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Ce travail s'inscrit dans le cadre général de la mise au point et de l'étude d'agents potentiellement photothérapeutiques. Dans cette optique, les recherches menées dans notre laboratoire sont consacrées principalement à l'étude de complexes photooxydants de ruthénium(II) contenant des ligands -déficients TAP (1,4,5,8-tétraazaphénanthrène). Ces composés sont en effet capables, sous illumination, d'oxyder différentes biomolécules pour mener, notamment, à la formation de photoadduits qui pourraient perturber le fonctionnement d'enzymes cellulaires in vivo. La première partie de ce travail a été consacrée à la mise au point d'un nouveau système d'ancrage de ces complexes. Elle décrit les voies de synthèse et de purification de deux nouveaux ligands fonctionnalisés: la phen" et le TAP", ainsi que celles de trois nouveaux complexes chélatés par ces nouveaux ligands: le Ru(TAP)2phen"2+, le Ru(TAP)2TAP"2+ et le Ru(phen)2phen"2+. Ces composés ont été attachés, via une liaison oxime, sur oligonucléotides synthétiques et sur polymères biodégradables. La seconde partie de notre travail a été consacrée à l'étude photochimique de conjugués oligonucléotide-complexe sous forme de simples et de doubles brins. Pour les conjugués à base du Ru(TAP)2phen2+, nous avons pu mettre en évidence un photocrosslinking lorsque des guanines étaient présentes dans le brin complémentaire. La formation de ce photoadduit est moins efficace que celle observée avec l'ancien système et montre une dépendance en l'extrémité d'ancrage du complexe (5' ou 3'). Pour les conjugués fonctionnalisés avec le Ru(TAP)32+, nous avons montré que le photocrosslinking, dans le duplexe avec guanines, était moins efficace à cause de la photodéchélation de ce composé. De plus, nous avons pu mettre en évidence un quenching de la luminescence par les bases adénines dans les conjugués simples et doubles brins sans guanine ainsi qu'un photocrosslinking dans le duplexe sans guanine. Enfin, nous avons pu déterminer pour la première fois le rendement quantique de la réaction de photojonction via les bases guanines. Nous avons ensuite étudié, d'un point de vue photophysique et photochimique, des conjugués complexe-polymère biodégradable dont le rôle sera de faire pénétrer les composés photoréactifs à l'intérieur des cellules. D'une part, nous avons montré que la présence du polymère avait peu d'influence sur les propriétés photophysiques des complexes. D'autre part, l'utilisation de différentes techniques, nous a permis de démontrer que les complexes ancrés chimiquement sur ces macromolécules sont toujours capables de photooxyder la guanine et de mener à la formation de photoadduits sur GMP et sur oligonucléotides. Finalement, la dernière partie de notre travail a été consacrée à l'étude des complexes photoréactifs Ru(TAP)2phen2+ et Ru(TAP)32+ en présence de dérivés de la tyrosine. Nous avons pu mettre en évidence un quenching de la luminescence de ces complexes par la tyrosine, la N-acétyl-tyrosine et le tripeptide lysine-tyrosine-lysine. La formation de photoproduits a été montrée par spectroscopie d'absorption et une influence de la concentration en oxygène et de la chaîne principale de l'acide aminé a été observée. Enfin, suite à une étude par HPLC et ES-MS, la formation de dimères de la tyrosine et de complexes ayant perdu un ligand TAP et rechélatés par une tyrosine a pu être proposée.

