Glycosaminoglycans (GAGs) play an important role in many biological processes in the extracellular matrix. In a theoretical approach, structures of monosaccharide building blocks of natural GAGs and their sulfated derivatives were optimized by a B3LYP6311ppdd//B3LYP/ 6-31+G(d) method. The dependence of the observed conformational properties on the applied methodology is described. NMR chemical shifts and proton-proton spin-spin coupling constants were calculated using the GIAO approach and analyzed in terms of the method's accuracy and sensitivity towards the influence of sulfation, O1-methylation, conformations of sugar ring, and ω dihedral angle. The net sulfation of the monosaccharides was found to be correlated with the 1H chemical shifts in the methyl group of the N-acetylated saccharides both theoretically and experimentally. The ω dihedral angle conformation populations of free monosaccharides and monosaccharide blocks within polymeric GAG molecules were calculated by a molecular dynamics approach using the GLYCAM06 force field and compared with the available NMR and quantum mechanical data. Qualitative trends for the impact of sulfation and ring conformation on the chemical shifts and proton-proton spin-spin coupling constants were obtained and discussed in terms of the potential and limitations of the computational methodology used to be complementary to NMR experiments and to assist in experimental data assignment.

Fundamental to cell adhesion and migration, integrins are large heterodimeric membrane proteins that link the extracellular matrix to the actin cytoskeleton. Uniquely, these adhesion receptors mediate inside-out signal transduction, whereby extracellular adhesion is activated from within the cell by talin, a large cytoskeletal protein that binds to the cytoplasmic tail of the β integrin subunit via its PTB-like F3 domain. Features of the interface between talin1 and small β3 fragments only have been described previously. Through NMR studies of full-length integrin β tails, we have found that β tails differ widely in their interactions with different talin isoforms. The muscle-specific β1D/talin2 complex exhibited particularly high affinity, leading to the X-ray crystal structure of the β1D tail/talin2 F2-F3 complex. Further NMR and biological experiments demonstrated that integrin activation is induced by a concerted series of interactions between the talin F3 domain and the β tail and between the talin F2 domain and the cell membrane. Additional studies revealed the structural determinants of tight talin2/β1D binding and the basis of more general differences between β1 and β3 talin binding. NMR studies were also performed on tyrosine-phosphorylated integrin tails binding to the PTB domains of talin1 and Dok1, an inhibitor of integrin activation; these revealed that phosphorylation can inhibit integrin activation by increasing the affinity of the β tail for talin competitors. Key residues governing this switch were identified, and proteins were engineered with reversed affinities, offering potentially useful biological tools. Taken together, these results reveal the remarkable complexity of structural features that enable talin and its competitors to mediate this important form of transmembrane signalling.

