Les microtubules sont des éléments dynamiques du cytosquelette qui contrôlent à la fois l’organisation du cytoplasme, la polarité, la migration et la division cellulaire. Notre laboratoire a précédemment montré que la kinase de stress JNK (c-Jun NH2-terminal Kinase) régule la dynamique des microtubules dans les cellules épithéliales de mammifères, en augmentant les vitesses de polymérisation, ainsi que les fréquences de sauvetage (transition vers une phase de repolymérisation). Alors que certaines protéines neuronales capables de réguler la dynamique des microtubules ont été identifiées comme des substrats de JNK, leurs équivalents dans les cellules épithéliales sont largement méconnus. Dans le but de comprendre comment JNK module la dynamique des microtubules dans les cellules épithéliales de mammifère, nous avons étudié deux substrats potentiels de JNK : la -tubuline et le facteur de sauvetage CLIP-170. Nous avons bien mis en évidence in vitro, une phosphorylation de la -tubuline par JNK sur une thréonine non-consensus, mais cette phosphorylation n’a pas été retrouvée dans les cellules HeLa, suggérant que la -tubuline n’est pas un substrat naturel de JNK in vivo. Nous avons mis en évidence par ailleurs que CLIP-170 est un nouveau substrat de JNK. Dans les cellules épithéliales, JNK activée phosphoryle trois résidus (Thr25, Thr45 et Ser147) situés dans la partie N-terminale de CLIP-170 de part et d’autre du premier domaine CAP-Gly qui est nécessaire pour l’interaction avec les microtubules. Ces acides aminés présentent des différences aussi bien dans leur phosphorylation basale que dans leurs cinétiques de phosphorylation par JNK sous divers stress. De plus, nous avons trouvé que dans différentes cellules épithéliales, la phosphorylation de ces sites est conservée. In vitro, ces résidus sont directement phosphorylés par JNK, préférentiellement quand le domaine N-terminal de CLIP-170 lie la tubuline. De plus, l’expression de mutants de CLIP-170 phospho-mimétiques et non-phosphorylables a montré que la phosphorylation de chaque site augmente la fréquence des sauvetages microtubulaires. Cette modulation n’est pas corrélée à une augmentation de la capacité de CLIP-170 à former des comètes aux extrémités plus en croissance ou à être retenue aux croissements microtubulaires, qui sont des sites de sauvetage potentiels.Ce travail a permis de décrire les premières phosphorylations de CLIP-170 qui stimulent sa fonction de sauvetage in vivo. Il souligne par ailleurs la complexité des mécanismes de sauvetage, qui demeurent un aspect encore énigmatique de l’instabilité dynamique des microtubules. L’activité de JNK sur CLIP-170 ne permet d’expliquer qu’une partie des effets de la kinase sur la dynamique des microtubules, aussi la recherche d’autres protéines cibles de JNK pouvant réguler notamment leur vitesse de polymérisation, reste à entreprendre. / Microtubules are dynamic cytoskeleton elements, which control cytoplasm organization, cell polarity, migration and division. Our laboratory has previously shown that the stress kinase JNK (c-Jun NH2-terminal Kinase) regulates microtubule dynamics in mammalian epithelial cells, by increasing their growth rates, and their rescue frequencies (transition towards phases of repolymerization). While several neuronal proteins regulating microtubule dynamics have been identified as JNK substrates, their counterparts in epithelial cells are largely unknown. With the aim to understand how JNK modulates microtubule dynamics in mammalian epithelial cells, we studied two putative substrates of JNK: -tubulin and the rescue factor CLIP-170. Regarding -tubulin, using an in vitro kinase assay, we found that a non-consensus threonine is actually phosphorylated by JNK, but we were not able to find this phosphorylation in HeLa cells, suggesting that -tubulin is not a natural JNK substrate. In parallel, we found that CLIP-170 is a new substrate of JNK in epithelial cells. Activated JNK phosphorylates three residues (Thr25, Thr45 and Ser147) located in the N-terminal part of CLIP-170, on each side of the first CAP-Gly domain, which is required for CLIP-170 interaction with microtubules. These residues exhibit differences in their level of basal phosphorylation and their kinetics of phosphorylation by JNK under various stresses. Moreover, we found that in different epithelial cells, the phosphorylation of these sites is conserved. Using an in vitro kinase assay, we found that all these residues are directly phosphorylated by JNK, preferentially when the N-terminal domain of CLIP-170 binds tubulin. Furthermore, using phospho-mimetic and non-phosphorylatable CLIP-170 mutants in epithelial cells, we revealed that the phosphorylation of each site increases microtubule rescues. Such modulation operates without increasing CLIP-170 capability to form comets at the microtubule growing plus ends or to accumulate at microtubule crossings, which are potential rescue sites.This work described the first phosphorylations that enhance CLIP-170 rescue factor function in vivo. It also points out to which extent rescue mechanisms are complex and remain an elusive aspect of dynamic instability. JNK-mediated phosphorylation of CLIP-170 only partly explains the kinase effects on microtubule dynamics. Therefore, identifying other JNK targets that may regulate microtubule polymerization rate, remains to be addressed.

