The cellular slime mold, Dictyostelium discoideum, provides an ideal model system to study eukaryotic development, cell differentiation, and aging. A crucial developmental event in Dictyostelium is glycogen degradation. The degradation of glycogen provides glucose monomers that are used to synthesize structural components necessary for cellular differentiation. Glycogen degradation is catalyzed by glycogen phosphorylase, and two developmentally regulated glycogen phosphorylase activities have been discovered in Dictyostelium. Glycogen phosphorylase 1 (gp-1) activity is predominant early in development, and is dependent upon 5’ AMP as a positive allosteric modifier; glycogen phosphorylase 2 (gp-2) activity peaks late in development and is independent of 5° AMP. I showed that these two glycogen phosphorylase activities are associated with unique proteins that are the products of two distinct, but related, genes. Both genes were observed to be typical Dictyostelium genes in a number of respects. The gp-1 and gp-2 enzymes were also found to be similar to glycogen phosphorylases from other organisms. I also examined the developmental expression of these genes and found that both mRNAs are developmentally regulated; gp-1 mRNA levels fluctuate during development, while gp-2 mRNA levels increase late in development. The expression of the gp-1 and gp-2 genes is regulated by exogenous cAMP. Exogenous cAMP enhances the level of gp-1 mRNA, apparently through a mechanism that requires intracellular cAMP signaling. Specific DNA sequence elements appear to be required for maximal vegetative and late developmental expression of gp-1. Exogenous cAMP induces the appearance of gp-2 mRNA via a mechanism that appears to be independent of intracellular cAMP signaling. Repeated TA-rich sequences located between nucleotides 193 and 305 upstream of the transcriptional start site are necessary for maximal cAMP induction of gp-2. I also examined the cell type specific expression of gp-1 and gp-2. gp-1 is expressed predominantly in pre-stalk cells. gp-2 1s expressed in both cell types in a temporally regulated fashion; this type of expression has not been reported for other Dictyostelium genes, but, given the importance of glycogen degradation in both stalk and spore cells, it is not inconceivable that such regulation 1s necessary. / Ph. D.

Branched chain sugars display a varied and valuable range of biological activities. This thesis concerns the synthesis of 3,5-di-C-methyl-D-glucose, a potential inhibitor of glycogen phosphorylase (GP), and therefore a proposed therapeutic agent for type 2 diabetes. Chapter 1 looks at the occurrence of branched sugars in the natural world and current therapies for type 2 diabetes. Inhibition of GP is explored, and the molecular modelling studies which led to the design of the project target. Chapter 1 also looks into the development of new foodstuffs, the chemistry and biochemistry of imino sugars and branched hydroxy proline analogues. In Chapter 2, a range of different approaches to 3,5-di-C-methyl-D-glucose are investigated. Most of the initial investigations were carried out on the L-enantiomer, a readily available test system deriving from 2-C-methyl-D-ribono lactone. 2-C-Methyl-D-ribono lactone is synthesised rapidly from D-glucose in a one-pot reaction; as the key starting material for this work, the scalability of this process was investigated. One of the attempted syntheses of di-C-methyl glucose lead to the development of a route towards 3,5-di-C-methyl fructose, a novel dibranched ketose sugar. It was envisaged that through an enzymatic transformation, it might be possible to produce 3,5-di-C-methyl glucose stereoselectively. Synthesis of both enantiomers of 3,5-di-C-methyl glucose and mannose are reported, alongside results of GPb inhibition studies. Analysis of the preferred ring size of a range of di-C-methyl branched sugars and sugar lactones generated in this work is also presented. Chapter 3 explores the chemistry of 2,4-di-C-methyl-L-arabinono lactone, a key intermediate in the synthesis of 3,5-di-C-methyl-L-glucose. From this lactone a novel deoxy sugar, 2-deoxy-2,4-di-C-methyl-L-arabinono lactone, was generated. Routes towards a selection of imino sugars were explored, resulting in the synthesis of a methyl branched isofagomine analogue. A substituted aziridine was synthesised, from which a route to a di-C-methyl branched piperidine was proposed, and a pyrrolidine. Also presented is a synthesis of a dihydroxy di-C-methyl branched proline analogue. Detailed NMR analysis of several of the sugars generated in this work was carried out by Dr M. Wormald, of the University of Oxford Biochemistry department. The results of these investigations are presented in the Appendix. Throughout this work, the presence of quaternary centres has posed a problem with the assignment of relative configuration. As a result, this work has been greatly supported by X-ray crystallography, and the structures shown herein were wholly generated by me. Several other crystals were run during the course of this work, not all pertaining to these projects, and are provided in the CD appendix.

