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The colloidal self-assembly of plasmonic gold nanoparticles (AuNPs) is of interest to utilize the plasmonic coupling effects that arise between nanoparticles. The enhanced properties of anisotropic AuNPs make them particularly attractive in self-assemblies. Herein, a literature study into the different strategies used to obtain self-assemblies of AuNPs using molecular linkers is presented. The use of nanospheres (AuNS) and nanorods (AuNRs) were mainly reviewed. Thereafter, two different nanobipyramids (AuBPs) were investigated for use in self-assemblies. The concentration of cetyltrimethylammonium bromide (CTAB), which coats the AuNP surface, was manipulated to study the stability of the AuNPs. A stable, meta-stable and non-stable region were identified for the nanoparticles. At low CTAB levels, the AuNPs preferentially assemble end-to-end. The addition of L-cysteine to stable AuNP dispersion induced end-to-end assembly, showing promise as a molecular linker for AuBPs. The addition of excess CTAB stabilized the assemblies over time. The kinetic behaviour of the two AuBPs differed, suggesting the effect of the AuNP shape on the self-assembly kinetics. This study provides a starting point for the development of a robust self-assembly strategy for anisotropic AuNPs by using L-cysteine as a molecular linker. / Den kolloidala självsammansättningen av ytplasmoniska guld nanopartiklar (AuNPs) är av intresse för att utnyttja de plasmoniska kopplingseffekterna som uppstår mellan nanopartiklar. De fördelaktiga egenskaperna hos anisotropa AuNP gör dem särskilt intressanta för självsammansättningar. En litteraturstudie har gjorts på de olika strategier som används för att erhålla självsammansättningar av AuNPs med hjälp av molekylära länkar. Användningen av nanosfärer (AuNS) och nanostavar (AuNRs) i självsammansättningar undesöktes huvudsakligen. Därefter undersöktes två olika nanobipyramider (AuBPs) för användning i självsammansättningar. Koncentrationen av cetyltrimetylammonium bromid (CTAB), som täcker AuNP-ytan, manipulerades för att undersöka AuNPs stabilitet. En stabil, meta-stabil och instabil region identifierades för nanopartiklarna. Vid låga CTAB-nivåer sammansätts AuNPs ände-mot-ände. Tillsatsen av L-cystein till stabila AuNP dispersioner inducerade sammansättningar ände-mot-ände, vilket visar L-cysteins potential som en molekylär länk för AuBPs. Tillsatsen av en stor mängd CTAB stabiliserade självsammansättningarna för en längre tid. Det kinetiska beteendet hos de två AuBPs skilde sig, vilket tyder på effekten av AuNP-formen på den självsammansättningskinetiken. Denna studie erbjuder en startpunkt för utvecklingen av en robust självsammansättningstrategi för anisotropa AuNPs genom att använda L-cystein som en molekylär länk.

No description available.

A new detection reagent that could possibly augment or replace antibodies research and diagnosis methods are aptamers. Aptamers are ssDNA, RNA or polypeptide constructs that function like active antibodies. Antibodies and aptamers both specifically bind to selected target molecules, and as such they enable the detection or targeting of the presence or absence of a specific antigen. In order to ensure that ssDNA aptamers perform similarly to antibodies, anti-VEGF-A polyclonal antibody and anti-VEGF-A ssDNA aptamer were evaluated against vascular endothelial growth factor A (VEGF-A) using Surface Plasmon Resonance (SPR). It was hypothesized that the anti-VEGF-A aptamer had the same, if not better, binding kinetics than the anti-VEGF-A polyclonal antibody, and as such offers an ideal replacement for use in in field, real-time testing assays. SPR revealed that both the polyclonal antibody and ssDNA aptamer bound the target antigen, VEGF-A. Additionally, from the SPR kinetic analysis, the anti-VEGF-A aptamer had KD values of 20-28 nM and the anti-VEGF-A antibody had KD values of 16-127 uM. The binding efficacy of the aptamer was several orders of magnitude better than that of the antibody. The aptamer was also stable in solution for a longer amount of time than the antibody, which denatured in solution after two weeks.

