For the astrophysically relevant molecules, C3 and C6, ab initio calculations are performed to study the geometries of different neutral isomers, the electronic structures of C3 in its ground and excited states, and possible pathways for the reaction C3 + C3 = C6. For C3 we present calculations for the potential energy surfaces of C3 in different electronic configurations, including the singlet ground state, the triplet ground state, and some higher excited states. The geometries studied include triangular shapes with two identical bond lengths, but different bond angles between them. For the singlet and triplet ground states in the linear geometry, the total energies resulting from the mixed density functional-Hartree-Fock and quadratic configuration interaction methods reproduce the experimental values, i.e. the triplet occurs 2.1 eV above the singlet. In the geometry of an equilateral triangle, we find a low-lying triplet state with an energy of only 0.8 eV above the energy of the singlet in the linear configuration, so that the triangular geometry yields the lowest excited state of C3. For the higher excited states up to about 12 eV above the ground state, we apply time-dependent density functional theory. Even though the systematic error produced by this approach is of the order of 0.4 eV, the results give new insight into the potential energy landscape for higher excitation energies. For C6 we consider the known linear states and the lowest state of monocyclic ring. The potential energy surfaces, were built for various pathways for the reaction C3 + C3 = C6. For this investigation we apply a mixed density functional-Hartree-Fock method which gives good results with respect to the experimental values and does not demand much computational time. We have considered collinear and symmetric non-linear as well as some non-symmetric collision schemes of two C3 subunits, producing the 1Ag states of a D2h isomer, one in a cyclic shape, the other in the form of two triangles connected by the corners, and for the non-symmetric scheme the 1A' state of a Cs isomer. To investigate the pathways for the creation of C6 from two C3 we emphasize the importance of the electron configuration for the reacting C3 subunits. As a result we have obtained the following rule: The stable linear as well as the cyclic C6 molecule can only be created in the case when at least one C3 has a partially filled orbital, requiring an excited state with respect to the singlet ground state of C3. / Für die astrophysikalisch bedeutenden Moleküle C3 und C6 werden ab initio Berechnungen von elektronischen Zuständen verschiedener Isomere durchgeführt. Basierend auf der Optimierung verschiedener neutraler Isomere von C3 im Grundzustand und mehreren angeregten Zuständen werden mögliche Wege für die Reaktion C3 + C3 = C6 studiert. Für C3 werden ab initio Berechnungen für die Flächen der potentiellen Energie in verschiedenen elektronischen Konfigurationen durchgeführt, einschließlich des Singulett-Grundzustands, des Triplett-Grundzustands, und einiger höherer Anregungszustände. Die untersuchten Geometrien schließen gleichschenklige Dreiecke mit zwei identischen Bindungslängen ein, wobei der Bindungswinkel dazwischen variiert wird. Die Gesamtenergien, die sich in einem gemischten Hartree-Fock-Dichtefunktional-Verfahren und unter Verwendung der quadratischen Konfigurationswechselwirkung ergeben, reproduzieren die experimentell beobachtete Energiedifferenz von 2.1 eV zwischen dem niedrigsten Triplett-Zustand und dem Singulett-Grundzustand. In der Geometrie des gleichseitigen Dreiecks ergibt sich ein niedrigerliegender Triplett-Zustand mit einer Energie von nur 0.8 eV über der Energie des Singuletts im linearen Isomer, so dass die dreieckige Geometrie den niedrigsten Anregungszustand von C3 ergibt. Für höhere Anregungsenergien bis zu 12 eV über dem Grundzustand wird zeitabhängige Dichtefunktional-Theorie zur Ermittlung der Energie angeregter elektronischer Konfigurationen eingesetzt. Obwohl der von dieser Methode produzierte systematische Fehler von der Größenordnung von 0.4 eV ist, ergeben sich interessante neue Einblicke in die Potentiallandschaft angeregter Zustände. Für C6 betrachten wir das bekannte lineare Isomer und das zyklische Isomer. Der Verlauf der Potentialoberflächen wird für verschiedene Reaktionspfade C3+C3 = C6 untersucht, wobei ein gemischtes Hartree-Fock-Dichtefunktional-Verfahren einesetzt wird. Im Mittelpunkt des Interesses stehen dabei kollineare Anordnungen linearer C3 Moleküle, symmetrische Kollisionen nichtlinearer Reaktanden, sowie einige nichtsymmetrische koplanare Geometrien des Zusammenstosses zweier linearer Moleküle. Als Ergebnis der Reaktionen mit symmetrischen Anordnungen ergibt sich lineares C6 oder zyklisches C6 mit D2h Symmetrie in einem elektronischen Zustand der höchsten Symmetrie 1Ag. Das nicht-symmetrische Reaktionsschema führt zu einem planaren Isomer Cs im Zustand 1A'. Um die Wege für die Bildung von C6 aus zwei C3 zu untersuchen, ist die elektronische Konfiguration der Reaktanden von entscheidender Bedeutung. Als Ergebnis erhält man die folgende Regel: sowohl ein stabiles lineares als auch ein zyklisches C6 Molekül können nur gebildet werden, wenn zumindest eines der C3 Moleküle ein teilweise gefülltes Orbital hat, wofür eine Anregung aus dem Singulett-Grundzustand heraus erforderlich ist.

