Lyme disease, the most common tick borne disease in United States, is caused by the bacterial pathogen Borrelia burgdorferi. In nature, B. burgdorferi exists in an enzootic infectious cycle between an arthropod vector and mammalian hosts. Identification and characterization of the genes essential for B. burgdorferi survival throughout its infectious cycle is an important step toward understanding the molecular mechanisms involved in B. burgdorferi pathogenesis. B. burgdorferi contains a small genome, which lacks the genes encoding for the enzymes required for de novo synthesis of amino acids, fatty acids and nucleic acid precursors. Therefore, the spirochete is dependent upon the host environment for the uptake of these essential nutrients. Purines are required for the synthesis of nucleotides for the biosynthesis of DNA and RNA. Due to the lack of de novo purine synthesis, the ability of B. burgdorferi to salvage purines from its host environments is essential to its survival. While the enzymes critical for the B. burgdorferi purine salvage pathway are known, the transporters involved in the uptake of purines from the host environments are not. The work in this thesis is focused on identification of the genes encoding purine permeases in B. burgdorferi and genetic and biochemical characterization of their functions in the infectious cycle of B. burgdorferi. Here, we demonstrate that homologous genes bbb22 and bbb23 present on circular plasmid 26 encode for purine permeases, which are important for transport of hypoxanthine, adenine and guanine. Furthermore, genes bbb22-23 together were essential for B. burgdorferi infection in mice. BBB22 and BBB23 share 78% amino acid identify. And although, individually both BBB22 and BBB23 were found to be capable of purine transport, BBB22 has higher affinity for hypoxanthine and adenine compared to BBB23. Moreover, the bbb22 gene alone was sufficient to restore mouse infectivity to spirochetes lacking both bbb22 and bbb23, whereas, bbb23 was not. Nonetheless, the spirochete loads in the tissues of mice infected with B. burgdorferi carrying bbb22 alone were significantly reduced compared to B. burgdorferi carrying both bbb22 and bbb23, demonstrating the importance of the two genes together for the spirochetes to achieve wild type levels of infection. In ticks, genes bbb22 and bbb23 were dispensable for spirochete survival but contributed to spirochete replication in fed larvae. The replication of spirochetes lacking bbb22-23 in larval ticks was restored to wild type levels by the reintroduction of the low affinity purine transporter encoded by bbb23 alone. Overall, we have identified a purine transport system in B. burgdorferi, which is essential for spirochete survival in the mammalian host and contributes to spirochete replication in the tick vector. As B. burgdorferi lacks typical virulence factors and toxins, these studies highlight the critical role of physiological functions in the virulence of this pathogen. Moreover, the BBB22-23 in vivo essential transport system may represent a novel therapeutic target to deliver antimicrobial drugs to treat Lyme disease.

The ring opening polymerization of D,L-lactide (DLLA) using multifunctional hydroxyl-terminated initiators and catalyst/coinitiator systems based on Sn(Oct)2 afforded the preparation of star-shaped, poly(D,L-lactide)s (PDLLA)s of controlled molar mass, narrow molar mass distributions, and well-defined chain end functionality. Various modifications of star-shaped PDLLA resulted in macromolecules with tailored functionalities for biomedical applications. Star-shaped PDLLAs were modified to contain photoreactive methacrylate end groups and subsequent photo-crosslinking was performed. Photo-crosslinked networks based on methacrylated star-shaped PDLLAs exhibited thermal properties and mechanical performance that were superior to current approved clinical adhesives. In addition, the thermal and mechanical properties of the networks were strongly dependent on the composition and molar mass of the star-shaped PDLLA precursors. Tensile strengths in the range of 8-21 MPa were obtained while the Young's modulus increased from 12 to 354 MPa and were higher for networks based on urethane containing polymers. Star-shaped PDLLAs bearing complementary adenine and thymine terminal units were also prepared. The hydrogen bonding associations between complementary PDLLA macromolecules depended strongly on molar mass and hence, the concentration of multiple hydrogen bonding units. 