Skin, the protective barrier of human body, consists of several layers. The uppermost one is the stratum corneum, part of epidermis, whose extracellular matrix is composed mainly of ceramides, cholesterol and free fatty acids. The composition and arrangement of skin lipids are essential for the proper skin barrier function. Various multilayer and monolayer models are used to study skin lipids at the molecular level. Some of the evaluation methods are Langmuir monolayers at the air interface. In this work I dealt with the behavior of monolayer lipid models at four different pH values of the liquid subphase. Lipids isolated from human skin, lipid mixture prepared from the individual components, and a mixture of fatty acids were compared as well. Langmuir isotherms and the Brewster angle microscopy at different compression rates were used for this purpose. The results showed that pH of the subphase has no major effect on lipids arrangement. Lipids were most likely to form a tight monolayer at neutral pH 7,0, at a...

RésuméLes monocouches auto-assemblées d'ADN immobilisées sur électrodes d'or sont à la base de nombreux biocapteurs électrochimiques. Le contrôle du comportement interfacial de l'ADN par le biais d'un champ électrique est intéressant pour la détection de polymorphisme nucléotidique simple (PNS). La caractérisation in situ de monocouches d'ADN à l'échelle moléculaire est importante pour la fabrication de biocapteurs robustes, fiables et sensibles.La thèse porte sur la détection du PNS dans l'ADN par le biais d'hybridation/dénaturation induite par le champ électrique. La microscopie de fluorescence sous conditions électrochimiques est utilisée comme méthodologie de détection et outil de caractérisation de l'interface d'ADN. À cette fin, des séquences d'ADN marquées par des sondes fluorescentes sont immobilisées sur des électrodes d'or sous forme de monocouches auto-assemblées (SAM) thiolées.Premièrement, les SAMs sont composées de séquences cibles présentant ou non une mutation ponctuelle. La relation entre le potentiel appliqué et la dénaturation du double brin est étudiée. La dénaturation électrochimique est observée à -0,25 V vs Ag / Deoxyribonucleic acid (DNA) self-assembled monolayers (SAMs) immobilized on gold electrodes are the basis of many electrochemical biosensors. Control of the interfacial behavior of DNA by means of an electric field is of interest for sensing applications such as the detection of single nucleotide polymorphisms (SNPs). Moreover, the in situ characterization of immobilized DNA monolayers at a molecular level is important for the fabrication of robust, reliable and sensitive sensors.The thesis aims at studying the discrimination between DNA strands containing SNPs on the basis of electric-field assisted hybridization/denaturation of DNA. In situ electrochemical fluorescence microscopy is used as a detection methodology and characterization tool for DNA interfaces. For this purpose, fluorescently labeled DNA sequences are immobilized at gold electrodes as thiol SAMs.First, the SAMs under investigation were composed of perfect match or SNP-containing target sequences. The relationship between the applied potential and the denaturation of DNA duplexes was investigated. Electrochemical melting was observed at -0.25 V vs. Ag / Doctorat en Sciences / info:eu-repo/semantics/nonPublished

The surface of biomaterials can induce contacting blood to coagulate, similar to the response initiated by injured blood vessels to control blood loss. This poses a challenge to the use of biomaterials as the resulting coagulation can impair the performance of hemocompatible devices such as catheters, vascular stents and various extracorporeal tubings [1], what can moreover cause severe host reactions like embolism and infarction. Biomaterial induced coagulation processes limit the therapeutic use of medical products, what motivates the need for a better understanding of the basic mechanisms leading to this bio-incompatibility [2] in order to define modification strategies towards improved biomaterials [3]. Several approaches for the enhancement of hemocompatible surfaces include passive and active strategies for surface modifications. The materials’ chemical-physical properties like surface chemistry, wettability and polarity are parameters of passive modification approaches for improved hemocompatibility and are the focus of the present work. In the present study self assembled monolayers with different surface functionalities (-COOH, -OH, -CH3) were applied as well as two-component-layers with varying fractions of these, as they allow a defined graduation of surface wettability and charge. The ease of control over these parameters given by these model surfaces enables the evaluation of the influence of specific surface-properties on biological responses. To evaluate the effects of different surface chemistry on initial mechanisms of biomaterial induced coagulation, the surfaces were incubated with protein solution, human plasma, blood cell fractions or fresh heparinised human whole blood. Indicative hemocompatibility parameters were subsequently analysed focusing on protein adsorption, coagulation activation, contact activation (intrinsic/ enhancer pathway), impact of tissue factor (extrinsic/ activator pathway) and cellular systems (blood platelets and leukocytes).