Interactions between biomolecules and cellulose films at solid/liquid interfaces was studied by surface plasmon resonance spectroscopy (SPR), quartz crystal microbalance with dissipation monitoring (QCM-D) and in situ atomic force microscopy (AFM) measurements. This dissertation shows the porous character of nanocrystalline cellulose films as the key feature for enhanced adsorption of chemically modified polysaccharides and provides quantitative analysis of polymer supported phospholipid structures as a stable platform for studying membrane-related processes. Smooth cellulose I films were prepared by spincoating cellulose nanocrystal suspensions onto positively charged self-assembled monolayers on gold. The adsorption of pullulan cinnamate (PC) onto cellulose surfaces increased with increasing degree of cinnamate substitution. The interactions between PCs with higher degree of substitution (DS) and porous nanocrystalline cellulose (NC) films presumably generated looped multilayer PC structures that adsorbed more than twice as much onto NC films than onto regenerated cellulose (RC) films. PC chains not only covered the NC surface but also penetrated into the porous film. The porous features of NC film are responsible for the greater adsorption of polymer chains relative to tightly packed RC films. Adsorption of phospholipid vesicles onto RC and NC films was also studied. Aggregates of intact vesicle were observed on NC surfaces with high water content ~ 84 % by mass. Phospholipid patches with smooth features were found to assemble onto RC surfaces with a lower degree of hydration ~ 30 % by mass. Vesicle membrane breakage was triggered by a destabilizing agent, LysoPC. The great mass decrease, and changes in dissipation and degree of hydration for phospholipid structures after exposure to LysoPC corresponded to the transformation from vesicles to layered structures. Initial binding of LysoPC micelles to unruptured vesicles was clearly resolved in SPR, whereas the huge mass decrease associated with bound water hides the initial adsorption of LysoPC onto vesicles in QCM-D experiments. The intitial binding of LysoPC micelles onto vesicle membranes lasted for 200 seconds with a maximal increase of 14 % by mass prior to vesicle collapse. The role of cholesterol in phospholipid interactions with model cellulose surfaces was also considered. Supported vesicle layers over RC surfaces were observed for vesicle membranes containing ≥ 6.3 % by mole cholesterol, whereas phospholipid or phospholipid with lower cholesterol content formed disconnected lipid islands on RC surfaces. Meanwhile, intact vesicles were always observed on NC surfaces for phospholipid/cholesterol blends regardless of the cholesterol content. The intact vesicles on cellulose surfaces were attributed to the ability of cholesterol to accommodate vesicle deformation. These studies showed the impact of mesoscale structure of cellulose films on adsorbates. It sheds light on the role of the lignin-carbonhydrate-complex in plant cell wall structure and will inform the next generation of biomimetic nanocomposites. The designed polymer supported biomimetic membranes provide a perfect platform to develop intact and ruptured protoplast systems for the study of plant cell wall self-assembly. / Ph. D.

The first thermal cycling experiments of ionic self-assembled multilayer (ISAM) films have been reported examining their survivability through repeated thermal cycles from -20° C to 120° C in ambient atmospheric conditions. The films were constructed from alternating layers of Nile Blue A and gold nanoparticles which provided a strong absorbance in the optical wavelength range. No degradation of the optical characteristics of the ISAM films was observed [1]. Techniques for measuring the capacitance and resistivity of various ISAM films have also been developed allowing for a more complete electrical characterization of ISAM films. Capacitance measurements enabled a calculation of the dielectric function and breakdown field strength of the ISAM films. The capacitance measurement technique was verified by measuring the dielectric function of a spin-coated thin film PMMA, which has a well characterized dielectric function [2]. Surface-enhanced Raman spectroscopy (SERS) has been studied as a possible detection method for malignant melanoma revealing spectral differences in blood sera from healthy horses and horses with malignant melanoma. A SERS microscope system was constructed with the capability of resolving the Raman signal from biologically important molecules such as beta-carotene and blood sera. The resulting Raman signals from sera collected from horses with malignant melanoma were found to have additional peaks not found in the Raman signals obtained from sera collected from healthy horses. A systematic analysis of the combination of absorbance and fluorescence signals of blood sera collected from populations of healthy dogs and dogs with cancer has resulted in a rapid and cost-effective method for monitoring protein concentrations that could possibly be used as part of a cancer screening process. This method was developed using the absorbance and fluorescence signals from known serum proteins, the combinations of which were used to match the absorbance and fluorescence signals of blood sera allowing for an accurate determination of protein concentrations in blood sera [3]. Finally, a novel method for measuring the melting point of DNA in solution using capacitance measurements is presented. This method allows for the determination of the melting temperature as well as the melting entropy and melting enthalpy of DNA strands. Two different short strands of DNA, 5'-CAAAATAGACGCTTACGCAACGAAAAC-3' along with its complement and 5'-GGAAGAGACGGAGGA-3' along with its complement were used to validate the technique as the characteristics of these strands could be modeled using theoretical methods. This experimental technique allows for the precise determination of the melting characteristics of DNA strands and can be used to evaluate the usefulness of theoretical models in calculating the melting point for particular strands of DNA. Additionally, a micro-fluidic device has been proposed that will allow for a rapid and cost-effective determination of the melting characteristics of DNA [4]. / Ph. D.