1H NMR spectroscopy confirmed the formation of hydrogen-bonded complexes with a 1:1 optimal stoichiometry and an association constant of 84 M-1. The hydrogen-bonded complexes also exhibited significantly higher solution viscosities than non-blended polymer solutions of similar molar mass and concentration. Thermoreversible associations of PDLLA-based complementary polymers were observed in the melt phase and the melt viscosity of a blended complex was consistently an order of magnitude higher than non-functionalized star-shaped PDLLA of similar molar mass. Furthermore, melt electrospinning of the hydrogen-bonded complexes successfully resulted in fibers of significantly larger diameter (9.8 ± 2.0 µm) compared to the individual precursors (PDLLA-A = 4.0 ± 0.6 µm and PDLLA-T = 4.4 ± 1.0 µm). These results suggested that thermoreversibility, as well as the strength of the hydrogen bonding interactions between the end groups of the tailored star-shaped PDLLA-based supramolecular polymers controlled the fiber diameter in the melt electrospinning process. Highly ordered microporous honeycomb structures were developed on photo-functional star-shaped PDLLA surfaces. The pore dimensions were dependent on polymer solution concentration, polymer molar mass and relative humidity. The combination of self-organizing and cross-linking techniques resulted in free-standing, PDLLA membranes with high chemical stability as well as higher mechanical strength for further material patterning. Amikacin, an antibiotic commonly used for treating infections was successfully encapsulated in star-shaped PDLLA fibers that were electrospun from solution. Preliminary results suggested that molecular architecture influenced the encapsulation of the antibiotic and subsequent drug release profile. / Ph. D.

The mechanism by which nicotinamide adenine dinucleotide (NAD) stimulates the activity of adenylate cyclase (AC) in canine plasma membrane has been studied. Using [3 2P]-NAD, the activation by NAD was correlated with the radiolabeling of the stimulatory guanosine triphosphate (GTP) binding protein Gsa. Further characterization demonstrated that the modification occurred only in the presence of G-protein activators and that arginine residue(s) were modified by ADP-ribose by the action of a mono-ADP-ribosyltransferase. Inhibitors of the transferase blocked both the modification of Gsa and the activation of AC. Collectively, these studies suggest that ADP-ribosylation of Gsa by an endogenous mono-ADP-ribosyltransferase may regulate cardiac AC.

A oxidação do resíduo de cisteína 56 (ANT-cys56) do transportador de nucleotídeos de adenina (ANT) é descrita como evento crítico da Transição de Permeabilidade Mitocondrial (TPM), fenômeno caracterizado pela sensibilidade ao fármaco imunossupressor ciclosporina A (CsA), responsável pela ligação e inibição do componente promotor da abertura do Poro de Transição de Permeabilidade (PTP), a enzima peptidil-prolil-cis trans isomerase (cyp D). Aspectos bioquímico-estruturais do ANT, das cardiolipinas (CDL) que envolvem o transportador e da cyp D na TPM foram avaliados por meio de ensaios turbidimétricos de inchamento mitocondrial e estado conformacional do ANT em mitocôndrias isoladas de fígado de rato, associados a abordagens de química computacional para análises de campos de interação molecular (MIF) e dinâmica molecular (MD), visando a predição de eventos envolvidos na abertura do PTP. As análises computacionais revelaram aumento da mobilidade relativa do ANT-cys56, como resultado da interação preferencial do Ca2+ com a molécula de CDL ligada à hélice 4 do transportador, enquanto que a inversão da configuração do resíduo de prolina do ANT (ANT-pro61) potencializou o efeito induzido por Ca2+. A presença de ADP no interior do ANT preveniu o aumento da mobilidade relativa do ANT-cys56 promovida pelo Ca2+, enquanto que a inversão da configuração do ANT-pro61, de trans para cis, potencializou o efeito promovido pelo Ca2+ na mobilidade relativa do ANT-cys56, de forma insensível ao nucleotídeo. Os ensaios com mitocôndrias isoladas demonstraram que o Ca2+ induz a conformação c do ANT e promove abertura do PTP, de forma sensível à CsA e ADP. A presença de cyp D estabilizou a conformação c do ANT induzida por Ca2+, sendo