Les ARNs sont impliqués dans de nombreux processus biologiques et peuvent adopter des structures secondaires différentes. Par leurs propriétés, ils constituent des outils biologiques puissants pour des applications diverses, tels les ARNs interférents (siARN) qui permettent l’extinction de l’expression des gènes par exemple. L’introduction de modifications sur des ARNs s’est avérée essentielle pour améliorer leurs propriétés et faciliter l’étude de leurs rôles biologiques et leurs applications thérapeutiques.Ce manuscrit rapporte la synthèse et les propriétés d’ARNs modifiés en position 2’ du ribose par des groupements contenant des ponts disulfures, sensibles à un environnement réducteur.Dans la première partie, la synthèse de prodrogues de siARNs partiellement modifiés par des groupements benzyldithiométhyles est décrite. Leurs stabilités thermiques et enzymatiques, ainsi que leur démasquage en milieu réducteur, sont montrés. Les résultats prometteurs d’activité inhibitrice et de pénétration cellulaire, sur une lignée cellulaire du sarcome d’Ewing, permettent d'envisager une application potentielle de ces siARNs modifiés comme outils thérapeutiques.La deuxième partie décrit une approche de co-délivrance par des siARNs couplés avec une drogue anticancéreuse, la doxorubicine, via un lien auto-immolable contenant des ponts disulfures. Les propriétés physico-chimiques des conjugués sont déterminées, et la libération du siARN et de la drogue en milieu réducteur est mise en évidence.La troisième partie présente une autre méthode de conjugaison en solution entre la position 2’ d’un ARN et des petites molécules (sucres, coumarine, biotine, acide désoxycholique, glutathion) via un pont disulfure. La synthèse des ARNs conjugués et leur devenir en milieu réducteur sont décrits.Dans la dernière partie, l’impact d’un lien avec un pont disulfure intrabrin entre les positions 2’ de deux nucléotides adjacents est étudié dans un duplex ou la partie boucle d’hairpins. L’influence du pont disulfure sur l’équilibre des conformations duplex et hairpin d’un ARN d’intérêt biologique est évaluée, en absence et en présence d’agents réducteurs. Une application en fluorescence d’une hairpin contrainte en tant que « molecular beacon » montre des utilisations potentielles de ce lien dans des outils pour étudier la conformation de structures secondaires d’ARNs ou dans des sondes pour détecter les agents réducteurs. / RNAs are involved in numerous biological processes and can adopt different secondary structures. Thanks to their properties, they are powerful biological tools for diverse applications, such as small interfering RNA (siRNA) for gene silencing. Modified RNAs have proven to be essential to improve their properties, and to facilitate the study of their biological and therapeutic functions.This manuscript reports the synthesis and properties of 2’-O-modified RNAs bearing disulfide-containing groups, sensitive to reductive environment.The first part describes the synthesis of siRNAs prodrugs bearing lipophilic benzyldithiomethyl groups. The thermal stability, the serum stability and the response to glutathione treatment of modified siRNAs are thoroughly investigated. The gene silencing and the gymnotic delivery of several siRNAs are assessed, and demonstrates promising results on Ewing’s sarcoma cell line.A second part concerns the co-delivery of siRNAs and a hydrophobic anti-cancer drug (doxorubicin) using a self-immolative spacer bearing disulfide bonds. The chemico-physical properties of these conjugates are determined and the recovery of native siRNA and doxorubicin in response to reductive treatment is highlighted.A third part presents the conjugation of RNAs to small molecules (sugars, coumarin, biotin, deoxycholic acid, glutathione) using disulfide linkages. The synthesis of the RNA conjugates and their release in reducing conditions are also demonstrated.The last part reports the synthesis and the impact of an intrastrand dimethylene disulfide bridge between 2’-O-positions of two adjacent nucleotides in an RNA duplex and in the loop of RNA hairpins. Then, the influence of this linkage on the folding of a biologically relevant RNA structure is reported. Finally, an application of a constrained hairpin as a fluorescent molecular beacon highlights its potential use in tools for understanding RNA folding and in probes for the detection of reducing reagents