TRiC (TCP-1 ring complex), a type II chaperonin, facilitates protein folding, and we previously showed that TRiC crosslinks to ribosome-bound actin and luciferase nascent chains. Here, it was found that actin and luciferase nascent chains were adjacent to more than one TRiC subunit at different stages of translation. Six and seven out of the eight TRiC subunits were photocrosslinked to the luciferase and actin nascent chains, respectively. Actin nascent chains with widely-spaced, site-specific probe locations were adjacent to the same three TRiC subunits (a, b and e) at different stages of translation. The exposure of other TRiC subunits to nascent chains varied with the length and identity of the nascent chain. In addition, the presence or absence of ATP influences the photocrosslinking yields. This suggests that ATP alters the conformation of the subunits and/or their affinity for the nascent chain. Photocrosslinking also revealed that TRiC is in close proximity to the exit site of the ribosomal tunnel, presumably to create a protected folding environment for the nascent chain. Immunoprecipitations under native conditions revealed that prefoldin photocrosslinks to the actin nascent chain and that these prefoldin-containing photoadducts are coimmunoprecipitated with antibodies specific for the TRiC a subunit. This result suggests that prefoldin and TRiC bind simultaneously to the same actin nascent chain. Photocrosslinking studies with probes at position 68 in the actin nascent chain revealed that prefoldin binds to the nascent chain subsequently to TRiC binding. An unknown protein with an apparent molecular mass of 105 kDa was shown to photocrosslink to the luciferase nascent chain in a length-dependent manner at specific probe locations close to the N-terminus of the nascent chain. Thus, the nascent chain sees a variety of proteins in its immediate environment as it emerges from the ribosomal tunnel and undergoes its chaperonin-assisted folding.

The development of high-efficiency nonlinear optical (NLO) polymers has opened up many opportunities in the field of electro-optics. However, current NLO polymers do not meet stability requirements for semiconductor integration. In an effort to improve this, we examined the effects of crosslinking following electric field poling. A series of photocrosslinkable polymers bearing side chain chromophores was synthesized, poled and evaluated on the basis of the thermal stability of Second Harmonic Generation. Photoinitiation allowed for control of the onset of curing. Crosslinking was monitored by FTIR and optimal conversion was achieved by applying a slow temperature ramp during exposure. The ultimate stability of the poled polymers was directly related to the number of crosslinking substituents attached to the chromophore pendant group. With two reactive groups per chromophore significant SHG was retained at temperatures beyond the polymer Tg. In integrated circuit packaging there is a need for directly-patternable polymers of low dielectric constant. Bridging the gap between the high-value silicon chip and circuit board is a substrate comprising alternating layers of metal conductor and polymer dielectric. PMDA-ODA, an aromatic polyimide, meets many of the requirements for integration and can be patterned using a photobase generator (PBG). Due to absorbance by the PMDA-ODA precursor, this PBG must have activity at visible wavelengths. Several oxime urethanes were synthesized and evaluated as candidate long wavelength PBG. These compounds exhibit clean photochemistry and high visible light sensitivity. Unfortunately, carbamate thermal stability is insufficient for patterning PMDA-ODA. For improved material properties, PMDA-TFMB, a fluorinated polyimide, was also evaluated. Importantly, the polymer precursor is sufficiently transparent to employ thermally-stable near-UV photobases. With photobase, 2.5 micron features were resolved in PMDA-TFMB. An ancillary benefit of this methodology is reduced cure temperature (~200 °C), a traditional drawback of polyimides. This material demonstrates a dielectric constant near 3 and a thermal expansion coefficient (CTE) of approximately 6 ppm/°C in-plane. Through-plane thermal expansion is somewhat problematic, with a CTE of approximately 160 ppm/°C, and will likely require a nanoparticle composite strategy. However, this combination of material and lithographic properties make PMDA-TFMB a promising candidate for this application. / text

The hallmark of Gram-negative bacteria is the presence of an outer membrane (OM) surrounding the cytoplasmic membrane (here called the inner membrane [IM]) and the cell wall. The OM is a unique asymmetric bilayer with an inner leaflet consisting of phospholipid and an outer leaflet consisting of lipopolysaccharide (LPS). LPS is a large anionic molecule that typically contains six fatty acyl chains and up to several hundred sugar residues. This chemical structure explains why the OM is relatively impermeable to large hydrophobic molecules, such as detergents, bile salts, and high molecular weight antibiotics, which readily cross a normal phospholipid bilayer. LPS and the OM are essential to the viability of most Gram-negative organisms, including major human pathogens. LPS molecules are biosynthesized at the IM and subsequently exported out of the IM, across the intermembrane space (the periplasm) and through the OM to their final position at the cell surface. In Escherichia coli, the essential LPS transport proteins, LptA-G, are required for this process. This Lpt pathway includes an IM adenosine triphosphate binding cassette (ABC) transporter, LptBFG, which is associated with an additional IM protein, LptC; a periplasmic protein, LptA; and an OM complex consisting of the lipoprotein LptE and the transmembrane \(\beta\)-barrel protein LptD. All seven Lpt proteins associate as a single complex that spans the cell envelope. However, little is known about how these proteins work together to transport LPS. Here, we use in vivo and in vitro biochemical studies to probe the organization, function, and assembly of the Lpt machine. In Chapter 2, we show that LptE forms a plug within the LptD \(\beta\)-barrel and present a model for how this unusual structure can move LPS from the periplasm directly into the outer leaflet of the OM. In Chapter 3, we demonstrate that the Lpt transenvelope bridge consists of a series of structurally homologous domains – LptC, LptA, and the N-terminal domain of LptD – stacked in a head-to-tail orientation, providing a route for LPS from the IM to the OM. Finally, in Chapter 4, we connect these two sets of results by showing how the assembly of the Lpt transenvelope bridge is regulated by that of the LptD/E complex in the OM. Together, these findings explain how the functions of the Lpt proteins are coordinated to ensure delivery of LPS to the correct cellular compartment. A fundamental understanding of LPS biogenesis will contribute to the development of new therapies against Gram-negative infections.