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A set of five new C3-symmetric phosphites were synthesized and tested in palladium-catalyzed asymmetric Suzuki coupling. The observed reactivity and selectivity were dependent upon several factors. One of the phosphites was able to achieve some of the highest levels of enantioselectivity in asymmetric Suzuki couplings with specific substrates. Different hypotheses have been made for understanding the ligand effects and reaction selectivities, and those hypotheses were tested via various methods including DOSY NMR experiments, X-ray crystallography, and correlation of catalyst selectivity with Tolman cone angles. Although only modest enantioselectivities were observed in most reactions, the ability to synthesis these phosphites in only three steps on gram scales and to readily tune their properties by simple modification of the binaphthyl 2´-substituents makes them promising candidates for determining structure-selectivity relationships in asymmetric transition metal catalysis, in which phosphites have been previously shown to be successful. A series of novel chiral oxazoline-based carbodicarbene ligands was targeted for synthesis. Unfortunately, the chosen synthetic route could not be completed due to unwanted reactivity of the oxazoline ring. However, a new and efficient route for Pd-catalyzed direct amination of aryl halides with oxazoline amine was developed and optimized during these studies. Chiral binaphthyl based Pd(II) ADC complexes with different substituent groups have been synthesized and tested in asymmetric Suzuki coupling reactions. Although only low enantioselectivities were observed in Suzuki coupling, this represents a new class of chiral metal-ADC catalysts that could be tested in further catalytic.

La rue officinale (Ruta graveolens L) est une plante connue comme étant particulièrement riche en métabolites secondaires et produisant notamment des molécules d’intérêt pharmaceutique comme les furocoumarines. Nous avons tenté par une approche de génie métabolique d’augmenter la teneur en furocoumarines produites dans les plantes. La mise en place de telles approches nous a également permis de mieux comprendre les mécanismes de régulation de la voie de biosynthèse des phénylpropanoïdes. Pour atteindre ces objectifs nous avons transformé la rue avec différents gènes placés sous le contrôle d’un promoteur constitutif fort, le promoteur 35S du CaMV. Pour chaque série de transformants nous avons étudié la teneur en furocoumarines et analysé les variations de composés phénylpropanoïdes (rutine, umbelliférone, ferulate, scopolétine). Parallèlement à cette analyse métabolique, une corrélation a été réalisée avec le niveau d’expression des transgènes et de certains endogènes par l’utilisation d’approche de PCR quantitative. Les séries de plantes transgéniques surexprimant les gènes codants pour la Coumaroyl ester 3’-Hydroxylase de rue (CYP98A22) et d’A. thaliana (CYP98A3) présentent toutes les deux une augmentation significative d’une facteur 3 de la teneur en furocoumarines. Par contre si les premières sont caractérisées par une diminution de la production en rutine et en umbelliférone, les secondes présentent une augmentation importante de la teneur en Scopolétine et en umbelliférone. Ces résultats suggèrent la coexistence de deux C3’H chez R. graveolens ayant des fonctions différentes, l’une d’entre elles étant impliquée directement ou non dans la synthèse de scopolétine. Si la transformation génétique de rues avec des gènes de la famille CYP98A induit des modifications du métabolisme secondaire, la surexpression d’un gène spécifique à la voie de biosynthèse des furocoumarines (gène cyp71AJ1, codant pour la psoralène synthase d’A. majus) permet d’augmenter uniquement la teneur en furocoumarines (X4). L’ensemble de ces travaux a permis de montrer l’intérêt d’une approche de génie métabolique pour générer des plantes présentant un intérêt potentiel pour la production de molécules d’intérêts pharmaceutiques / Garden Rue (Ruta graveolens L.) is a plant known as being particularly rich in secondary metabolites and in particular producing molecules of pharmaceutical interest like furocoumarines. By the use of a metabolic engineering approach, we tried to increase the content of furocoumarines produced in these plants but also to better understand the regulation mechanisms of the phenylpropanoïd biosynthesis pathway. To achieve these goals we transformed Ruta plants with various genes placed under the control of a strong constitutive promoter, CaMV 35S promoter. The plants we obtained were analyzed for their ability to overproduce furocoumarines but also other phenylpropanoïds like ferulate, umbelliferone, scopoletine or rutin. Using Real Time PCR experiments, a correlation was carried out with the level of expression of each transgene and several endogenous genes. Plants overexpressing either the Ruta or the Arabidopsis Coumaroyl ester 3 '-Hydroxylase (CYP98A22 and CYP98A3 respectively) display both a significant increase (3 time level) of the furocoumarin. However if the S-98A22 plants are characterized by a reduction in the production of rutin and umbelliferone, S-98A3 transgenic plants display a significant increase scopoletine and umbelliferone content. These results suggest the coexistence of two C3'H having different functions in Ruta. One of them might be involved more specifically in the synthesis of scopoletine. If the transformation of Ruta with genes belonging to the CYP98A family generates an enlarged of the secondary metabolism, we also showed that the overexpression of a gene belonging to the furocoumarins biosynthesis pathway (CYP71AJ1, the psoralen synthase) allowed a specific stimulation. Indeed a 4 time increase of the content of furocouramins was noticed in these transgenic plant lines. This work made it possible to make evidence of the interest of a metabolic engineering approach to generate plants of interest for the production of pharmaceutical molecules