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Diese Arbeit beinhaltet unsere Studien an selbstorganisierenden Monoschichten (engl. SAM = self- assembled monolayer) einiger aromatischer Thiole auf Gold- und Kupferoberflächen. Die Bildung von Monoschichten von Thiophenol, 4-Mercaptophenol, 4-Nitrothiophenol, 4-Aminothiophenol, 1,4-Dithiobenzol, 4-Mercaptopyridin und 2-Mercaptopyridin auf Au und Cu wurde untersucht und charakterisiert. Das abschirmende Verhalten und die strukturelle Anordnung dieser Monoschichten wurden mit Hilfe elektrochemischer und spektroskopischer Methoden geprüft und bestimmt. Zyklische Voltammetrie und oberflächenverstärkte Raman Spektroskopie wurden intensiv zur Aufklärung von Elektronentransferreaktionen an diesen mit SAMs modifizierten Oberflächen genutzt. Elektrochemische Studien von Monoschichten aus Thiophenol, 4-Mercaptophenol, 4-Nitrothiophenol, 4-Aminothiophenol, 1,4-Dithiobenzol, 4-Mercaptopyridin und 2-Mercaptopyridin in 0,1 M wässriger KClO4-Lösung lassen schlussfolgern, dass diese Moleküle schwefelseitig an die Substratoberfläche gebunden sind. In 0,1 M wässriger KClO4-Lösung aufgenommene zyklische Voltammogramme an Gold- und Kupferoberflächen, welche mit oben genannten, aromatischen Thiolen beschichtet wurden, legen nahe, dass Adsorptionsschichten von Thiophenol und 1,4-Dithiobenzol eine stärkere Tendenz zum Abschirmen besitzen als andere. Durch das Einbringen von Kupferproben, welche mit genannten aromatischen Thiolen behandelt wurden, in 0,1 M Silbernitrat-Lösung können sehr leicht Silber-Nanodendritstrukturen erhalten werden. Abscheidezeit und Konzentration der Silbernitrat-Lösung haben einen großen Einfluss auf das Wachstum der Silber-Nanodendritstrukturen auf den modifizierten Kupferproben. Diese Silber-Nanodendritstrukturen besitzen eine hohe katalytische Aktivität hinsichtlich der Oxidation von Hydroquinon. Untersuchungen zur Korrosion an polykristallinem Kupfer, welches mit obigen aromatischen Thiolen modifiziert wurde, in 0,1 M Silbernitrate-Lösung ließen vermuten, dass dieses Kupfersubstrat mehr anodisches Verhalten zeigte als reines Kupfer bei ähnlichen Bedingungen. Zyklische Voltammetrie an wie oben behandeltem Kupfer in 0,1M wässriger KClO4-Lösung zeigte, dass die Geschwindigkeit der Kupferauflösung bei diesen Messungen erhöht war gegenüber anderen, in welchen reines Kupfer bei identischen Bedingungen eingesetzt wurde. / It deals with our studies on self-assembled monolayers of aromatic thiols on gold and copper surfaces. Monolayer formation of thiophenol, 4-mercaptophenol, 4-nitrothiophenol, 4-aminothiophenol, 1,4-dithiobenzene, 4-mer¬cap¬to¬pyridine and 2-mercaptopyridine on Au and Cu surfaces was studied and characterized. The blocking behaviour and structural arrange¬ments of these monolayers were evaluated and characterized using electrochemical and spec¬troscopic techniques. Cyclic voltammetry and surface enhanced Raman spectroscopy were extensively used for the study of electron transfer reactions on these SAM modified surfaces. Electrochemical and spectroelectrochemical studies of thiophenol, 4-mercaptophenol, 4-nitrothiophenol, 4-aminothiophenol, 1,4-dithiobenzene, 4-mercaptopyridine and 2-mercaptopyridine monolayers in aqueous solution of 0.1 M KClO4 suggest that these molecules adsorbed to substrate. Cyclic voltammetry of gold and copper covered with these aromatic thiolates recorded in aqueous solution of 0.1 M KClO4 suggests that adlayers of thio¬phenol and 1,4-dithiobenzene exhibit more blocking behavior than the other ones. Silver nanodendritic structures are easily produced by placing copper samples modified with these aromatic thiolates into 0.1 M silver nitrate solution. Deposition time and concentration of silver nitrate solution have great influence on growing up silver nanodendritic structures on the surface of modified copper samples. These silver nanodendritic structures exhibit electrocatalytic activity towards the oxidation of hydroquinone. Corrosion investigation of polycrystalline copper modified with these aromatic thiolates in 0.1 M silver nitrate solution suggest that copper substrate might be more anodic compared to bare copper under identical condition. Cyclic voltammetry of copper modified with these aromatic thiolates suggests that the rate of dissolution copper in aqueous solution of 0.1 M KClO4 is higher than bare copper in the same condition.

