The synthesis of fused nitrogen heterocycles has been investigated. Chapter 1 describes the synthesis of quinolones through a copper catalyzed amide coupling to ortho acetyl aryl halide followed by an aldol condensation that produces the quinolone in modest to good yields. The reaction works well with lactam partners and leads to tricyclic ring systems. Chapter 2 describes the synthesis of 8 membered enamide rings through a [3,3] sigmatropic rearrangement ring expansion of N-vinyl β-lactams. The N-vinyl β-lactams also undergo a 6π electrocyclization following the [3,3] sigmatropic rearrangement to furnish amino cyclobutanes. Previously reported amino cyclobutanes have been made using [2+2] photocycloaddition and resulted in a mixtures of diastereoisomers. Our method produces the amino cyclobutanes in good to high yields and with excellent levels of diastereoselectivity. Chapter 3 describes the synthesis and applications of reduced hydantoins from aziridine aldehydes and isocyanates. The resulting heterocycles contain an aziridine ring fused to a 5 membered urea. We also demonstrate that the reduced portion of the hydantoin, namely the hydroxyl group, can undergo further displacement with β-ketoesters similar to iminium ion chemistry.

Acyl groups in biochemical reactions are activated as acyl adenylates; such intermediates are generated by a reaction with ATP. Acyl adenylates are mixed carboxylic-phosphoric anhydrides which are potentially useful as biomimetic reagents for acylation reactions in water. These species have been reported to be unstable and have been isolated without purification. Since the adenylate portion is necessarily complex because it originates from ATP, we reasoned that using a simple alkyl group in place of adenosine might allow the biomimetic process to proceed without the difficulties reported. Our laboratory has developed routes towards such acyl phosphate alkyl monoesters and we have used them for several applications. Such materials react rapidly and selectively with amines in order to produce amides. While reactions utilizing lanthanide ions allow for the selective monoacylation of diols through bis-dentate chelates of the lanthanide. However, the efficiency of diol acylation is limited due to significant hydrolysis of the phosphate reagent and the requirement of a stoichiometric amount of the lanthanide ion. Therefore, three distinct approaches towards improving the efficiency of lanthanide promoted acylation were investigated: addition of an inert co-solvent in an attempt to reduce hydrolysis, eliminating the stoichiometric requirement of the lanthanide by addition of MgII, and the development of immobilized lanthanides as catalysts for acylation. Finally, aminoacyl phosphates are biomimetically activated amino acids and in principle should function as peptide synthesis reagents. The stability and solubility of the activated materials in water presents an opportunity to perform aqueous peptide coupling; such a process is limited by the fact that common peptide coupling agents are either insoluble or unstable in water. Therefore, we investigated the reactions of aminoacyl phosphates with amino acid esters. We find that peptides form readily in buffered solutions, establishing a basis for a general protocol for aqueous amino acid coupling and could be adapted for applications such as solid phase peptide synthesis.

Bacterial biofilms are surface associated colonies that are of considerable concern and interest to industry, medicine and research. They are resistant to antibiotics, their host’s defences and are able to survive under harsh conditions. Biofilm formation in many bacterial strains are dependent on the production of a polysaccharide intercellular adhesion (PIA), a beta-(1-->6)-N-acetylglucosamine polymer. Vaccines derived from biologically isolated PIA have shown efficacy against clinically isolated strains of E. coli and pathogenic strains of S. aureus in animal models. Accordingly, chemically synthesized neoglycoconjugates based on PIA glycosides will be developed to serve as lead compounds for the development of new antibiotics as well as vaccines against biofilm dependent infections. Described in this thesis is a comprehensive study of the synthesis of PIA oligosaccharides and their deacetylated equivalents, the strategy for installing a stable linker on the free reducing oligosaccharide terminus and finally the conjugation to a model carrier protein for the development of potential neoglycoprotein vaccines.

We report a palladium-catalyzed, norbornene mediated synthesis of tetrahydroisoquinolines via a domino ortho-alkylation/Heck reaction sequence. The desired products are obtained in moderate to excellent yields starting from readily available aryl iodides. The reaction conditions can be extended to the formation of tetrahydroisoquinolinones and tetrahydrobenzo[c]azepines. The reaction allows for sequential intermolecular and intramolecular ortho-alkylations. However, the product yields are higher with ortho-blocked aryl iodides, which simplify the domino process to one intramolecular ortho-alkylation and a Heck reaction. The Lautens group has previously reported diastereoselective aryne Diels-Alder reactions of benzyne with dienes supporting a chiral auxiliary at its terminal carbon. In an effort to extend this work and allow access to a wider variety of 1,4-dihydronaphthalenes, we attempted the synthesis of dienes supporting a chiral auxiliary at a central carbon. Chiral pyridyne precursors were also synthesized, in an attempt to vary the source of chirality in diastereoselective cycloadditions.