que Atractilosídeo (ATR) tornou o efeito parcialmente insensível aos inibidores da TPM. Os resultados sugerem que a abertura do PTP induzida por Ca2+ envolve a mudança conformacional do ANT para o estado c, cuja estabilização é obtida pela cyp D na função de inversão do ANT-pro61, com base na avaliação da mobilidade relativa do ANT-cys56 parcialmente sensível ao ADP. / Oxidation of the Adenine Nucleotide Translocase (ANT) cysteine residue 56 (ANT-cys56) is potentially involved in Ca2+-induced Mitochondrial Permeability Transition (MPT), a process which is prevented by cyclosporine A (CsA), due to its inhibition of Permeability Transition Pore (PTP) opener component, the peptidyl-prolyl cis-trans isomerase cyclophylin D (cyp D). The main aspects of ANT, cardiolipins (CDL) and cyp D on Ca2+-induced PTP opening were addressed by employing light scattering techniques in isolated rat liver mitochondria to assess both ANT conformational change and mitochondrial swelling in association with computational chemistry analysis of Molecular Interaction Fields (MIF) and Molecular Dynamics (MD) for PTP events predictions. Computational analysis revealed that Ca2+ interacts preferentially with the ANT surrounding CDL bound to the H4 helix of the carrier and weakens the CDL/ANT interactions accounting for the ADP-sensitive increase of ANT-cys56 relative mobility while ANT-pro61 cis to trans configuration inversion intensified the Ca2+ effect in a ADP-insensitive way. The ANT conformation and mitochondrial swelling analyses demonstrated that Ca2+ induces conformation c of ANT and opens PTP in a CsA- and ADP-sensitive way. Cyp D stabilizes Ca2+-induced ANT conformation c, whereas ATR renders a PTP opening less sensitive to the inhibition by CsA or ADP. The results suggest that Ca2+-induced PTP opening involves ANT conformation c change supported by a cyp D-induced trans to cys ANT-pro61 configuration inversion based on the relative mobility of ANT-cys56, in a ADP-sensitive manner.

O excesso de adenina na dieta (ADE) promove precipitação intrabular de cristais, levando a uma nefrite intersticial progressiva com perda de função renal. Estudo recente demonstrou que esse processo requer ativação do sistema NF-kB. No presente estudo investigamos o possível envolvimento de outros componentes da imunidade inata, além do NF-kB. Verificamos também a hipótese de que a nefropatia associada aos cristais continua a progredir mesmo depois de cessada a sobrecarga de adenina. Foram estudados ratos Munich-Wistar machos e adultos sem tratamento (C) ou recebendo 0.5% de ADE na dieta. Após 1 semana, a ADE foi removida da dieta e os animais foram seguidos por 4 ou 24 semanas. A administração de ADE por 1 semana promoveu uma inflamação intersticial aguda, com perda de função renal, alteração da pressão caudal, sem alterações glomerulares. Os mediadores da imunidade inata, como TLR2, TLR4, inflamassoma NLRP3, IL1beta e IL-6, apresentaram-se ativados sem, no entanto, ativar o sistema NF-kB. Após cessada a sobrecarga de ADE, a inflamação persistiu, com infiltração por macrófagos, expressão elevada de AngII, deposição progressiva de colágeno e, na fase mais tardia, glomeruloesclerose, caracterizando um processo inflamatório crônico, autônomo, que não contou com a participação do eixo NLR/IL1beta. Em contraste, o sistema NF-kB foi ativado, sendo um dos possíveis estímulos a produção intra-renal de AngII. Dois mecanismos patogênicos podem ser identificados neste estudo: 1) agudo, associado à ativação do eixo NLR-IL1beta; 2) crônico, associado à produção de AngII renal e à ativação do sistema NF-kB / Excess adenine in the diet (ADE) promotes intratubular crystal precipitation, leading to progressive interstitial nephritis and loss of renal function. A recent study has shown that this process requires activation of the NF-kB system. In the present study we investigated the possible involvement of other components of innate immunity, in addition to NF-kB, as well as whether nephropathy associated with excess adenine continues to progress even after dietary cessation. Male Munich-Wistar rats without treatment (C) or receiving 0.5% of ADE in the diet were studied. After 1 week, ADE was removed from the diet and the animals were followed for 4 or 24 weeks. Administration of ADE for 1 week promote acute interstitial inflammation, with loss of renal function, alteration of caudal pressure, without