Dissecting the Mechanisms of Direct Activation for Proapoptotic BAK and BAX / Chemistry and Chemical Biology

Signaling lipids such as diacylglycerol (DAG) and the phosphatidylinositol polyphosphates (PIPns) play crucial roles in numerous cellular pathways. However, characterization of their activities is hindered by the complexity of associated signaling pathways and of the membrane environment. To address this issue, we have developed lipid probes that are effective for characterizing biological events using different applications, including activity-based probing (PIPns and DAG) and microarray analysis (PIPns). The activity-based probes have been applied to label receptor targets in multiple cancer cell proteomes through photocrosslinking followed by click reactions. The probes were found to label several proteins, as judged by on-gel fluorescence, and labeling was abrogated through various controls, such as heat denaturation and competition. Proteomic studies have been successfully performed to identify protein targets through biotin enrichment followed by mass spectrometric analysis. For microarray analysis, functionalized PIPn probes were synthesized and applied to develop a high throughput microarray analysis to measure protein-lipid binding affinity. These approaches will be invaluable for characterizing PIPn/DAG-regulated events and their involvement in disease. The design, synthesis and application of these lipid probes are included in this dissertation. In addition, the design and synthesis of other lipid probes are discussed, such as bis(monoacylglycero)phosphate (BMP), and lysophophatidylcholine (LPC) analogs.

The primary objective of my thesis was to investigate the effect of crimp-like fibrous scaffolds on bovine fibroblasts and to develop a scaffold for anterior cruciate ligament (ACL) tissue engineering. To achieve this objective, fibrous biodegradable polymeric scaffolds were fabricated, which upon relaxation developed a crimp-like structure, which resembled the crimp seen in native collagen. The understanding of the crimp mechanism allowed for controlling crimp-like patterns in various polymer fibre systems, and was determined to be due to residual stress coupled with an operating temperature (Top) above the glass transition temperature of the polymer (Tg). The benefit of crimp was evaluated by seeding fibroblasts on crimp-like fibres that were subjected to dynamic mechanical loading. The results showed a significant increase in extracellular matrix (ECM) accumulation by fibroblasts that experienced crimp unfolding. In addition, fibroblasts seeded on mechanically stimulated crimp-like fibrous scaffolds formed ECM bundles that resembled collagen fibre fascicles. Two separate studies were conducted to fabricate fibrous scaffolds with high modulus: one on thermoplastic polyesters and the other on a photocrosslinkable polyester. Of the thermoplastic polyesters investigated, poly(L-lactide-co-D,L-lactide) P(LLA-DLLA) exhibited the highest modulus, and was the most resistant to hydrolytic degradation. These fibres were placed in a heated aqueous environment to exhibit a crimp-like pattern similar to that of native collagen. Bovine fibroblasts were shown to attach, proliferate and deposit ECM on the surface of the P(LLA-DLLA) fibrous scaffolds. In addition, the deposited ECM appeared to be organized in distinctive bundles that resembled fascicles found in native ACL. However, upon crimp unfolding the crimp was not completely recovered. Photocrosslinkable poly(L-lactide-co-trimethylene carbonate cinnamate) P(LLA-TMC cinnamate) fibres in addition to supporting cell proliferation and ECM accumulation, completely recovered their crimp-like pattern, via [2 + 2] cycloaddition of the cinnamate groups. The recovery of crimp upon unfolding is a novel design feature incorporated into electrospun fibres as it innately mimics the function of collagen fibres found in the ACL. From the results obtained it is evident that crimp and its unfolding are key design features/conditioning techniques that need to be incorporated into fibrous scaffolds that possess high modulus, intended for ligament tissue engineering. / Thesis (Ph.D, Chemical Engineering) -- Queen's University, 2012-01-05 14:11:25.965