The study of enzyme binding sites is an essential but rather demanding process of increased complexity since the amino acids lining these areas are not rigid. At the same time, the minimization of side effects and the specificity of new ligands is a great challenge in the structure-based drug design approach. Using glycogen phosphorylase - a validated target for the development of new antidiabetic agents - as a case study, this project focuses on the examination of side-chain conformations of amino acids that play a key role in the catalytic site of the enzyme. Specifically, different rotamers of each amino acid were collected to build a dataset of different conformations of the catalytic site. The rotamers were filtered by their probability of occurrence and subsequently, all rotamers that create steric clashes were rejected. Then, these conformations were clustered based on their similarity. Three different clustering algorithms and multiple numbers of clusters were tested using the silhouette scores evaluation for the clustering process. In order to measure the similarity, the Euclidean metric was used which due to the correspondence of the coordinates between the conformations was very similar to the cRMSD metric. Two-level clustering was applied to the dataset for more in-depth observations. According to the clustering results, specific aminoacids with major geometrical variations in their rotamers play the most important role in the separation of the clusters. Additionally, all rotamers of an amino acid can be grouped based on their structure, something that was confirmed using “Chimera” software as a visualization tool. To this end, the ultimate aim of this study is to examine whether the clustering of conformations produces clusters with points geometrically similar to each other, in order to identify near neighbors, i.e. conformations that are quite similar in structure but do not play a determinant role in the function and those that are quite diverse and could be further exploited.

Development of multicellular organisms is one of the most fundamental but least understood biological processes. Due to its simple life cycle, the lower eukaryote Dictyostelium has been used as a model system to study several basic biological problems, such as cell differentiation, cell motility, cell adhesion, signal transduction, and especially gene regulation. Glycogen phosphorylase is the enzyme that initiates one of the key biochemical pathways, glycogen degradation, during Dictyostelium discoideum development. Two forms of glycogen phosphorylase, gpl and gp2, exist in D. discoideum with gp1 being active in vegetative cells and gp2 in differentiating cells. Study of glycogen phosphorylase gene regulation clearly will provide insight into the molecular mechanism of D. discoideum development and facilitate understanding of development in general. Two distinct genes that encode the two forms of glycogen phosphorylase were cloned. The nucleotide sequence analysis of the gp2 gene revealed an open reading frame of 2976 bp, that consists of three exons separated by two introns. An interesting feature in the gene is a 45 bp sequence in the second exon that contains 11 CAA trinucleotide repeats. The entire 5' and 3' non-coding regions of the gp2 gene and the whole 5' noncoding region of the gp1 gene have also been cloned. The regulation of the gp2 gene by Dictyostelium developmental signals was studied. Both cyclic AMP (cAMP) and Differentiation Inducing Factor (DIF) were discovered to induce gp2 gene expression during differentiation. DIF was also found to inhibit the cAMP responsiveness of the gene. Both cAMP and DIF induction of the gene were repressed by NH₃. Another developmental signalling molecule, adenosine, was involved in gp2 gene regulation through the inhibition of the DIF-mediated expression. The cell-type-specificity of the gp2 gene were also investigated. The gene was found to be expressed in both prestalk/stalk and prespore/spore cells. This is in agreement with the cAMP and DIF inducibility of the gene since the former molecule is a spore-cell morphogen, while the latter is a stalk-cell morphogen. A model of gp2 gene regulation during development is proposed, based on these findings. The two gp? introns and the 45 bp CAA repeat were studied by deletion of these elements. However, there were no alterations of gp2 gene expression observed after these deletions. Also investigated was genomic structural alteration in gp1- mutants that were obtained through homologous recombination and antisense RNA. Southern analysis revealed that the normal gp1 gene was disrupted in all homologous recombination transformants and in half of the antisense RNA transformants. Finally, for the first time, an extrachromosomal luciferase reporter vector has been established for the study of cis-acting regulatory elements in D. discoideum. / Ph. D.