<p>Glycoconjugates are biologically important molecules with diverse functions. They consist of carbohydrates of varying size and complexity, attached to a non-sugar moiety as a lipid or a protein. Glycoconjugate structures are often very complex and their intricate biosynthetic pathways makes overexpression difficult. This renders the isolation of pure, structurally defined compounds from natural sources cumbersome. Therefore, to better address questions in glycobiology, synthetic glycoconjugates are an appealing alternative. In addition, synthetic methods allow for the preparation of non-natural glycoconjugates that can enhance the understanding of the influence of structural features on the biological responses.</p><p>In this thesis, synthetic methods for the preparation of glycoconjugates, especially glycolipid analogues, have been developed. These methods make use of solid-phase chemistry and are amenable to library synthesis of series of similar compounds. Solid-phase synthesis is a technique where the starting material of the reaction is attached to small plastic beads through a linker. This allows large excess of reagents to speed up the reactions and the sometimes difficult purifications of intermediate products are reduced to simple washings of the beads.</p><p>One problem with solid-phase synthesis is the difficulties to monitor the reactions and characterize the intermediate products. Gel-phase 19 F-NMR spectroscopy, using fluorinated linkers and protecting groups, is an excellent tool to overcome this problem and to monitor solid-phase synthesis of e.g. glycoconjugates. Two novel fluorinated linkers for the attachment of carboxylic acids have been developed and are presented in the thesis. These linkers can be cleaved with both acids of varying strengths and nucleophiles like hydroxide ions, and they are stable to glycosylation conditions. In addition, a novel filter reactor for solid-phase synthesis was designed. The reactor fits into an ordinary NMR spectrometer to facilitate the reaction monitoring with gel-phase 19 F-NMR spectroscopy.</p><p>The biological applications of the synthesized glycolipids were demonstrated in two different settings. The CD1d restricted binding of glycolipids carrying the monosaccharide α-GalNAc as carbohydrate could be detected on viable cells of mouse origin. CD1d is one of several antigen presenting molecules (the CD1 proteins) that presents lipids and glycolipids to circulating T-cells that in turn can initiate an immune response. The CD1 molecules are relatively sparsely investigated, and the method to measure glycolipid binding on viable cells, as described in the thesis, has the possibility to greatly enhance the knowledge of the structural requirements for CD1-binding.</p><p>Serine-based neoglycolipids with terminal carboxylic acids were used to prepare glycoconjugate arrays with covalent bonds to secondary amines on microtiter plates. Carbohydrate arrays have great possibilities to simplify the study of interactions between carbohydrates and e.g. proteins and microbes. The usefulness of the glycolipid arrays constructed in the thesis was illustrated with two lectins, RCA120 from Ricinus communis and BS-1 from Bandeiraea simplicifolia. Both lectins bound to the array of neoglycolipids in agreement with their respective specificity for galactosides.</p><p>Glycobiology is a large area of great interest and the methods described in this thesis can be used to answer a variety of glycoconjugaterelated biological questions.</p>

No description available.

This thesis deals with development and synthesis of organic chromophores for dye sensitized solar cells. The chromophores are divided into three components; donor, linker and acceptor. The development of efficient organic chromophores for dye sensitized solar cells starts off with one new organic chromophore, D5. This chromophore consists of a triphenylamine moiety as an electron donor, a conjugated linker with a thiophene moiety and cyanoacrylic acid as an electron acceptor and anchoring group. Alternating the donor, linker or acceptor moieties independently, would give us the tool to tune the HOMO and LUMO energy levels of the chromophores. The following parts of this thesis regard this development strategy. The contributions to the HOMO and LUMO energy levels were investigated when alternating the linker moiety. Unexpected effects of the solar cell performances when increasing the linker length were revealed, however. In addition, the effect of an alternative acceptor group, rhodanine-3-acetic acid, in combination with different linker lengths was investigated. The HOMO and LUMO energy level tuning was once again successful. Electron recombination from the semiconductor to the electrolyte is probably the cause of the poor efficiencies obtained for this series of dyes. Finally, the development of functionalized triphenylamine based donors and the contributions from different substituents to the HOMO and LUMO energy levels and as insulating layers were investigated. This strategy has so far been the most successful in terms of reaching high efficiencies in the solar cell. A top overall efficiency of 7.79 % was achieved. / QC 20100716