Elastin like polypeptides (ELPs) are a class of naturally derived biomaterials that are non-immunogenic, genetically encodable, and biocompatible making them ideal for a variety of biomedical applications, ranging from drug delivery to tissue engineering. Also, ELPs undergo temperature-mediated inverse phase transitioning, which allows them to be purified in a relatively simple manner from bacterial expression hosts. Being able to genetically encode ELPs allows for the incorporation of bioactive peptides and functionalization of ELPs. This work utilizes ELPs for regenerative medicine and drug delivery. The goal of the first study was to synthesize a biologically active epidermal growth factor-ELP (EGF-ELP) fusion protein that could aid in the treatment of chronic wounds. EGF plays a crucial role in wound healing by inducing epithelial cell proliferation and migration, and fibroblast proliferation. The use of exogenous EGF has seen success in the treatment of acute wounds, but has seen relatively minimal success in chronic wounds because the method of delivery does not protect exogenous EGF from degradation, or prevent it from diffusing away from the application site. We created an EGF-ELP fusion protein to combat these issues. As demonstrated through the proliferation of human skin fibroblasts in vitro, the EGF-ELP may be able to aid in the treatment of chronic wounds. Furthermore, the ability of the EGF-ELP to self-assemble near physiological temperatures could allow for the formation of drug depots at the wound site and minimize diffusion, increasing the bioavailability of EGF and enhancing tissue regeneration. The objective of the second study was to create an injectable hydrogel platform that does not require conjugation of functional moieties for crosslinking or biological activity. Hydrogels are three-dimensional polymer networks that are able to absorb water and biological fluids without dissolving. Their high water content gives them physical properties similar to soft tissues, making them useful as scaffolds for cell migration and drug delivery vehicles. Injectable hydrogels that crosslink in situ are particularly useful because they can form to the shape of the defect, providing a near perfect fit. However, many hydrogel platforms cannot be crosslinked in situ because cytotoxic crosslinking reagents are required. Additionally, hydrogels typically require the chemical conjugation of crosslinking domains and bioactive peptides to the polymer backbone, adding more steps and time required for hydrogel production. We devised an injectable hydrogel platform that can be synthesized in a single step using photoreactive ELPs as the polymer backbone. Leucine auxotrophic Eshcherichia coli expressed ELPs containing photoleucine, a leucine analog and photoreactive diazirine crosslinker, which is substituted for leucine periodically throughout the ELP sequence. Upon exposure to ultraviolet radiation (~370 nm), photoleucine is able to form covalent crosslinks with amino acid side chains, forming a polymer network for hydrogel formation. Additionally, recombinant growth factors and morphogens can be encoded into the ELP sequence providing a simple method of hydrogel functionalization for regenerative medicine applications. The potential for this platform was demonstrated through in vivo crosslinking of photoreactive ELPs in the expression hosts. Though the production of the photoreactive ELP was not as forthright as originally assumed. The substitution of noncanonical amino acids typically requires the auxotrophic expression hosts to be starved of the amino acid that they are auxotrophic for. A noncanonical analog of said amino acid can then be supplemented into expression media, maximizing incorporation. In this investigation, it was found the addition of photoleucine alone inhibited photoreactive ELP expression. ELP expression only occurred in the presence of photoleucine if valine or leucine was also present in the media. Furthermore, valine was found to aid the production of ELPs as much as leucine. It was postulated the bacterial translational machinery might need to be altered for optimal ELP expression.

