Platinum complex drugs such as cisplatin have been used as highly successful chemotherapy drugs since the 1970s. We are interested in how the ligands attached to cisplatin analogs influences their reactivity with biologically relevant targets along with time and amount. For this study, reactions were conducted to determine the reactivity between different platinum compounds and the protein bovine serum albumin. Various platinum compounds with different ligands were reacted in varying amounts with albumin in ammonium acetate buffer for either 1 hour, 4 hours, or 24 hours. Each reaction was quenched after the designated reaction time by dialysis and the platinum bound to the protein was determined by use of ICP. LC-MS was used to find exact peptide residues platinum complexes prefer to bind with but was found to be ineffective. Results show that time has a more significant affect on binding over amount of platinum present. In respect to changing the leaving or carrier ligands on the platinum complex, these changes on the complex did not affect binding significantly with bovine serum albumin. Triamine platinum complexes also seem to bind significantly more than diamine platinum complexes along with anionic form platinum complexes binding significantly better than the cationic form platinum complexes.

Submitted in fulfillment of the requirements for the Doctor of Philosophy degree in Chemistry, Durban University of Technology, Durban, South Africa, 2016. / In drug discovery and development projects, metabolism of new chemical entities (NCEs) is a major contributing factor for the withdrawal of drug candidates, a major concern for other chemical industries where chemical-biological interactions are involved. NCEs interact with a target macro-molecule to stimulate a pharmacological or toxic response, known as pharmacodynamics (PD) effect or through the Adsorption, Distribution, Metabolism, and Excretion (ADME) process, triggered when a bio-macromolecule interacts with a therapeutic drug. Therefore, the drug discovery process is important because 75% of diseases known to human kind are not all cured by therapeutics currently available in the market. This is attributed to the lack of knowledge of the function of targets and their therapeutic use in order to design therapeutics that would trigger their pharmacological responses. Accordingly, the focus of this work is to develop cost saving strategies for medicinal chemists involved with drug discovery projects. Therefore, studying the synergy between in silico and in vitro approaches maybe useful in the discovery of novel therapeutic compounds and their biological activities. In this work, in silico methods such as structure-based and ligand-based approaches were used in the design of the pharmacophore model, database screening and flexible docking methods. Specifically, this work is presented by the following case studies: The first involved molecular docking studies to predict the binding modes of catechin enantiomer to human serum albumin (HSA) interaction; the second involved the use of docking methods to predict the binding affinities and enantioselectivity of the interaction of warfarin enantiomers to HSA. the third case study involved a combined computational strategy in order to generate information on a diverse set of steroidal and non-steroidal CYP17A1 inhibitors obtained from literature with known experimental IC50 values. Finally, the fourth case study involved the prediction of the site of metabolisms (SOMs) of probe substrates to Cytochrome P450 metabolic enzymes CYP 3A4, 2D6, and 2C9 making use of P450 module from Schrödinger suite for ADME/Tox prediction. The results of case study I were promising as they were able to provide clues to the factors that drive the synergy between experimental kinetic parameters and computational thermodynamics parameters to explain the interaction between drug enantiomers and thetarget protein. These parameters were correlated/converted and used to estimate the pseudo enantioselectivity of catechin enantiomer to HSA. This approach of combining docking methodology with docking post-processing methods such as MM-GBSA proved to be vital in estimating the correct pseudo binding affinities of a protein-ligand complexes. The enantioselectivity for enantiomers of catechin to HSA were 1,60 and 1,25 for site I and site II respectively. The results of case study II validates and verifies the preparation of ligands and accounting for tautomers at physiological pH, as well as conformational changes prior to and during docking with a flexible protein. The log KS = 5.43 and log KR = 5.34 for warfarin enantiomer-HSA interaction and the enantioselectivity (ES = KS/KR) of 1.23 were close to the experimental results and hence referred to as experimental-like affinity constants which validated and verified their applicability to predict protein-ligand binding affinities. In case study III, a 3D-QSAR pharmacophore model was developed by using 98 known CYP17A1 inhibitors from the literature with known experimental IC50 values. The starting compounds were diverse which included steroidal and non-steroidal inhibitors. The resulting pharmacophore models were trained with 69 molecules and 19 test set ligands. The best pharmacophore models were selected based on the regression coefficient for a best fit model with R2 (ranging from 0.85-0.99) & Q2 (ranging from 0.80-0.99) for both the training and test sets respectively, using Partial Least Squares (PLS) regression. On the other hand, the best pharmacophore model selected was further used for a database screening of novel inhibitors and the prediction of their CYP17A1 inhibition. The hits obtained from the database searches were further subjected to a virtual screening workflow docked to CYP17A1 enzyme in order to predict the binding mode and their binding affinities. The resulting poses from the virtual screening workflow were subjected to Induced Fit Docking workflow to account for protein flexibility during docking. The resulting docking poses were examined and ranked ordered according to the docking scores (a measure of affinity). Finally, the resulting hits designed from an updated model from case study III were further synthesized in an external organic chemistry laboratory and the synthetic protocols as well as spectroscopic data for structure elucidation forms part of the provisional patent specification. A provisional patent specification has been filed (RSA Pat. Appln. 2015/ 07849). The case studies performed in this thesis have enabled the discovery of non-steroidal CYP17A1 inhibitors. / D