This thesis describes the discovery of catalytic reactions that create carbon-carbon bonds stereoselectively between substrates bearing an alkene and organoboronic acids reagents. Chiral rhodium(I) catalysts were found to react with various meso-symmetrical substrates, thereby resulting in enantioselective desymmetrization reactions. The methodologies presented herein allow the rapid synthesis of several chiral functionalized molecules; including branched homoallylic alcohols, cyclopentenyl hydrazines, and ketohydrazines. The thesis is divided according to three main transformations: asymmetric allylic substitution of allylic carbonates, asymmetric ring-opening of [2.2.1]-diazabicyles, and carbonylation of alkenes or alkynes. Chapter 2 details the investigations of a ligand-controlled catalytic process to prepare either trans-2-arylcyclopent-3-enols (up to 94% ee), or trans-4-arylcyclopent-2-enols (up to 99% ee) as the major products starting from cyclic meso allylic dicarbonates. This rhodium-catalyzed methodology was extended to include linear allylic dicarbonates, thereby yielding chiral 2-arylbut-3-enols with up to 95% ee. An enantioselective desymmetrization of strained alkenes by ring-opening of meso bicyclic hydrazines is described in Chapter 3. The reaction allows one to prepare trans-2-arylcyclopent-3-enyl hydrazides with up to 99% ee. In addition, an enantioselective hydroarylation process was identified to yield 5-aryl-2,3-diazabicyclo[2.2.1]heptanes. Mechanistic investigations showed that the reaction proceeds via an unusual C-H activation/1,4-migration of the rhodium catalyst. Finally, Chapter 4 outlines the development of a mild catalytic acylation of pi systems. This mode of reactivity was optimized to promote the desymmetrization of [2.2.1]-diazabicycles via a formal allylic substitution with acyl anions as nucleophiles. The method yields densely functionalized trans-2-ketocyclopent-3-enyl hydrazides. In addition, preliminary studies demonstrate that the rhodium(I)-catalyzed acyl anion addition is also possible with other pi electrophiles. For example, with alkyne, it provided a synthesis of cyclopentenones that complements the Pauson-Khand reaction. Overall, the catalytic transformations reported herein give access to seven classes of products stereoselectively; starting from simple reagents.

The Lautens group has a long-standing interest in developing novel approaches to heterocycle synthesis. One such approach is a Pd-catalyzed, norbornene-mediated domino reaction which can form up to three carbon-carbon bonds in one synthetic sequence. The key additive is norbornene which acts similar to a catalyst by assembling the scaffold to enable the formation of a carbon-carbon bond, though is not incorporated into the final compound. The reaction involves C-H bond functionalization as a key step and a Pd(IV) complex as a key intermediate. The goal of the current thesis was to introduce reactive heteroatoms to this domino reaction for the first time, with particular focus on the introduction of nitrogen. Methodologies were developed to present novel syntheses of heterocycles with high pharmaceutical interest. Our initial study focused on the selective functionalization of thiophenes to give multi-substituted sulfur compounds. To synthesize pharmaceutically important nitrogen heterocycles, we demonstrated for the first time that an amination reaction was compatible with the domino reaction. This development led to novel approaches to synthesize substituted indolines, indoles, tetrahydroquinolines, benzomorpholines, phenoxazines, dihydrodibenzoxazepines, tetrahydroisoquinolines, tetrahydroisoquinolinones and tetrahydrobenzazepines. In contrast to the use of norbornene in a catalytic manner, we demonstrated that heterocycles could also be synthesized by the incorporation of strained alkenes. We developed a conceptually novel approach to generate nitrogen heterocycles by using norbornadiene as an acetylene synthon. A palladium-catalyzed annulation of substituted haloanilines with norbornadiene led to functionalized indolines. These indolines could be rapidly converted to benzenoid-substituted indoles and tricyclic indolines, which form the core of many biologically active compounds. Extension to the use of substituted halobenzamides led to functionalized isoquinolinones. Finally, we embarked on a study to perform selective palladium-catalyzed C-H functionalization reactions with N-iodoarylpyrroles and strained alkenes. We will present the reaction conditions necessary to favour aryl C-H functionalization over pyrrole C-H functionalization.