Abstract : Normal aging is accompanied by several metabolic and structural changes in the brain and a heightened risk of cognitive decline. These brain changes may increase the chances of later developing Alzheimer’s disease. The first major objective of the present work was to quantify, through positron emission tomography (PET) and volumetric magnetic resonance (MR) imaging techniques, the effects of normal aging on brain metabolism and structure. Our results indicate that brain glucose hypometabolism can be present in older individuals who remain cognitively normal. Cognitive status was assessed using age-normalised neuropsychological tests. Brain glucose hypometabolism was quite specific and affected primarily the prefrontal cortex and the caudate nucleus. Due to the high variation in plasma ketones, brain ketone hypometabolism per se was not present in older persons (≥65 years old). However, a lower rate constant for brain ketone uptake was fairly widespread in our healthy older group. Lower regional brain volume during normal aging was widespread throughout the cortex and was more apparent than cortical thickness loss. The second major objective was to characterize brain ketone and glucose metabolism in the context of mild Alzheimer’s disease. Glucose hypometabolism in Alzheimer’s disease was present in the temporoparietal cortex when compared with cognitively normal older adults. However, no significant differences in brain ketone metabolism or rate constant were found between the two groups. Alternative energy sources to glucose may therefore be beneficial to the Alzheimer’s disease brain, at least early in the disease process, in order to maintain neuronal capacity and limit synaptic loss and decline in memory and cognition. // Résumé : Au cours du vieillissement normal, le cerveau va subir plusieurs changements métaboliques et structuraux qui vont accroitre le risque de déclin cognitif et du fait même augmenter le risque de développer la maladie d’Alzheimer. Les objectifs du présent travail étaient de : 1) quantifier l’effet du vieillissement normal sur la structure et le métabolisme du cerveau, grâce aux techniquesd’imagerie tomographie par émission de positons et l’imagerie par résonance magnétique ; 2) caractériser le métabolisme cérébral des deux substrats énergétiques du cerveau, le glucose et les cétones, dans un contexte de la maladie d’Alzheimer. Nos résultats indiquent qu’un hypométabolisme du glucose est présent chez des personnes âgées (65 ans et plus) qui démontrent pourtant une cognition normale. Cette diminution du métabolisme cérébral du glucose est observée spécifiquement au niveau des régions du cortex préfrontal et du noyau caudé. Du fait d’une grande variabilité au niveau des concentrations plasmatiques en cétones, aucune diminution du métabolisme des cétones n’a été constatée chez les personnes âgées. En revanche, la constante de transfert des cétones au cerveau était globalement diminuée. En ce qui concerne l’atrophie cérébrale au cours du vieillissement normal, nous avons observé qu’elle était globale, qu’elle concerne l’ensemble du cerveau et qu’elle était plus marquée que la diminution de l’épaisseur corticale. En comparant des personnes âgées en bonne santé à des personnes ayant la maladie d’Alzheimer, nous avons également confirmé que chez ces dernières, le métabolisme du glucose est diminué spécifiquement au niveau du cortex temporopariétal. Cependant, aucune différence entre les deux groupes de personnes n’a été observée en ce qui concerne le métabolisme cérébral des cétones. Ainsi en fournissant des substrats énergétiques autres que le glucose, il serait donc possible de maintenir les capacités neuronales, limiter la perte synaptique et ralentir le déclin cognitif. Ceci pourrait constituer une stratégie prometteuse dans la prévention et le traitement complémentaire au début de la maladie d’Alzheimer.

Surface catalysed reactions play an important role in chemical productions. Developments of catalyst requiring high activity whilst improving on product selectivity can potentially have a profound effect in the chemical industry. Traditional catalyst modifications were focused on tuning the size, shape and foreign metal doping to form well defined metal nanoparticles of unique functionalities. Here, we show new approach to engineering of metal nanocatalysts via a subsurface approach can modify the chemisorption strength of adsorbates on the surface. Carbon modified nanoparticles were synthesised using glucose to stabilise Pd nanoparticles at a molecular level. Upon heat treatment, the carbonised glucose encapsulated the Pd nanoparticles with carbon atoms take residence in the octahedral holes (15 at.%). These materials were tested in liquid phase stereoselective hydrogenations of 3-hexyn-1-ol and 4-octyne. The former has importance in the fragrance industry towards the production of leaf fragrance alcohol. It was shown for the first time that the geometrically and electronically modified Pd with interstitial carbon atoms reduced the adsorption energy of alkenes, ultimately leading to higher reaction selectivity. Boron modified Pd nanoparticles was synthesised using BH₃.THF in the liquid phase. The material possess high B interstitial saturation (20 at.%), which can be synthesised for the first time below 100°C. These materials were tested in the liquid phase selective hydrogenation of various alkynes and 2-chloronitrobenzene, of which the latter has importance in the pesticides industry. Kinetic modelling on the hydrogenation of 4-octyne suggests these subsurface occupied B does play a pivotal role on increasing the reaction selectivity, as removal of these species lead to decreased selectivity. Au nanoparticles were synthesised and characterised using H¹³COOH NMR. The new liquid NMR characterisation method is successfully applied to examine the chemisorption strength of metal nanoparticles. An attempt to synthesise PVP capped B modified Pd nanoparticles with the above NMR characterisation was investigated. It is believed the examples of subsurface atom modifications as shown here may offer future catalyst developments in this area.