The synthesis of enantiopure compounds can be achieved by using dehydrogenases as biocatalysts. For instance, reduction reactions of prochiral compounds (ketones, aldehydes and nitriles) into chiral compounds can be achieved by dehydrogenases. These dehydrogenases are cofactor dependent where cofactor is Nicotinamide Adenin Dinucleotite having some restrictions that confines usage of dehydrogenases in organic synthesis including instability of cofactor in water and high cost. Therefore, suitable recycling methods are required and developed which are enzymatic and electrochemical. We will use an electrochemical approach for the regeneration of reduced co-factors. All active compounds / mediator, cofactor and enzyme, will be immobilized on the electrode surface of the constructed reactor surface. Therefore only educts and products will exist in the reactor medium. A gas diffusion electrode will be employed as a counter electrode / which delivers clear protons to the system. Mediator will carry electrons to the cofactor for cofactor regeneration. Then, enzyme will utilize the cofactor and change the substrates to the products in high stereoselectivity. Our aim in this project is the synthesis of mediators and suitable linkers for enzyme, cofactor and mediator immobilization. In the first part of the study, mediators were synthesized which are pentamethylcyclopentadienyl rhodium bipyridine complexes. In the second part of the study, a conductive monomer (SNS) and linker were synthesized for immobilization of the enzyme. In the last part of the study, the reaction of galactitol dehydrogenase with monomer (SNS) was achieved.

No description available.

Das Zytoskelett einer eukaryotischen Zelle besteht aus drei Hauptbestandteilen: Aktin, Intermediärfilamenten und Mikrotubuli. Die vorliegende Arbeit beschäftigt sich mit dem Protein Aktin, welches unter physiologischen Bedingungen dynamische Filamente durch Polymerisation ausbildet. Diese Filamente können sowohl in Netzwerken als auch Bündeln angeordnet werden. Diese Anordnungen bilden die Grundlage für eine Vielfalt von Strukturen zur Realisierung diverser zellulärer Funktionen. Konventionell wurde die Ausprägung solcher Strukturen durch zusätzliche Proteine erklärt, welche Aktin beispielsweise vernetzen oder sogar aktive, dissipative Prozesse durch ATP Hydrolyse ermöglichen. Durch diese Erklärungen prägte sich ein sehr komplexes Bild zellulärer Funktionen heraus. Die dissipative Natur der meisten Prozesse führte dazu, dass meist auf grundlegende physikalische Beschreibungen, welche auf nicht-dissipativen Gleichgewichtszuständen beruhen, verzichtet wurde. Diese Arbeit widmet sich solchen nicht-dissipativen Prozessen und beschreibt deren inhärente Bedeutung auch in aktiven, dissipativen Systemen. Ein erstes Beispiel beschreibt die Generierung von kontraktilen Kräften in Aktinbündeln durch eine hohe makromolekulare Dichte der Umgebung. Diese hohe Dichte führt zu einem entropischen Effekt, welcher durch Volumenausschluss hochkonzentrierter inerter Polymere Aktinfilamente in Bündel ordnet. Werden diese Strukturen aus ihrem energetischen Minimum ausgelenkt, so entsteht eine rücktreibende Kraft, welche nach Ausschaltung der auslenkenden Kraft zu einer Kontraktion des gesamten Bündels führt. Dieses Bespiel zeigt klar, dass selbst in sehr einfachen Systemen äußerst komplexe Prozesse ablaufen können, welche konventionell mittels dissipativer Umwandlung von chemischer Energie in mechanische Arbeit beschrieben wurden. Die Komplexität der Eigenschaften von Aktinbündeln nimmt zudem drastisch zu sobald zusätzliche Proteine mit eigenen mechanischen Eigenschaften das System beeinflussen. Zur Untersuchung eines solchen Mehrkomponentensystems wurden Aktinfilamente mittels transienter Vernetzungsproteine gebündelt. Versuche auf unterschiedlichen Zeitskalen zeigten klar differenzierbare mechanische Antworten auf induzierte, aktive Biegedeformationen. Im Falle kurzer Deformationen verhielt sich das System völlig elastisch, während für lange Deformationszeiten deutliche plastische Effekte auftraten. Als Ursprung dieser Plastizität wurde die dynamische Umordnung der Vernetzungsproteine identifiziert. Jedoch führen nicht nur zusätzliche Proteine zu einer erhöhten Komplexität. Bereits die Anordnung von reinen Aktinbündeln in Netzwerke mittels entropischer Kräfte führt zu einer überraschenden Variabilität von entstehenden Mustern. Im besonderen Fokus dieser Untersuchung stehen Aster ähnliche Muster, welche regelmäßige Netzwerkstrukturen ausbilden und nur in Verbindung mit Aktin assoziierten Proteinen bekannt waren. Störungen der isotropen Ausgangssituation führen zu veränderter Musterbildung, welche die initiale Störung direkt widerspiegeln. Mit den präsentierten Resultaten leistet die Arbeit einen wichtigen Beitrag zum Verständnis der Dynamik von Aktinbündeln sowie deren Interaktionen.