L’entreprise Chomarat produit des feuilles en polyoléfine pour les revêtements intérieurs de voitures. Ces feuilles sont grainées afin de leur donner un aspect de surface particulier qui constitue un élément psychosensoriel important pour le consommateur. Les feuilles grainées doivent être thermoformées afin de pouvoir leur imprimer la forme de la structure rigide qui les supportera. L’étape de thermoformage se déroule à haute température et constitue de ce fait une étape critique du processus. En effet, lors de la déformation en température, l’étirement du matériau tend à déformer le grain de façon non homogène, voire à le faire disparaître. Pour obtenir des matériaux avec une bonne tenue du grain, les feuilles grainées sont partiellement réticulées. Ce travail de thèse vise à développer des formulations réticulables répondant à cette problématique. Deux voies de réticulation ont été envisagées : la réticulation par irradiation sous faisceau d’électrons et ou par insolation UV. Cette dernière méthode de réticulation est totalement novatrice dans ce domaine industriel. Les terpolymères éthylène-propylène-diène monomère (EPDM) présentent des caractéristiques favorisant la réticulation. L’effet de l’irradiation (EB ou UV) sur ces élastomères, ainsi que leurs mélanges avec du polypropylène (PP), a été étudiée. Les caractérisations ont principalement été menées par des mesures de rhéologie, des mesures de taux de gel et des calculs de densité de réticulation. Dans un premier temps, seule l’irradiation EB a été testée, sur des EPDM ainsi que sur d’autres types d’élastomères. Ensuite, les effets de l’irradiation UV ont été étudiés à travers la mise en place d’une étude modèle sur des oligomères de faibles masses choisis pour simuler le comportement des doubles liaisons des EPDM. La composition des différentes formulations étudiées comprenait donc un oligomère, un monomère multifonctionnel et un photoamorceur permettant la photoréticulation. Suite à cette étude, les meilleurs couples « photoamorceur / agent de réticulation » ont été transposés à des EPDM, d’abord en utilisant un EPDM de faible masse molaire puis un EPDM de haute masse molaire utilisé couramment dans les formulations au niveau industriel. Enfin, l’ajout du PP et en dernier lieu l’ajout de pigments et d’agents anti-UV ont été étudiés sur l’efficacité de la photoréticulation. / The Chomarat company manufactures polyolefin based sheets for automotive parts. These sheets are grained in order to give them a particular surface pattern which represents an important psycho-sensory aspect for consumers. The grained sheets must be thermoformed to give them the shape of the rigid structure on which they will be set in place. The thermoforming step is proceeded at high temperature and is therefore a critical step of this process. Indeed, while being deformed in temperature, the stretching of the material tends to distort the grained pattern in a non-homogeneous way and even to cancel it. In order to obtain materials that give an acceptable retention of the pattern after being thermoformed, the grained sheet must be partially crosslinked. This thesis work aims to develop crosslinkable formulations that are able to achieve this challenge. Two crosslinking methods have been considered: crosslinking using electron beam (EB) irradiation or UV irradiation. This last method is a pioneering crosslinking pathway in this industrial field. Terpolymers of ethylene-propylene-diene monomers (EPDM) have chemical structures that promote crosslinking. The effect of irradiation (EB or UV) on these elastomers, as well as on their blends with polypropylene (PP) have been studied. The characterisations have been mainly monitored using rheological measurements, gel contents measurements and crosslinking densities calculations. Firstly, only the effects of EB irradiation on EPDM and other types of elastomers have been investigated. Then, the effects of UV irradiation have been studied through a modelling study on low mass oligomers chosen to mimic the behaviour of EPDM double bonds. The different formulations studied were composed of an oligomer, a multifunctional monomer acting as a crosslinker and a photoinitiator allowing the crosslinking. Following this study, the best photoinitiator/crosslinking agent couples were transposed to EPDM, using firstly a low mass EPDM then a high mass one frequently used in formulations in industrial fields. At last, the effects on the photocrosslinking efficiency of adding first PP then pigments and anti-UV agents have been examined.