Nuclear magnetic resonance (NMR) provides a convenient probe for the study of molecular reorientation in liquids because nuclear spin-lattice relaxation times are dependent upon the details of molecular motion. The combined application of Raman and Infrared (IR) lineshape analysis can furnish more complete information to characterize the anisotropic rotation of molecules. Presented here are the studies of NMR relaxation times, together with Raman/IR Mneshape analysis of the solvent and temperature dependence of rotational diffusion in 1,3,5-tribromobenzene and 1,3,5-trifluorobenzene. In these experiments, it was found that the rotational diffusion constants calculated from Perrin's stick model were two to three times smaller than the measured values of D, and D,,. Similarly, rotational diffusion constants predicted by the Hu-Zwanzig slip model were too large by a factor of 2. Application of the newer Hynes-Kapral-Weinberg model furnished rotational diffusion constants that were in reasonable agreement with the experimental results. The vibrational peak frequencies and relaxation times of the isotropic Raman spectra of the υ1 modes of CD2Br2 and CHBr3 were studied in solution. The frequency shifts in non-interactive solvents were explained well on the basis of solution variations in the dispersion energy. In Lewis bases, the displacements were in some, but not all, cases greater than predicted. On the other hand, it was found that the vibrational relaxation times of the C-H/C-D modes decreased dramatically in all Lewis base solvents. Therefore, it was concluded that relaxation times of the υ1 modes, rather than frequency shifts, furnish a more reliable measure of hydrogen bonding interactions of halomethanes in solution.

The studies presented in this dissertation, Evolution And Divergence Of The Structural And Physical Properties Of DNA Binding By Methyl-Cytosine Binding Domain Family Members 2 And 3, pertain primarily to two key epigenetic regulators involved with the biological interpretation of methylated DNA marks. We provide insights into the emergence and evolution of the MBD2 and MBD3 and how those molecular entities influence heritable changes in gene activity. We further provide details regarding the mystery surrounding MBD3 function and the MBD2-mediated capacity of primitive animals to carry out methylation-specific epigenetic mechanisms. In chapter two, we describe the DNA binding properties of MBD2 and MBD3. This study provides information regarding previously unidentified MBD3 binding properties and potential biological function. In chapter three, we show that sponges demonstrate a MBD2-mediated capacity for binding methylated DNA sites, recruit NuRD components in vitro, and knockdown of MBD2 in the freshwater desmosponge, Ephydatia muelleri, promotes an abnormal growth phenotype.

Nuclear magnetic resonance (NMR) is a popular spectroscopic method and has widespread use in many fields. Recent developments in solid-state NMR have increased interest in experiment and, alongside simultaneous developments in computational theory, have led to the field dubbed 'NMR crystallography.' This is a suite of methodologies, complementing the capabilities of other crystallographic methods in the determination of atomic structure, especially when large crystals cannot be made and when exploring materials with phenomena such as compositional, positional and dynamic disorder. NMR J-coupling is the indirect coupling between nuclear spins, which, when measured, can reveal a wealth of information about structure and bonding. This thesis develops and applies the method of Joyce for the prediction of NMR J-coupling in condensed matter systems using plane-wave pseudopotential density-functional theory, an important requirement for efficient treatment of finite and infinite periodic systems. It describes the first-ever method for the use of ultrasoft pseudopotentials and inclusion of special relativistic effects in J-coupling prediction, allowing for the treatment of a wider range of materials systems and overall greater user friendliness, thus making the method more accessible and attractive to the wider scientific community.

No description available.