Les glycoconjugués constituent une classe de molécules organiques importante car ils sont impliqués dans de nombreux processus biologiques à savoir l'inflammation, la transmission du signal, la fécondation, l'adhérence cellule-cellule et bactérie-cellule, la reconnaissance virus-cellule et la défense immunitaire… L'utilisation de ce type de molécules comme principe actif peut être limitée par l'instabilité de la liaison glycosidique en milieu physiologique et de ce fait la préparation de C-glycoconjugués plus stables, non sensibles aux hydrolyses acides et enzymatiques constitue un enjeu en synthèse organique. Cette thèse décrit un nouvel accès à des C-glycoconjugués via des précurseurs céto-C-glycosides. La majeure partie du travail a consisté à la mise au point d’une nouvelle voie d’accès à des céto-C-glycosides à partir de glyconitriles issus du glucose, du galactose ou du mannose. Dans un premier temps, la réactivité de glyconitriles totalement protégés sous forme d’éthers benzyliques vis-à-vis d’organozinciques activés a été étudiée permettant d’isoler différentes cétones fonctionnalisées C-glycosylés. Lorsque ces substrats sont opposés à des organomagnésiens, un mélange de composé attendu et de glycal issu de l’élimination du benzyloxy en position 2 est observé. Afin de limiter la formation des glycals, des glyconitriles comportant un groupe hydroxyle en position 2 ont été préparés. L’addition de réactifs de Grignard ou d’organolithiens sur ces glyconitriles ont conduit à divers céto-C-glycosides. Ainsi, il a été montré que l’addition des organolithiens était plus efficace en termes de rendement.Ayant en main ces dérivés cétoniques, une étude de fonctionalisation de la fonction cétonique (formation de méthylène, de gem-difluoré, réduction en alcool…) a été entreprise, sur un substrat modèle, acquis qui pourra être transposé aux acyl-C-glycosides plus complexes. De plus, l’application de la méthodologie de synthèse à des C-glycoconjugués originaux appartenant à trois familles de composés différentes, inhibiteurs potentiels de SGLT-2 ou de glycogène phosporylase, nouvelles cibles thérapeutiques dans le traitement du diabète de type 2, a été validée. / Glycoconjugates, an important series of organic molecules, are fundamental to many important biological processes such as inflammation, signal transduction, fertilization, bacterial-cell or cell-cell adhesion, virus-cell recognition and immune response…The use of such compounds as drug is limited by the significant hydrolysis occurring in physiological medium or in acidic conditions. Thus, more stable C-glycoconjugates syntheses have to be developed.A new strategy for the synthesis of C-glycoconjugates via acyl-C-glycosides precursors is described from gluco-, galacto- or manno-nitriles. First, the reactivity of O-perbenzylated glyconitriles towards various activated organozinc reagents led to various functionalized keto-C-glycosides. However, with Grignard reagents, a mixture of the corresponding compound along with glycal occurring from the elimination of benzyloxy group located in position 2 is observed. To prevent such elimination, 2-hydroxyglyconitrile was prepared. With organomagnesium or organolithium reagents, these glyconitriles led to various glyconitriles in good yieds. It is noteworthy that organolitium reagents were more efficient, leading to better yields in glucose and galactose series.With these keto derivatives in hands, the transformation of the keto group into methylene, gem-difluorine, alcool…. was performed on a galatose-derived ketone as a model for the preparation of more complex C-glycosides. Moreover, the application of the methodology was applied to the synthesis of original C-glycoconjugates as potential SGLT-2 or glycogen phosphorylase inhibitors, thereby validating the synthetic strategy.