Fourier Transform Infrared spectroscopy is used as a diagnostic tool in biological and physical sciences by characterizing the samples based on infrared light-matter interaction. In the case of biological samples, Activation of Jurkat T-cells in culture following treatment with anti-CD3 (Cluster of Differentiation 3) antibody is detectable by interrogating the treated T-cells using the Attenuated Total Reflection - Fourier Transform Infrared (ATR-FTIR) Spectroscopy technique. Cell activation was detected within 75 minutes after the cells encountered specific immunoglobulin molecules. Spectral markers noted following ligation of the CD3 receptor with anti CD3 antibody provides proof-of-concept that ATR-FTIR spectroscopy is a sensitive measure of molecular events subsequent to cells interacting with anti-CD3 Immunoglobulin G (IgG). ATR-FTIR spectroscopy is also used to screen for Colitis in chronic (Interleukin 10 knockout) and acute (Dextran Sodium Sulphate-induced) models. Arthritis (Collagen Antibody Induced Arthritis) and metabolic syndrome (Toll like receptor 5 knockout) models are also tested as controls. The marker identified as mannose uniquely screens and distinguishes the colitic from the non-colitic samples and the controls. The reference or the baseline spectrum could be the pooled and averaged spectra of non-colitic samples or the subject’s previous sample spectrum. The circular dichroism of titanium-doped silver chiral nanorod arrays grown using the glancing angle deposition (GLAD) method is investigated in the visible and near infrared ranges using transmission ellipsometry and spectroscopy. The characteristics of these circular polarization effects are strongly influenced by the morphology of the deposited arrays. Studies of optical phonon modes in nearly defect-free GaN nanowires embedded with intrinsic InGaN quantum dots by using oblique angle transmission infrared spectroscopy is described here. These phonon modes are dependent on the nanowire fill-factor, doping densities of the nanowires and the presence of InGaN dots. These factors can be applied for potential phonon based photodetectors whose spectral responses can be tailored by varying a combination of these three parameters. The optical anisotropy along the growth (c-) axis of the GaN nanowire contributes to the polarization agility of such potential photodetectors.

Introduction: Asthma is a common debilitating disease of the airways that afflicts an estimated 300 million worldwide, causing reduction in physical activity, lost school/work days, and even death. There are many known and suspected risk factors of asthma; however, there is much controversy over prior and current cigarette smoking. Approximately 25% of the United States population currently smokes, with a quarter of these being asthma patients. Another 22 to 43 percent of asthmatics are ex-smokers. Objectives: (1) To estimate the prevalence for lifetime asthma in the adult US population; (2) to determine prevalence odds ratios (POR) of lifetime asthma based on questionnaire (smoking status, tobacco consumption) after adjustment of potential confounding variables; (3) to determine POR of lifetime asthma based on laboratory values (serum cotinine); and (4) to assess the validity of self-reported measures (smoking status and tobacco consumption) using serum cotinine as the gold standard.Methods: The National Health and Nutrition Examination Survey (NHANES) 1999-2002 is a proportional cross-sectional sample that uses weights to be representative. Crude odds ratios were obtained through univariate analysis; multiple logistic regression analysis was used to obtain adjusted odds ratios of asthma. Interactions for age, gender, and race/ethnicity were explored. Validity measures included sensitivity and specificity tests for self-reported smoking and non-parametric correlation of tobacco consumption with serum cotinine levels.Results: The overall prevalence of lifetime asthma among n=10,252 adults was 11.56% (95%CI 10.45-12.66). Analyses were stratified by race/ethnicity due to significant interaction. After adjusting for age, gender, body mass index, and family history of asthma, ex-smoking non-Hispanic Whites, non-Hispanic Blacks, and other races had odds ratios of 1.57 (95%CI 1.26-1.97), 1.52 (95%CI 1.01-2.27), and 1.97 (95%CI 1.01-3.83), respectively, relative to never smokers within their respective race/ethnic groups. Sample persons with a family history of asthma and increasing body mass index were significant predictors for lifetime asthma among all race/ethnic groups. Based on laboratory values, non-Hispanic White respondents with serum cotinine levels of 0.011 to Discussion: Self-reported smoking and tobacco consumption are valid measures of tobacco use. The present study found no significant relationship between current smoking and lifetime asthma. Despite the limited findings, asthmatic smokers make up a distinct, difficult-to-treat subgroup for which future treatment research should address.