The synthesis of fused nitrogen heterocycles has been investigated. Chapter 1 describes the synthesis of quinolones through a copper catalyzed amide coupling to ortho acetyl aryl halide followed by an aldol condensation that produces the quinolone in modest to good yields. The reaction works well with lactam partners and leads to tricyclic ring systems. Chapter 2 describes the synthesis of 8 membered enamide rings through a [3,3] sigmatropic rearrangement ring expansion of N-vinyl β-lactams. The N-vinyl β-lactams also undergo a 6π electrocyclization following the [3,3] sigmatropic rearrangement to furnish amino cyclobutanes. Previously reported amino cyclobutanes have been made using [2+2] photocycloaddition and resulted in a mixtures of diastereoisomers. Our method produces the amino cyclobutanes in good to high yields and with excellent levels of diastereoselectivity. Chapter 3 describes the synthesis and applications of reduced hydantoins from aziridine aldehydes and isocyanates. The resulting heterocycles contain an aziridine ring fused to a 5 membered urea. We also demonstrate that the reduced portion of the hydantoin, namely the hydroxyl group, can undergo further displacement with β-ketoesters similar to iminium ion chemistry.

The focus of the research presented in this thesis is the design, synthesis, and anion recognition properties of a structurally novel class of poly(amides) that incorporates the diaminocyclobutenedione (squaramide) group into the polymer backbone. In Chapter 1, a brief overview of different anion-responsive synthetic macromolecules is presented. Emphasis is placed on the wide structural diversity of the polymers, the mechanisms of their anion-induced responses, and features such as signal amplification, multivalency, and cooperative behavior that can be exploited productively in the context of anion recognition and sensing. Chapter 2 describes a new method for the regioselective preparation of squaramides, using Lewis acid-catalyzed condensations of diethyl squarate and different anilines. Zinc trifluoromethanesulfonate promotes efficient condensations of anilines with squarate esters, providing access to symmetrical and unsymmetrical squaramides in high yields from readily available starting materials. Colorimetric anion-sensing behavior and computational studies illustrating the enhanced hydrogen bond donor ability and acidity of squaramides in comparison to ureas are presented. In Chapter 3, the application of the synthetic method described above to the selective preparation of polysquaramides composed of 1,2-isomeric repeat units is described. The optical, thermal and aggregation properties of these materials are also discussed. Finally, Chapter 4 describes self-assembly properties as well as applications of these materials in the area of anion recognition and sensing. Incorporating an anion-binding squaramide group into a polymeric architecture results in drastic alterations in the selectivity and magnitude of its anion-induced response, resulting in a sensitive and discriminating turn-on fluorescence sensor for dihydrogenphosphate ions. This unusual behavior is the result of a cooperative, anion-triggered aggregation process that was further probed by dynamic light scattering (DLS), transmission electron microscopy (TEM) and laser confocal microscopy.

With the increasing realization of their involvement in numerous biological processes, synthetic oligosaccharides present promising potential in drug and vaccine discovery. Selective functionalization of hydroxy groups in polyols represent a long-standing goal in chemistry since the chemical synthesis of O-glycosides often requires extensive protecting group manipulation. Organoboron catalysis is a recent strategy for regioselective activation of the equatorial hydroxy group of cis-vicinal diols. Following the initial findings that diarylborinic acid catalyzes the regioselective acylation of carbohydrate derivatives, kinetic studies were conducted to obtain better insight on the mechanism. Thereafter, the ability of diarylborinic acid to catalyze the regioselective alkylation of carbohydrates was demonstrated. Finally, investigations in the capability of diarylborinic acid to influence regiochemical outcome of glycosylation reactions were explored. Similarly, kinetic experiments were devised to shed light on the mechanism of the reaction.

With the increasing realization of their involvement in numerous biological processes, synthetic oligosaccharides present promising potential in drug and vaccine discovery. Selective functionalization of hydroxy groups in polyols represent a long-standing goal in chemistry since the chemical synthesis of O-glycosides often requires extensive protecting group manipulation. Organoboron catalysis is a recent strategy for regioselective activation of the equatorial hydroxy group of cis-vicinal diols. Following the initial findings that diarylborinic acid catalyzes the regioselective acylation of carbohydrate derivatives, kinetic studies were conducted to obtain better insight on the mechanism. Thereafter, the ability of diarylborinic acid to catalyze the regioselective alkylation of carbohydrates was demonstrated. Finally, investigations in the capability of diarylborinic acid to influence regiochemical outcome of glycosylation reactions were explored. Similarly, kinetic experiments were devised to shed light on the mechanism of the reaction.