La dispersion dans des milieux poreux homogènes (empilements de grains) a été étudiée par des mesures par résonance magnétique nucléaire (RMN) et des simulations de marches aléatoires dans un réseau de pores. La RMN permet de mesurer l’ensemble des déplacements des molécules d’eau durant un temps tΔ, et d’obtenir propagateurs et moments caractéristiques. L’évolution temporelle du second moment σ (σ2 ∝ taΔ) permet de caractériser de manière précise le régime de dispersion des molécules (Gaussien ou anormal). Des mesures pour des écoulements de 15 < Pe < 45 dans un empilement de grains de 30μm ont permis d’observer une dispersion anormale faiblement super-dispersive (a = 1.17) en écoulement saturé et une augmentation progressive du caractère super-dispersif avec la diminution de la saturation en eau (jusqu’à a = 1.5 pour 42 %)lors d’une co-injection stationnaire eau-huile. En écoulement saturé, les propagateurs et courbes de percée sont quasi-gaussiennes, tandis qu’en écoulement insaturé, les propagateurs sont asymétriques et les courbes de percée présentent des trainées aux grands temps. Dans ces conditions, on montre que la dispersion anormale observée est mieux décrite par des lois stables de Lévy que par des lois gaussiennes. Des simulations de marche aléatoire ont été réalisées dans un réseau de pores extrait d’un milieu poreux réel par imagerie microscanner.Elles permettent d’obtenir les mêmes informations que la RMN, les marcheurs se déplaçant par advection et diffusion. Ces simulations montrent l’existence d’une stagnation non observée dans les expériences, montrant que la simplification du réseau poreux est trop importante et empêche de reproduire certains aspects du champ de vitesses détecté par la RMN. Toutefois, l’évolution temporelle du second moment a également un caractère super-dispersif à temps long à 100 % de saturation / We investigated dispersion in homogeneous porous media (grain packs) by nuclear magnetic resonance (NMR) measurements and random walk simulations in pore networks. We measured water molecules displacements during a time interval tΔ by NMR measurements, which allows us to obtain propagators and charateristic cumulants of displacements such as the mean square displacement σ. The evolution of the cumulant σ as a function of time tΔ (σ2 ∝ taΔ) is a very sensitive test of Gaussian behaviour compared to the analysis of the shape of propagators. In a homogeneous 30μm grain pack and low Peclet numbers (15 < Pe < 45), we observed weak super dispersion in saturated conditions (a = 1.17) and gradually stronger super-dispersionas the water saturation decreases (up to a = 1.5 for 42 %) during steady-state oil-water two phase flow. Insaturated conditions, propagators and breakthrough curves are Gaussian or nearly Gaussian, whereas in two phase conditions, propagators are non symmetric and breakthrough curves show thick tails at long time. Weshow that the anomalous dispersion observed is better explained by Lévy stable laws (asymetric for longitudina ldispersion, and symetric for transverse dispersion) than by Gaussian laws. Random walk simulations were performed in a pore network constructed using high resolution images of the grain pack. They allow us to obtain the same informations than the NMR, with walkers submitted to diffusive and advective effects. The simulations show the existence of an anomalous stagnation not observed in experiments, highlighting the oversimplification of the pore network that prevent reproducing some aspects of the velocity field detected by NMR. However, the simulations indicate similarly a super-dispersion at long time in saturated conditions

This thesis deals with (i) complex nanoaggregates of cationic perfluorinated surfactant N-(1,1,2,2- tetrahydroperfluorodecyl)pyridinium chloride and of double hydrophilic block polyanions poly(ethylene oxide)-b-poly(methacrylate) and poly(ethylene oxide)-b-poly((2-sulfamate-3- carboxylate)isoprene), and with (ii) mixed micelles of amphiphilic copolymer poly(ethylene oxide)- b-poly(e-caprolactone) and nonionic perfluorinated fluorosurfactant Zonyl FSN-100. The study was aimed at the characterization of the association behavior of the block copolymer-fluorosurfactant systems in aqueous solutions depending on the amount of the added surfactant, pH of the solvent and the structure of the copolymers.