Adaptor proteins, like Tollip and Tom1, facilitate cellular cargo sorting through their ubiquitin-binding domains. Tollip and Tom1 bind to each other through their TBD and GAT domains, respectively, whereas Tollip interacts with phosphatidylinositol-3-phosphate (PtdIns(3)P)-containing endosomal membranes. Tom1 and Tollip interaction and association with endosomes is proposed to be involved in the lysosomal degradation of polyubiquitinated cargo. Through cellular, biochemical, and biophysical techniques, we have further characterized the association of Tom1 with Tollip. Mutations in the binding interface of the Tom1 GAT and Tollip TBD complex leads to a subcellular mis-localization of both proteins, indicating that Tom1 may serve to direct Tollip to specific cellular pathways. It was determined that Tom1 inhibits the binding of Tollip to PtdIns(3)P and inhibition was reversed when mutations in the binding interface of the Tom1 GAT and Tollip TBD were present. Furthermore, it was established that, upon the binding of Tollip TBD to Tom1 GAT, ubiquitin is inhibited from binding to Tom1 GAT. It was also demonstrated that Tom1 GAT, but not Tollip TBD, can weakly bind to PtdIns(3)P. Consequently, we propose that association of Tom1 may serve to direct Tollip for involvement in specific cell signaling pathways. Gaining insight into the function of Tom1 and Tollip may lead to their use as therapeutic targets for increasing the efficiency of cargo trafficking and also for patients recovering from various cardiac injuries. / Master of Science

No / We report on the development and on the first use of the widefield surface plasmon (WSPR) microscope in the examination of the cell surface interface at submicron lateral resolutions. The microscope is Kohler illuminated and uses either a 1.45 numerical aperture (NA) oil immersion lens, or a 1.65 NA oil immersion lens to excite surface plasmons at the interface between a thin gold layer and a glass or sapphire cover slip. Like all surface plasmon microscope systems the WSPR has been proven in previous studies to also be capable of nanometric z-scale resolutions. In this study we used the system to image the interface between HaCaT cells and the gold layer. Imaging was performed in air using fixed samples and the 1.45 NA objective based system and also using live cells in culture media using the 1.65 NA based system. Imaging in air enabled the visualisation of high resolution and high-contrast submicron features identified by vinculin immunostaining as component of focal contacts and focal adhesions. In comparison, imaging in fluid enabled cell surface interfacial interactions to be tracked by time-lapse video WSPR microscopy. Our results indicate that the cell surface interface and thus cell signalling mechanisms may be readily interrogated in live cells without the use of labelling techniques.