Laddningsbeteendet hos amingruppen vid ytgränsskiktet mellan vatten och luft har studerats under ändring av vattenfasens pH och NaCl-koncentration via den ickelinjära laserspektroskopiska tekniken, vibrationssumfrekvensspektroskopi (VSFS). Modellen som användes för ytan bestod av ett Langmuirmonolager av 1-docosanamin, en icke-löslig fettkedjeamin med NH2-gruppen riktad mot vattenfasen. En av de huvudsakliga syftena med projektet var att bestämma det skenbara samt yt-pKa:t för amingruppen, såväl som att testa gränserna för de klassiska Poisson-Boltzmann-formuleringarna av teorin för det elektriska dubbellagret. Molekylär information av laddningsbeteendet hos aminen erhölls från VSFS-spektra genom att följa NH-, OH- och CH-sträckningsvibrationsmoderna. Specifikt så identifierades de spektrala dragen från den neutrala formen (R-NH2) och den laddade formen (R-NH3+) av aminen, vilka direkt korrelerades med monolagrets ytladdning. Intensiteten hos OH-banden från vattenmolekylerna i det diffusa dubbellagret kunde länkas till ytpotentialen och CH-vibrationerna från alkylkedjan av amino-tensiden kopplades slutligen till packningstätheten hos monolagret. Ytterligare experiment utfördes med en deutererad vattenfas (D2O) för att bekräfta sträckningsvibrationsmoderna hos NH3+, vilka aldrig tidigare har rapporterats. Resultaten visar på att fettkedjeaminen får ett avsevärt lägre yt- och skenbart pKa jämfört med bulken (∼ 4 jämfört med 10,5). Detta är i enlighet med vad Gouy-Chapmann-modellen av det elektriska dubbellagret förutser. Dessutom så indikerar datat att det inneboende pKa:t hos aminen också blir lägre vid ytan än för bulken (9,7±0,7 jämfört med 10,5), vilket kan beskrivas som en effekt av begränsningen i frihetsgrader hos den ytbundna aminen. Dock, så hindrades en mer utförlig kvantitativ jämförelse mot teorin av ett sämre val av det experimentella referensvärdet som användes för att jämföra data mellan olika dagar. Dessutom så var anpassningsrutinen för datat begränsad på grund av spektrala vibrationsöverlapp mellan de relativt svaga aminbanden och de mycket starkare vatten- och alkylsträckningssignalerna. Intressant nog, för högre pH-värden, då aminen är helt oladdad, bevisade sumfrekvensspektra att hydroxidjonen föredrar att adsorbera till ytan genom att monolagret fick en negativ nettoladdning. Överlag så förbättrar studierna som presenteras i denna master-projektuppsats vår molekylära förståelse kring hur den biofysiskt betydande amingruppen beter sig vid ytgränsskikt. / The charging behaviour of the amine moiety at the water-air interface upon changes in the aqueous subphase pH and NaCl concentration has been studied using  the non-linear laser spectroscopy technique, Vibrational Sum Frequency Spectroscopy (VSFS).  The model surface consisted of a Langmuir monolayer of 1-docosaneamine, an insoluble fatty amine that exposes its NH2  group to solution. One of the main purposes of the project is to determine the surface, and the apparent pKa of the amine moiety, as well as testing the limits of validity of classical formulations of the electrical double layer theory within the Poisson-Boltzmann formalism. Molecular information of the charging behaviour was obtained from the VSFS spectra by targeting the NH, OH and CH stretching modes. Specifically, spectral features from the neutral amine (i.e. R-NH2) and charged (R-NH3+) groups could be identified and directly correlated to the surface charge of the monolayer. The intensity of the  OH bands from water molecules in the diffuse double layer, were linked to the surface potential, and finally, the CH modes from the surfactant alkyl chain gave information of the packing density in the monolayer. Additional experiments were also carried out in D2O to help confirm the assignment of the NH3+ stretching modes that had not been previously reported. The results show that as predicted from the Gouy-Chapman electric double layer model, the apparent pKa of the fatty amine monolayer is significantly lower than in the bulk  (∼ 4 compared with 10.5) . However, the data show indication that the