glomerular changes. Mediators of innate immunity, such as TLR2, TLR4, NLRP3 inflamassome, IL1beta and IL-6 , were shown to be activated, with no apparent activation of the NF-kB system. In the late phases of the model, the inflammation persisted, with significant infiltration by macrophages, high expression of AngII, progressive collagen deposition and glomerulosclerosis, characterizing a chronic, autonomic inflammatory process that did not involve the participation of the NLR/IL1beta axis. By contrast, the NF-kB system was activated, with intra-renal AngII production as a possible stimulus. Two mechanisms operated this study: 1) an acute one, associated with activation of the NLR-IL1beta axis; 2) a chronic one, associated with intrarenal AngII production and NF-kB activation

Diferentes estratégias têm sido propostas a fim de melhorar o desempenho dos bioeletrodos utilizados nas biocélulas a combustíveis e nos biossensores. Por examplo, a funcionalização de eletrodos de carbono tem sido feita para esse fim. Neste estudo, propomos o desenvolvimento de fibras flexíveis de carbono (FFCs) funcionalizadas com grupos quinona e modificados com álcool desidrogenase (ADH) NAD-dependente para obter bioeletrodos para uma bio-eletrocatálise eficiente de etanol. Grupos quinona na superfície das FFCs foram obtidas utilizando o tratamento oxidativo com permanganato e também pelo ancoramento eletroquímico de antraquinona: ambas metodologias resultaram em bioeletrodos para a eletro-oxidação de NADH que pode aumentar a bio-eletrocatálise do etanol. De acordo dados espectroscópicos, microscópicos, e eletroquímicos, defeitos contendo grupos C=O nos eletrodos de FFCs são atribuídos à melhora na oxidação do NADH, aumentando a bio-eletrocatálise do etanol. Para se investigar o papel dos grupos quinona na eletro-oxidação do NADH, propomos uma configuração experimental baseado na espectroscopia de ressonância paramagnética de elétrons em modo operando (operando EPR). Com essa técnica, fomos capaz de mostrar a correlação entre o número de elétrons livres desemparelhados, a concentração superficial de quinonas e a oxidação do NADH com controle eletroquímico. Correlação para a concentração de spins revela um aumento no número de elétrons desemparelhados livres com o aumento do sobrepotencial aplicado e a oxidação do NADH, o que corrabora com a hipótese de que grupos quinona podem afetar a eletrocatálise rumo à oxidação do NADH a NAD+. É vislumbrado que operando EPR pode fornecer infromação útil para provar a dinâmica da transferência de elétrons em superfície de carbono e possa ser extendida a outros sistemas bioeletroquímicos. / There are several strategies to improve the performance of bioelectrodes applied in biosensors and biofuel cells. For instance, surface functionalization of the carbon-based electrodes has been used to this intend. Herein, we propose the development of flexible carbon fibers (FCFs) functionalized with quinone groups and modified with NAD-dependent alcohol dehydrogenase (ADH) to obtain bioelectrodes for efficient ethanol bio-electrocatalysis. Quinones groups on FCFs surfaces were obtained by using oxidative treatment with permanganate, and also by electrochemical grafting of anthraquinone: both these methodologies result in bioelectrodes for the electro-oxidation of NADH that can improve the ethanol bio-electrocatalysis. Based on spectroscopic, microscopic and electrochemical data, defects containing C=O groups on FCFs electrodes are attributed to improve the NADH oxidation, enhancing the ethanol bio-electrocatalysis. In order to investigate the role of quinone groups on the NADH electro-oxidation, we propose an experimental setup based on operando electron paramagnetic resonance spectroscopy (operando EPR). With this technique, we are able to show a correlation among the number of free unpaired electrons, surface concentration of quinones and NADH oxidation under electrochemical control. Correlation for the spin concentration reveals an increasing number of free unpaired electrons with increasing applied overpotential and NADH oxidation, which corroborates the hypothesis that quinone groups can act as electrocatalysts towards the oxidation of NADH to NAD+. It is glimpsed that operando EPR can provide useful information in probing the electron transfer dynamics on a carbon surface and may be extended to others bioelectrochemical systems.