Staphylococcus aureus is the causative agent of a diverse array of acute and chronic infections, and some these infections, including infective endocarditis, joint infections, and medical device-associated bloodstream infections, depend upon its capacity to form tenacious biofilms on surfaces. Inserted medical devices such as intravenous catheters, pacemakers, and artificial heart valves save lives, but unfortunately, they can also serve as a substrate on which S. aureus can form a biofilm, attributing S. aureus as a leading cause of medical device-related infections. The major aim of this work was take compounds to which S. aureus would be exposed during infection and to investigate their effects on its capacity to form a biofilm. More specifically, the project investigated the effects of serum, and thereafter of catheter lock solutions on biofilm formation by S. aureus. Pre-coating polystyrene with serum is frequently used as a method to augment biofilm formation. The effect of pre-coating with serum is due to the deposition of extracellular matrix components onto the polystyrene, which are then recognized by MSCRAMMs. We therefore hypothesized that the major component of blood, serum, would induce biofilm formation. Surprisingly, serum actually inhibited biofilm formation. The inhibitory activity was due to a small molecular weight, heat-stable, non-proteinaceous component/s of serum. Serum-mediated inhibition of biofilm formation may represent a previously uncharacterized aspect of host innate immunity that targets the expression of a key bacterial virulence factor: the ability to establish a resistant biofilm. Metal ion chelators like sodium citrate are frequently chosen to lock intravenous catheters because they are regarded as potent inhibitors of bacterial biofilm formation and viability. We found that, while chelating compounds abolished biofilm formation in most strains of S. aureus, they actually augmented the phenotype in a subset of strains. We investigated the molecular basis of this phenomenon. Deletion and complementation analysis and thereafter antibody based inhibition assays confirmed a functional role for the surface adhesin clumping factor B as the causative determinant associated with the increased biofilm phenotype. Finally, we investigated the regulation of clumping factor B-mediated biofilm formation and the basis for the strain dependence. Regulation was determined to occur via two novel post-translational networks- one affecting ClfB activity, mediated by Ca2+ binding to the EF-Hand domain, and the other affecting protein stability, mediated by the enzymatic activity of the metalloprotease-aureolysin. Polymorphisms within the aureolysin gene sequence, between strains, was identified as the basis for some strains forming robust biofilms within chelated media versus other than do not exhibit this phenotype.

Purpose: The purpose was to determine differences in serum vitamin D, parathyroid hormone (PTH), and calcium levels between patients with early childhood caries (ECC) and patients without dental decay. Materials and Methods: Serum vitamin D, PTH, and calcium levels were obtained from 30 children without dental decay who acted as controls and 60 children with ECC. A questionnaire was filled out by the parent/guardian of each participant consisting of questions regarding medical and dental history, exposure to sources of vitamin D and demographic information. Results: The difference in the vitamin D levels of the participants was most strongly associated with race. African American participants demonstrated lower levels of vitamin D than non-African Americans. After adjusting for race- related differences there was no significant difference in the Vitamin D levels in the ECC cases and the healthy controls. Conclusions: The results of this study suggest that vitamin D levels, at least among non-African Americans, are unrelated to caries development. Future research in this area must control for important confounding factors such as skin pigmentation, season of measurement of serum vitamin D, sun exposure, fluoride exposure, water fluoridation status and tooth brushing in order to allow for vitamin D levels to be better tested against caries experience.