A la suite des nombreux travaux sur l’inhibition de la glycogène phosphorylase (GP) menés au laboratoire et au travers de diverses collaborations, cette thèse décrit en cinq chapitres suivis d’une partie expérimentale détaillée, les dernières avancées en termes de synthèse et d’évaluation biologique des inhibiteurs du site catalytique de la GP. La chapitre I de ce manuscrit est consacrée à la présentation des diabètes et plus particulièrement du diabète de type II dont le traitement, motivation première de ce projet, repose sur la connaissance des mécanismes complexes régulant la glycémie. Les différents inhibiteurs synthétisés sont classés par famille selon leur structure qui associe un aglycone hétérocyclique, susceptible d’affinité pour le canal β proche du site actif de l’enzyme, avec un motif glycopyranosidique, ou glycopyranosylidène dans le cas des motifs spiro. Le chapitre II est consacré aux inhibiteurs spiro-bicycliques tels que les glucopyranosylidène-spiro-1,4,2-oxathiazoles et les glucopyranosylidène-spiro-isoxazolines. Le chapitre III décrit la synthèse de C- et N-glycosyles hétérocycles, principalement des glycopyranosyl-1,2,3-triazoles. Enfin le chapitre IV décrit la fonctionnalisation de 5-halogéno-1,2,3-triazoles 4-substitués par couplages pallado-catalysés qui ont constitué un développement imprévu mais original des travaux. Pour terminer, le chapitre V décrit l’évaluation des molécules préparées en tant qu’inhibiteurs de la glycogène phosphorylase. Les expériences et résultats d’enzymologie, de cristallographie ainsi que les tests cellulaires in vitro et in vivo sur le rat sont présentés / Following many studies lead on the inhibition of glycogen phosphorylase (GP) in our laboratory an trough several collaborations, this thesis describes in five chapters and a detailed experimental section, the most recent advances in the areas of synthesis and biological evaluation of GP’s catalytic site inhibitors. Chapter I is dedicated to the description of diabetes and especially type 2 diabetes of which treatment, the main goal of this project, requires knowledge of the complex mechanisms that regulates glycemia. Synthesized inhibitors are broken down into families according to their structure which associates an heterocyclic aglycon, prone to binding in the β pocket lining the active site, with a glycopyranoside or glycopyranosylidene moiety in the case of spiro compounds. Chapter II focuses on spiro-bicyclic inhibitors such as glucopyranosilidene-spiro-1,4,2-oxathiazoles and glucopranosylidene-spiro-isoxazolines. Chapter III describes the synthesis of C- and N-glycosyl-heterocycles, mainly glycopyranosyl-1,2,3-triazoles. Finally, chapter IV studies the palladium-mediated cross coupling fonctionalization of 4-substituted-5-halogenated-1,2,3-triazoles that represents an unexpected but interesting development of the project. To conclude, chapter V gathers the evaluation of synthesized molecules as GP inhibitors. Enzymology and crystallography as well as in vitro and in vivo experiments are presented

The primary goal of my thesis research was to characterize the basis for the hypersensitive response of glycogen phosphorylase to catecholamine stimulation in primary culture diabetic cardiomyocytes. Toward this goal, I have investigated several key regulatory sites in this signaling pathway which could promote the hypersensitive activation of phosphorylase. Specifically, I investigated (1) which adrenergic receptors are involved in mediating the hypersensitive response of glycogen phosphorylase to epinephrine stimulation; (2) whether the presence of fatty acid metabolites affects phosphorylase activation; (3) whether the hypersensitive response of phosphorylase results from altered signal transduction through the β-adrenergic receptor system or from a post-receptor defect; and (4) the potential role for phosphorylase kinase in mediating the hypersensitive response of phosphorylase to catecholamine stimulation. The basis for adrenergic receptor mediation of the catecholamine-induced activation of glycogen phosphorylase was investigated in adult rat cardiomyocytes isolated from normal and alloxan-diabetic animals. Cells derived from diabetic animals exhibited a hypersensitive response to epinephrine stimulation