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Flavonoids are a class of plant metabolites with a C6-C3-C6 structure. They are responsible for a large range of biological functions including UV protection, pigmentation, and anti-microbial properties. Citrus paradisi, the grapefruit, contains a wide variety of flavonoids, including the target flavonols which are characterized by a hydroxyl group at the C3 position. A glucose molecule is added to flavonols by 3-Oglucosyltransferases (3-O-GTs). C. paradisi F3-O-GT only glucosylates flavonols; however, Vitis vinifera (grape) 3-O-GT can accept both flavonols and anthocyanidins. The two enzymes have some identity with one another but sequence alignment pinpointed several areas of non-homology. Homology modeling using the crystallized structure of the V. vinifera 3-GT revealed sites within the non-homologous areas that could influence the binding site most directly. The 382 site was of particular interest with arginine in C. paradisi changed to tryptophan in V. vinifera, a much bulkier and non-charged amino acid. Site-directed mutagenis was performed to form the R382W mutant line and transformed into yeast for expression after induction with methanol. Western blot was used to determine the optimal protein induction time, after which the cells were harvested and broken to extract the proteins. Isolation and purification of the protein in question allows for enzyme analysis. This is performed by measuring incorporation of radioactive glucose onto various substrates from each flavonoid class. High counts indicate that the enzyme is active upon the substrate while low counts indicate little to no activity. Characterization will also be performed by varying reaction conditions. Thus, the optimal pH, temperature, substrate quantity, enzyme quantity, and reaction duration can be determined for this specific mutant. These experiments will determine if the R382W mutation has a significant impact on the substrate specificity or reaction conditions for the enzyme. A change in activity to include other classes of flavonoids besides flavonols indicates that the mutation site has a direct impact on the conformation of the binding site. Failure of the mutation to change substrate specificity still provides valuable information for the structure and function of the enzyme. This has implications for engineering enzymes to perform specific functions.

Long-term diet patterns based on stable isotope analysis may be helpful to understand changes in food selection of black bears (Ursus americanus) over time and guide management programs to reduce human-bear conflicts. An enriched stable carbon isotope signature indicates an anthropogenic food source in the diet and an enriched nitrogen signature indicates a higher tropic level for a species. I examined longitudinal feeding patterns from 117 hair samples of black bears live captured in Great Smoky Mountains National Park during 1980–2001 using stable carbon and nitrogen isotope analysis from hair samples. I developed a set of a priori models to examine if sex, age class, year, weight class, total hard mast index, white oak index (Quercus spp.), red oak index (Quercus spp.), nuisance status and hog harvest (Sus scrofa) affected stable isotope signatures. I used model averaging and an estimator of the unconditional variance was used to account for model uncertainty. The δ[delta]13C signatures differed by weight class with above average weight, (ß[Beta] = 0.76‰; 95% CI = 0.28 to 1.23) and average weight (ß[Beta] = 0.42‰; CI = 0.06 to 0.78) showing enriched values compared to below average bears. Bears had enriched δ[delta]15N signatures in years with low white oak mast production (ß[beta] = -0.19, CI = -0.34 to -0.03) and depleted when white oak hard mast was abundant. Sub adult bears had enriched δ[delta]15N signatures compared to adult and older adult bears. Variation of nitrogen values was small during 1980–1991 ( = 2.57, SD = 0.28) but increased substantially during 1992–2000 ( = 2.29, SD = 0.71) when there was substantial variation in hard mast production. Bears in better physical condition appear more likely to access anthropogenic food sources. In years of low white oak acorn production, the larger bears and sub adult bears are more likely to turn to alternative food sources. The long term variation detected in this study is important in identifying which bears are potentially more likely to seek out the anthropogenic food sources when changes occur in availability of natural foods.