Ziel dieser Arbeit war die Entwicklung einer allgemein anwendbaren Methode für die Simulation von ultraschnellen Prozessen und experimentellen Observablen. Hierfür wurden die Berechnung der elektronischen Struktur mit der zeitabhängigen Dichtefunktionaltheorie (TDDFT) und das Tully-Surface-Hopping-Verfahren für die nichtadiabatische Kerndynamik auf der Basis klassischer Trajektorien miteinander kombiniert. Insbesondere wurde eine Beschreibung der nichtadiabatischen Kopplungen für TDDFT entwickelt. Diese Methode wurde für die Simulation noch komplexerer Systeme durch die Tight-Binding-Näherung für TDDFT erweitert. Da die zeitaufgelöste Photoelektronenspektroskopie (TRPES) ein exzellentes experimentelles Verfahren für die Echtzeitbeobachtung von ultraschnellen Prozessen darstellt, wurde eine TDDFT-basierte Methode für die Simulation von TRPES entwickelt. Der Methode liegt die Idee zu Grunde, das System aus Kation und Photoelektron näherungsweise durch angeregte Zustände des neutralen Moleküls oberhalb der Ionisierungsgrenze zu beschreiben. Um diese Zustände mit TDDFT berechnen zu können wurde eine Beschreibung der Übergangsdipolmomente zwischen angeregten TDDFT-Zuständen entwickelt. Des Weiteren wurden Simulationen im Rahmen des Stieltjes-Imaging-Verfahrens, das eine Möglichkeit der Rekonstruktion des Photoelektronenspektrums aus den spektralen Momenten bietet, durchgeführt. Diese spektralen Momente wurden aus den diskreten TDDFT-Zuständen berechnet. Die breite Anwendbarkeit der entwickelten theoretischen Methoden für die Simulation von komplexen Systemen wurde an der Photoisomerisierung in Benzylidenanilin sowie der ultraschnellen Photodynamik in Furan, Pyrazin und mikrosolvatisiertem Adenin illustriert. Die dargestellten Beispiele demonstrieren, dass die nichtadiabatische Dynamik im Rahmen von TDDFT bzw. TDDFTB sehr gut für die Untersuchung und Interpretation der ultraschnellen photoinduzierten Prozesse in komplexen Molekülen geeignet ist. / The goal of this thesis was the development of a generally applicable theoretical framework for the simulation of ultrafast processes and experimental observables in complex molecular systems. For this purpose, a combination of the time-dependent density functional theory (TDDFT) for the description of the electronic structure with the Tully''s surface hopping procedure for the treatment of nonadiabatic nuclear dynamics based on classical trajectories was employed. In particular, a new approach for the calculation of nonadiabatic couplings within TDDFT was devised. The method was advanced for the description of more complex systems such as chromophores in a solvation shell by employing the tight binding approximation to TDDFT. Since the time-resolved photoelectron spectroscopy (TRPES) represents a powerful experimental technique for real-time observation of ultrafast processes, a TDDFT based approach for the simulation of TRPES was developed. The basic idea is the approximate representation of the combined system of cation and photoelectron by excited states of the neutral species above the ionization threshold. In order to calculate these states with TDDFT, a formulation of the transition dipole moments between excited states within TDDFT was devised. Moreover, simulations employing the Stieltjes imaging (SI) procedure were carried out providing the possibility to reconstruct photoelectron spectra from spectral moments. In this work, the spectral moments were calculated from discrete TDDFT states. The scope of the developed theoretical methods was illustrated on the photoisomerization in benzylideneaniline as well as on the ultrafast photodynamics in furan, pyrazine, and microsolvated adenine. The examples demonstrate that the nonadiabatic dynamics simulations based on TDDFT and TDDFTB are particularly suitable for the investigation and interpretation of ultrafast photoinduced processes in complex molecules.