Résumé : Malgré le nombre croissant de capteurs dans les domaines de la chimie et la biologie, il reste encore à étudier en profondeur la complexité des interactions entre les différentes molécules présentes lors d’une détection à l’interface solide-liquide. Dans ce cadre, il est de tout intérêt de croiser différentes méthodes de détection afin d’obtenir des informations complémentaires. Le principal objectif de cette étude est de dimensionner, fabriquer et caractériser un détecteur optique intégré sur verre basé sur la résonance plasmonique de surface, destiné à terme à être combiné avec d’autres techniques de détection, dont un microcalorimètre. La résonance plasmonique de surface est une technique reconnue pour sa sensibilité adaptée à la détection de surface, qui a l’avantage d’être sans marquage et permet de fournir un suivi en temps réel de la cinétique d’une réaction. L’avantage principal de ce capteur est qu’il a été dimensionné pour une large gamme d’indice de réfraction de l’analyte, allant de 1,33 à 1,48. Ces valeurs correspondent à la plupart des entités biologiques associées à leurs couches d’accroche dont les matrices de polymères, présentés dans ce travail. Étant donné que beaucoup d’études biologiques nécessitent la comparaison de la mesure à une référence ou à une autre mesure, le second objectif du projet est d’étudier le potentiel du système SPR intégré sur verre pour la détection multi-analyte. Les trois premiers chapitres se concentrent sur l’objectif principal du projet. Le dimensionnement du dispositif est ainsi présenté, basé sur deux modélisations différentes, associées à plusieurs outils de calcul analytique et numérique. La première modélisation, basée sur l’approximation des interactions faibles, permet d’obtenir la plupart des informations nécessaires au dimensionnement du dispositif. La seconde modélisation, sans approximation, permet de valider le premier modèle approché et de compléter et affiner le dimensionnement. Le procédé de fabrication de la puce optique sur verre est ensuite décrit, ainsi que les instruments et protocoles de caractérisation. Un dispositif est obtenu présentant des sensibilités volumiques entre 1000 nm/RIU et 6000 nm/RIU suivant l’indice de réfraction de l’analyte. L’intégration 3D du guide grâce à son enterrage sélectif dans le verre confère au dispositif une grande compacité, le rendant adapté à la cointégration avec un microcalorimètre en particulier. Le dernier chapitre de la thèse présente l’étude de plusieurs techniques de multiplexage spectral adaptées à un système SPR intégré, exploitant en particulier la technologie sur verre. L’objectif est de fournir au moins deux détections simultanées. Dans ce cadre, plusieurs solutions sont proposées et les dispositifs associés sont dimensionnés, fabriqués et testés. / Abstract : In spite of the growing number of available biosensors, many biochemical reactions and biological components have not yet been studied in detail. Among them, some require the combination of several detection techniques in order to retrieve enough information to characterize them fully. An unknown reaction based, for example, on DNA hybridization could be characterized with an electrochemical sensor, a mechanical sensor and an optical sensor, each giving a different type of information. The main objective of the work presented here is to design, fabricate and characterize a flexible integrated optical biosensor based on surface plasmon resonance, intended to be then combined with other detection techniques, and in particular, a microcalorimeter. Surface Plasmon Resonance (SPR) is well known to be a sensitive technique for surface-based biochemical detection. It has the advantage to be an unlabeled method and provides real time information on the kinetics of a reaction. The flexibility of the proposed SPR biosensor comes from the fact that it is designed for a large range of analyte refractive indices, from 1.33 to 1.48. These values are suitable for most biological entities and their ligand layers, and especially for hydrophilic polymer matrices used to trap DNA or protein entities and introduced in this work. As several biochemical studies require the simultaneous comparison of measurements to a reference or to another measurement, the second objective of this project is to study the potential of multi-analyte detection in an integrated SPR device on glass. The first three chapters of the thesis are focused on the main objective. The design based on two different models is presented, at the same time as the related simulation tools. The first model is based on the weak coupling approximation and permits to obtain most of the information for the device’s design. The second model, having no approximation, is used to validate the first model and complete and refine the design. The fabrication process of the glass chip is then introduced, as well as the characterization instruments and protocols. A device is obtained, with a volumetric sensitivity between 1000 nm/RIU and 6000 nm/RIU depending on the analyte refractive index. The 3D integration of the waveguide within the glass substrate makes the device extremely compact and adapted to the integration with the microcalorimeter in particular. The last chapter describes the study of several spectral multiplexing techniques adapted to an integrated SPR system using the glass technology. The goal is to provide at least two simultaneous measurements. Several detection techniques are examined and the related devices are designed, fabricated and characterized.

Optical trapping of metal nanoparticles investigates phenomena at the interface of plasmonics and optical micromanipulation. This thesis combines ideas of optical properties of metals originating from solid state physics with force mechanism resulting from optical trapping. We explore the influence of the particle plasmon resonance of gold and silver nanospheres on their trapping properties. We aspire to predict the force mechanisms of resonant metal particles with sizes in the Mie regime, beyond the Rayleigh limit. Optical trapping of metal nanoparticles is still considered difficult, yet it provides an excellent tool to investigate their plasmonic properties away from any interface and offers opportunities to investigate interaction processes between light and nanoparticles. Due to their intrinsic plasmon resonance, metal nanoparticles show intriguing optical responses upon interaction with laser light. These differ greatly from the well-known bulk properties of the same material. A given metal nanoparticle may either be attracted or repelled by laser light, only depending on the wavelength of the latter. The optical forces acting on the particle depend directly on its polarisability and scattering cross section. These parameters vary drastically around the plasmon resonance and thus not only change the magnitude but also the direction and entire nature of the acting forces. We distinguish between red-detuned and blue-detuned trapping, that is using a trapping wavelength shorter or longer than the plasmon resonance of the particle. So far optical trapping of metal nanoparticles has focussed on a wavelength regime far from the particle’s resonance in the infrared. We experiment with laser wavelengths close to the plasmon resonance and expand the knowledge of metal nanoparticle trapping available to date. Existing theoretical models are put to the test when we compare these with our real experimental situations.