Glycoconjugates are biologically important molecules with diverse functions. They consist of carbohydrates of varying size and complexity, attached to a non-sugar moiety as a lipid or a protein. Glycoconjugate structures are often very complex and their intricate biosynthetic pathways makes overexpression difficult. This renders the isolation of pure, structurally defined compounds from natural sources cumbersome. Therefore, to better address questions in glycobiology, synthetic glycoconjugates are an appealing alternative. In addition, synthetic methods allow for the preparation of non-natural glycoconjugates that can enhance the understanding of the influence of structural features on the biological responses. In this thesis, synthetic methods for the preparation of glycoconjugates, especially glycolipid analogues, have been developed. These methods make use of solid-phase chemistry and are amenable to library synthesis of series of similar compounds. Solid-phase synthesis is a technique where the starting material of the reaction is attached to small plastic beads through a linker. This allows large excess of reagents to speed up the reactions and the sometimes difficult purifications of intermediate products are reduced to simple washings of the beads. One problem with solid-phase synthesis is the difficulties to monitor the reactions and characterize the intermediate products. Gel-phase 19 F-NMR spectroscopy, using fluorinated linkers and protecting groups, is an excellent tool to overcome this problem and to monitor solid-phase synthesis of e.g. glycoconjugates. Two novel fluorinated linkers for the attachment of carboxylic acids have been developed and are presented in the thesis. These linkers can be cleaved with both acids of varying strengths and nucleophiles like hydroxide ions, and they are stable to glycosylation conditions. In addition, a novel filter reactor for solid-phase synthesis was designed. The reactor fits into an ordinary NMR spectrometer to facilitate the reaction monitoring with gel-phase 19 F-NMR spectroscopy. The biological applications of the synthesized glycolipids were demonstrated in two different settings. The CD1d restricted binding of glycolipids carrying the monosaccharide α-GalNAc as carbohydrate could be detected on viable cells of mouse origin. CD1d is one of several antigen presenting molecules (the CD1 proteins) that presents lipids and glycolipids to circulating T-cells that in turn can initiate an immune response. The CD1 molecules are relatively sparsely investigated, and the method to measure glycolipid binding on viable cells, as described in the thesis, has the possibility to greatly enhance the knowledge of the structural requirements for CD1-binding. Serine-based neoglycolipids with terminal carboxylic acids were used to prepare glycoconjugate arrays with covalent bonds to secondary amines on microtiter plates. Carbohydrate arrays have great possibilities to simplify the study of interactions between carbohydrates and e.g. proteins and microbes. The usefulness of the glycolipid arrays constructed in the thesis was illustrated with two lectins, RCA120 from Ricinus communis and BS-1 from Bandeiraea simplicifolia. Both lectins bound to the array of neoglycolipids in agreement with their respective specificity for galactosides. Glycobiology is a large area of great interest and the methods described in this thesis can be used to answer a variety of glycoconjugaterelated biological questions.

H1 linker histone facilitates the formation of higher order chromatin structure and is essential for mammalian development. Mice have 11 H1 variants which are differentially regulated and conserved in human. Previous research indicates that H1 regulates the expression of specific genes in mouse embryonic stem cells (ESCs). However, whether individual variants have distinct functions and how H1 participates in gene regulation remain elusive. An investigation of the precise localization of individual H1 variants in vivo would facilitate the elucidation of mechanisms underlying chromatin compaction regulated gene expression, while it has been extremely difficult due to the lacking of specific antibodies toward H1 variants. In this dissertation, I have generated a knock-in system in ESCs and shown that the N-terminally tagged H1 proteins are functionally interchangeable to their endogenous counterparts in vivo. H1d and H1c are depleted from GC- and gene-rich regions and active promoters, inversely correlated with H3K4me3, but positively correlated with H3K9me3 and associated with characteristic sequence features. Surprisingly, both H1d and H1c are significantly enriched at major satellites, which display increased nucleosome spacing compared with bulk chromatin. While also depleted at active promoters and enriched at major satellites, overexpressed H10 displays differential binding patterns in specific repetitive sequences compared with H1d and H1c. Depletion of H1c, H1d ,and H1e causes pericentric chromocenter clustering and de-repression of major satellites. Collectively, these results integrate the localization of an understudied type of chromatin proteins, namely the H1 variants, into the epigenome map of mouse ESCs, and demonstrate significant changes at pericentric heterochromatin upon depletion of this epigenetic mark.