Modern diagnostic method magnetic resonance imaging (MRI) usually uses contrast agents T1-type, which are based on Gd3+ complexes. Due to severe toxicity of free Gd3+ , it is desired to have thermodynamically stable and kinetically inert complexes with fast elimination from the body. This work summarizes information about a novel contrast agent based on ligand DO3AP (1,4,7,10-tetraazacyclododecane-1-methyl(alkyl)phosphinic-4,7,10- triacetic acid) with pendant hydrophobic dibenzylamino group which is able to interact hydrophobically with the macromolecule of serum albumin. The stability of supracomplex is dependent on pH value, i.e. on the protonation of the pendant amino group of the complex (pKA = 5.6) and this interaction was confirmed from 1 H-NMRD profile and fluorescent analysis. The compound was tested for its angiographic properties in vivo on rat model. Furthermore, other complexes of the ligand with trivalent lanthanides (Nd3+ , Eu3+ , Tb3+ , Dy3+ , Er3+ ) were characterized by various methods (XRD, luminescence, UV-VIS, 1 H-, 17 O- and 31 P-NMR). The cleavage of the benzyl groups affords ligand whose Ln3+ complexes possess pH dependent PARACEST effect. These complexes were characterized by XRD, luminescence and 1 H- and 31 P-NMR. Moreover, the novel ligands with modified length of pendant...

Orientador: Elizabeth Moreira dos Santos Schmidt / Resumo: A ovinocultura brasileira apresentou crescimento nos últimos anos e é responsável pela produção de carne e leite, assim como lã e couro, e as infecções por nematódeos gastrointestinais são o maior problema sanitário. O objetivo do estudo foi avaliar a infecção natural por nematódeos gastrointestinais de borregas inseridas em um sistema de produção agropecuária. Borregas da raça Corriedale foram divididas em três grupos de dez animais cada, definidos de acordo com o OPG e hematócrito obtidos após a primeira coleta. O grupo 1 (G1) foi composto por animais com OPG (ovos por grama de fezes) maior do que 5.000 e hematócrito menor ou igual a 24%; o grupo 2 (G2) com OPG maior do que 5.000 e hematócrito maior do que 24% e o grupo 3 (G3) com OPG menor do que 5.000 e hematócrito maior do que 24%. Amostras de fezes (testados para OPG e coprocultura) e sangue (hemograma e a determinação de variáveis bioquímicas séricas) foram coletadas em quatro ao longo do período experimental de 70 dias. Ao final do estudo duas borregas foram abatidas para coleta e identificação de parasitas adultos. Todas as variáveis foram avaliadas pelo teste de normalidade e variância homogênea, posteriormente testada pelo ANOVA, e comparação de médias pelo teste Tukey. Os gêneros Haemonchus, Trichostrongylus e Cooperia foram recuperados em coprocultura. As contagens de OPG apresentaram diferenças significativas (P<0,05) nos três grupos, nos momentos 1 e 2. Os valores do hematócrito foram significativamente menores... (Resumo completo, clicar acesso eletrônico abaixo) / Abstract: Brazilian sheep population has grown in recent years, and It's responsible for meat and milk production, as well as wool and leather, and gastrointestinal nematode infections are the major sanitary problem. Our aim was to evaluate natural infection by gastrointestinal nematodes of lambs inserted in a integrated crop-livestock system. Corriedale’s lambs were divided into three groups of ten animals each, defined according to the EPG (eggs per gram of faeces) and hematocrit obtained after the first collection. Group 1 (G1) was composed by animals with EPG greater than 5,000 and hematocrit less than or equal to 24%; group 2 (G2) with EPG greater than 5,000 and hematocrit greater than 24% and group 3 (G3) with EPG lower than 5,000 and hematocrit greater than 24%. Stool samples (tested for EPG and stool test) and blood (blood count and determination of serum biochemical variables) were collected over the 70 day trial period.. At the end of the study, two ewes were slaughtered for collect and identification of adult parasites. All variables were evaluated by the normality test and homogeneous variance, later tested by ANOVA, and a comparison of means by the Tukey test. Haemonchus, Trichostrongylus, and Cooperia genera were recovered in a stool test. EPG counts presented significant differences (P <0.05) in the three groups at moments 1 and 2. The hematocrit values were significantly lower (P <0.05) for G1 in M1 and G2 in M2. The variables CHCM, total leukocytes, lipase, cholesterol... (Complete abstract click electronic access below) / Mestre