<p>The serendipitous discovery of the potent cytotoxic properties of cisplatin brought about a revolution in the treatment of certain types of cancer, but almost fifty years later, there still remain unknown areas in the chemistry of cisplatin. There are questions regarding which form of the drug reaches its DNA target, or why certain DNA sequences are more preferred than others for reaction with cisplatin. The work presented here aims to address some of these problems, using quantum chemical calculations to complement and interpret available experimental data.</p><p>Cisplatin's activation reactions are explored by Density Functional Theory (DFT) on two model systems, one solely using a self-consistent reaction field (SCRF) for modeling bulk water, and one including an additional partial solvation shell of water molecules. It is concluded that adding explicit solvation provides a better picture than using SCRF solvation alone. The energy surface supports the view that the active form of cisplatin is the monoaquated form.</p><p>The activation reactions of the cisplatin-derived drug, JM118, are investigated using DFT and SCRF calculations using three solvation model systems. The results show a slower rate of hydrolysis for the first reaction, and a faster rate for the second, suggesting diaquated JM118 as the main DNA binding form of the drug.</p><p>Diaquated cisplatin's first and second reaction with guanine and adenine are studied using DFT and SCRF solvation. Cisplatin's propensity toward guanine in the first substitution is explained by larger stabilisation energy for the initially formed complex and by favoured kinetics. For the second substitution, higher stability in complexation with guanine over adenine is ascribed as the main factor favouring guanine over adenine substitution. This provides the first explanation for the predominance of 1,2-d(GpG) over 1,2-d(ApG) adducts, and the direction specificity of the 1,2-d(ApG) adducts.</p>

The serendipitous discovery of the potent cytotoxic properties of cisplatin brought about a revolution in the treatment of certain types of cancer, but almost fifty years later, there still remain unknown areas in the chemistry of cisplatin. There are questions regarding which form of the drug reaches its DNA target, or why certain DNA sequences are more preferred than others for reaction with cisplatin. The work presented here aims to address some of these problems, using quantum chemical calculations to complement and interpret available experimental data. Cisplatin's activation reactions are explored by Density Functional Theory (DFT) on two model systems, one solely using a self-consistent reaction field (SCRF) for modeling bulk water, and one including an additional partial solvation shell of water molecules. It is concluded that adding explicit solvation provides a better picture than using SCRF solvation alone. The energy surface supports the view that the active form of cisplatin is the monoaquated form. The activation reactions of the cisplatin-derived drug, JM118, are investigated using DFT and SCRF calculations using three solvation model systems. The results show a slower rate of hydrolysis for the first reaction, and a faster rate for the second, suggesting diaquated JM118 as the main DNA binding form of the drug. Diaquated cisplatin's first and second reaction with guanine and adenine are studied using DFT and SCRF solvation. Cisplatin's propensity toward guanine in the first substitution is explained by larger stabilisation energy for the initially formed complex and by favoured kinetics. For the second substitution, higher stability in complexation with guanine over adenine is ascribed as the main factor favouring guanine over adenine substitution. This provides the first explanation for the predominance of 1,2-d(GpG) over 1,2-d(ApG) adducts, and the direction specificity of the 1,2-d(ApG) adducts.

Cancer is the second leading cause of death in the United States. Cisplatin is one of the well-known anti-cancer agents used to treat testicular and ovarian cancers. It mainly binds to the DNA bases, which leads to cell death. The cytotoxic activity of the cisplatin analogs is due to the interaction of platinum with nucleotides like adenine at N7 or N1 position and guanine at N7 position. Guanine is the primary target for cisplatin analogs whereas adenine is the secondary target. Cisplatin analogs, [Pt(Me5dien)(D2O)]2+[Me5dien = N,N,N’,N’,N’’-pentamethyl diethylene triamine] and [Pt(dien)(D2O)]2+[dien=diethylene triamine] were synthesized and their effects on AMP and GMP were studied using NMR spectroscopy. The experiments were conducted to examine the effects of bulk on 5’-GMP and 5’-AMP. The results suggest that bulk slows down the reaction with AMP more than with that of GMP. The order of reactivity is Pt(dien)(GMP)> Pt(dien)(AMP) > Pt(Me5dien)(GMP) > Pt(Me5dien)(AMP). The reaction of the [Pt(Me5dien)(D2O)]2+ complex with AMP leads to multiple products, some of which appear to be due to coordination at N1 instead of N7.