which was apparent 3 hours after cell isolation and was further enhanced upon maintenance of the myocytes in culture for 24 hours. Normal cells initially lacked the hypersensitive response to epinephrine stimulation although upon maintenance of these cells in culture for 24 hours, the hypersensitive response was acquired in vitro. To assess alpha- and beta- adrenergic mediation of the response, normal and diabetic cardiomyocytes were incubated with propranolol, a β-receptor antagonist, prior to direct α1receptor stimulation with phenylephrine. Both normal and diabetic myocytes failed to undergo activation of phosphorylase in 3 or 24 hour cell cultures. In addition, the effects of epinephrine on phosphorylase activation were completely inhibited by propranolol whereas prazosin, an α-receptor antagonist, was unsuccessful. This data suggests that the hypersensitive response of glycogen phosphorylase in normal and diabetic cardiomyocytes is solely mediated through β-adrenergic receptor activation. Since the accumulation of various fatty acid metabolites can affect certain enzymes and signal transduction pathways within the cell, the potential effect of various fatty acid metabolites on phosphorylase activation was investigated. To determine the potential effects of fatty acid metabolites on phosphorylase activation in cultured cardiomyocytes, normal and alloxan-diabetic cells were incubated with either carnitine or palmitoylcarnitine prior to stimulation with epinephrine. Pretreatment of cardiomyocytes with or without carnitine or palmitoylcarnitine for 3 or 24 hours before epinephrine stimulation failed to alter phosphorylase activation. The addition of exogenous carnitine in the absence and presence of insulin was also unsuccessful in attenuating the hypersensitive phosphorylase activation response in 3 and 24 hour, normal and alloxan-diabetic derived cardiomyocytes. To determine if carnitine palmitoyltransferase 1 (CPT-1) activity was responsible for the hypersensitive response of phosphorylase in the diabetic myocytes, both normal and diabetic myocytes were maintained for 3 and 24 hours in the absence and presence of etomoxir, a CPT-1 inhibitor. Subsequent activation of phosphorylase by epinephrine in normal and diabetic myocytes was unaltered in the presence of etomoxir. Collectively, these data fail to support a critical role for fatty acid metabolite involvement in the hypersensitive activation of glycogen phosphorylase in acute, alloxan-diabetic cardiomyocytes. To assess potential G-protein involvement in the response, normal and diabetic-derived myocytes were incubated with either cholera or pertussis toxin prior to hormonal stimulation. Pretreatment of cardiomyocytes with cholera toxin resulted in a potentiated response to epinephrine stimulation whereas pertussis toxin did not affect the activation of this signaling pathway. To determine if the enhanced response of phosphorylase activation resulted from an alteration in adenylyl cyclase activation, the cells were challenged with forskolin. After 3 hours in primary culture, diabetic cardiomyocytes exhibited a hypersensitive response to forskolin stimulation relative to normal cells. However, after 24 hours in culture, both normal and diabetic myocytes responded identically to forskolin challenge. The present data suggest that a cholera toxin sensitive G-protein mediates the hypersensitive response of glycogen phosphorylase to catecholamine stimulation in diabetic cardiomyocytes. This response, which is present in alloxan-diabetic cells, and is induced in vitroin normal cardiomyocytes, is primarily due to a defect at a post-receptor site. To assess the role of phosphorylase kinase in the hypersensitive activation of glycogen phosphorylase in the diabetic heart, phosphorylase kinase activity was measured initially in perfused hearts (to optimize the assay parameters) and subsequently in primary culture cardiomyocytes. Results from these experiments demonstrate that the present method for measuring phosphorylase kinase activity is a reliable indicator of the enzyme's activity in the heart, although the assay conditions must be further optimized before this system can be applied to the measurement of phosphorylase kinase activity in primary cultured cardiomyocytes.