As Fosfolipases A2 (PLA2) são enzimas que atuam desconstruindo membranas celulares, resultando em ácidos graxos e lisofosfolipidios, causando inflamação tecidual. Evidências indicam que serpentes possuem uma resistência natural devido a propriedades presentes no sangue, que inibem ações de proteínas presentes no veneno. Portanto, no presente trabalho foi isolado e caracterizado bioquimicamente e biologicamente o primeiro inibidor de PLA2 do tipo gama (&#947;PLI) do soro da serpente B. jararaca, denominado PLI_BJ. O inibidor de PLA2 foi isolado utilizando dois passos cromatográficos. O PLI_BJ mostrou, por SDS-PAGE, uma massa molecular aparente de 25 000 e 20 000 em condições redutoras e não redutoras, respectivamente. A sequência de aminoácidos parcial de PLI_BJ foi determinada por espectrometria de massa e corresponde a 72% e 68% de cobertura da sequência de aminoácidos de duas proteínas já descritas como PLI. O PLI_BJ mostrou também atividade inibitória satisfatória nos três testes realizados sugerindo um papel deste inibidor nos efeitos de envenenamento da serpente. / Phospholipases A2 (PLA2) are enzymes that act on cell membrane phospholipids resulting in fatty acids and lysophospholipids, deconstructing the cell wall causing tissue inflammation. Evidence indicates that snakes have natural resistance due to protective properties of blood that inhibits the action of proteins present in the venom. This study aimed to purify and characterize PLA2 inhibitors (PLI) from serum of the Bothrops jararaca snakes. PLA2 inhibitor was isolated using two chromatographic steps, and was named PLI_BJ. The purity of the PLI_BJ was confirmed by HPLC and SEC. The PLI_BJ showed, by SDS-PAGE, an molecular mass of 25,000 and 20,000 under reducing and non-reducing conditions, respectively. The partial amino acid sequence of PLI_BJ was determined by mass spectrometry and it corresponds to 72% and 68% of coverage of the amino acid sequence of two proteins already described as PLI. The PLI_BJ also showed satisfactory inhibitory activity in the three tests performed suggesting a role of this inhibitor in snake envenomation effects.

Os envenenamentos por aranhas das espécies L. laeta, L. intermedia e L. gaucho, podem causar dermonecrose e efeitos sistêmicos. O principal componente tóxico do veneno destas apresenta atividade de esfingomielinase D (SMase D). O objetivo do presente estudo foi comparar o potencial neutralizante do novo soro anti-SMases D recombinantes e do soro anti-Aracnídico contra os efeitos tóxicos dos três venenos. A análise por \"Western blot\" revelou que o anti-Aracnídico reconheceu a maioria dos componentes presentes nos três venenos, enquanto o anti-SMases D reconheceu apenas os componentes de 30-35 kDa, correspondente às isoformas nativas de SMases D. Por ELISA, verificou-se que o soro anti-SMases D contém títulos superiores de IgGT, IgGa, b e c e. Nos testes de soroneutralização, o soro anti-SMases D tem melhor atividade inibitória sobre as atividades dermonecrótica, hemolítica e esfingomielinásica dos venenos de L. intermedia e L. laeta. Para o veneno de L. gaucho, o soro anti-Aracnídico teve resultados similares ou melhores. Embora o soro anti-SMases D apresente um significante potencial neutralizante é necessária a inclusão da SMase D do veneno de L. gaucho para a obtenção de um anti-soro eficaz contra estes venenos. / Envenomation by spiders of species L. laeta, L. intermedia and L. gaucho causes local dermonecrosis and systemic effects. The main toxic component is endowed with sphingomyelinase D (SMase D) activity. The aim of this study was to compare the neutralization potentials of the anti-SMases D and the anti-arachnidic sera, against the toxic effects of venoms of these three species. The analysis by western blot has revealed that the anti-arachnidic serum was able to recognize the majority of the components present on the venoms of the three species, but anti-SMases D has recognized only components of 30-35 kDa, which corresponds to natives SMases D. By ELISA, it has been determined that the anti-SMases D serum contains higher titres of IgGT, IgGa, b and c than the anti-arachnidic serum. Serum neutralization tests have showed that the anti-SMases D serum has better inhibitory shingomyelinasic, dermonecrotic and haemolytic activities of the venoms from L. intermedia and L. laeta. For L. gaucho venom, the results have been similar or better than the anti-arachnidic serum. Although the anti-SMases D serum shows a significant neutralization potential, it is necessary the inclusion of a SMase D from L. gaucho venom, to obtain a efficient antiserum against this venom.