intrinsic pKa at the surface is also lower than in the bulk (9.7+/- 0.7, compared to 10.5), an effect that is ascribed to the 2D molecular confinement in the monolayer. A more quantitative comparison with the theoretical predictions was nonetheless hampered by a poor selection of the experimental reference for comparing data collected in different days, and the limitations in the fitting routines due spectral overlap of the relatively weak amine bands with the OH and CH stretching modes. Interestingly, at high pH when the fatty amine is fully uncharged, the sum frequency spectra show evidence that OH- ion preferentially adsorbed to the surface, making it effectively net negatively charged. Overall, the studies presented in this master thesis, improve our molecular understanding of the behaviour of the biophysically relevant amine-functionality at interfaces.

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Understanding charge transport through molecular junctions and factors affecting the conductivity at the single molecule level is the first step in designing functional electronic devices using individual molecules. A variety of methods have been developed to fabricate metal-molecule-metal junctions in order to evaluate Single Molecule Conductance (SMC). Single molecule junctions usually are formed by wiring a molecule between two metal electrodes via anchoring groups that provide efficient electronic coupling and bind the organic molecular backbone to the metal electrodes. We demonstrated a novel strategy to fabricate single molecule junctions by employing the stabilization provided by the long range ordered structure of the molecules on the surface. The templates formed by the ordered molecular adlayer immobilize the molecule on the electrode surface and facilitate conductance measurements of single molecule junctions with controlled molecular orientation. This strategy enables the construction of orientation-controlled single molecule junctions, with molecules lacking proper anchoring groups that cannot be formed via conventional SMC methods. Utilizing Scanning Tunneling Microscopy (STM) imaging and STM break junction (STM-BJ) techniques combined, we employed the molecular assembly of mesitylene to create highly conductive molecular junctions with controlled orientation of benzene ring perpendicular to the STM tip as the electrode. The long range ordered structure of mesitylene molecules imaged using STM, supports the hypothesis that mesitylene is initially adsorbed on the Au(111) with the benzene ring lying flat on the surface and perpendicular to the Au tip. Thus, long range ordered structure of mesitylene facilitates formation of Au-π-Au junctions. Mesitylene molecules do not have standard anchoring groups providing enough contact to the gold electrode and the only assumable geometry for the molecules in the junction is via direct contact between Au and the π system of the benzene ring in mesitylene. SMC measurements for Au/mesitylene/Au junctions results in a molecular conductance value around 0.125Go, two orders of magnitude higher than the measured conductance of a benzene ring connected via anchoring groups. We attributed this conductance peak to charge transport perpendicular to the benzene ring due to direct coupling between the π system and the gold electrode that happens in planar orientation. The conductance we measured for planar orientation of benzene ring is two order of magnitude larger than conductance of junctions formed with benzene derivatives with conventional linkers. Thus, altering the orientation of a single benzene-containing molecule between the two electrodes from planar orientation to the upright attached via the linkers, results in altering the conductivity in a large order. Based on these findings, by utilizing STM imaging and STM-BJ in an electrochemical environment including potential induced self-assembly formation of terephthalic acid, we designed an electrochemical single molecule switch. Terephthalic acid forms large domains of ordered structure on negatively charged Au(111) surface under negative electrochemical surface potentials with the benzene ring lying flat on the surface due to hydrogen bonding between carboxylic acid groups of neighboring molecules. Formation of long range ordered structure facilitates direct contact between the π system of the benzene ring and the gold electrodes resulting in the conductance peak. On positively charged Au(111), deprotonation of carboxylic acid groups leads to absence of long range ordered structure of molecules with planar orientation and absence of the conductance peak. In this case alternating the surface (electrode) potential from negative to positive charge densities induces a transition in the adlayer structure on the surface and switches conductance value. Hence, electrochemical surface potential can, in principle, be employed as an external stimulus to switch single molecule arrangement on the surface and the conductance in the junction. The observation of conductance switching due to molecule’s arrangement in the junction lead to the hypothesis that for any benzene derivative, an orientation-dependent conductance in the junction due to the contact geometry (i.e. electrode-anchoring groups versus direct electrode-π contact) should be expected. Conventional techniques in fabricating single molecule junctions enable accessing charge transport along only one direction, i.e., between two anchoring groups. However, molecules such as benzene derivatives are anisotropic objects and we are able to measure an orientation-dependent conductance. In order to systematically study anisotropic conductivity at single molecule level, we need to measure the conductance in different and well-controlled orientations of single molecules in the junction. We employed the same EC-STM-BJ set up for SMC measurements and utilize electrochemical potential of the substrate (electrode) as the tuning source to variate the orientation of the single molecule in the junction. We investigated single molecule conductance of the benzene rings with carboxylic acid functional groups in two orientations: one with the benzene ring bridging between two electrodes using carboxylic acids as anchoring groups (upright); and one with the molecule lying flat on the substrate perpendicular to the STM tip (planar). Physisorption of these species on the Au (111) single crystal electrode surface at negative electrochemical potentials results in an ordered structure with the benzene ring in a planar orientation. Positive electrochemical potentials cause formation of the ordered structure with molecules standing upright due to coordination of a deprotonated carboxyl groups to the electrode surface. Thus, formation of the single molecule junction and consequently conductivity measurements is facilitated in two directions for the same molecule and anisotropic conductivity can be studied. In engineering well-ordered two-dimensional (2-D) molecular structures with controlled assembly of molecular species, pH can be employed as another tuning source for the molecular structures and adsorption in experiments conducted in aqueous solutions. Based on simple chemical principles, amine (NH2) groups are hydrogen bond acceptors and donors. Amines are soluble in water and protonation results in protonated (NH3+) and unprotonated (NH2) amine groups in acidic and moderately acidic/neutral solutions, respectively. Thus, amines are suitable molecular building blocks for fabricating 2-D supramolecular structures where pH is employed as a knob to manipulate intermolecular hydrogen bonding leading to phase transitions. We investigated pH induced structural changes in the 1,3,5–triaminobenzene (TAB) monolayer and the formation/disruption of hydrogen bonds between neighboring molecules. Our STM images indicate that in the concentrated acidic solution, the protonated amine groups of TAB are not able to form H-bonds and long range ordered structure of TAB does not form on the Au(111) surface. However, in moderately acidic solution (pH ~ 5.5) at room temperature, protonation on the ring carbon atom generates species capable of forming H-bonds leading to the formation of the long range ordered structures of TAB molecules. Utilizing EC-STM set up, we investigated the controllable fabrication of a TAB 2-D supramolecular structure based on amine-amine hydrogen bonding and effect of pH in formation of ordered/disordered TAB network. / Chemistry