Thesis (PhD)--Stellenbosch University, 2014. / ENGLISH ABSTRACT: The study of α clustering is a well-established topic of research in nuclear physics. Recent experimental evidence has revealed the first 2+ excitation of the Hoyle state in 12C, which is known to have a strong α cluster structure. The idea of multi-particle α cluster structures in light nuclear matter has received much attention from theoretical investigations of late. This research has profound implications in the fields of both nuclear structure and nuclear astrophysics. The 20Ne nucleus is a good example for α clustering, since many of its states are known to have α clustering structures. Few low spin states are known at high excitation energies of this nucleus. It is predicted that this nucleus contains a 0+ 5-α cluster state, a so-called ‘Hoyle analogue state’, above its 5-α break-up threshold at Ex = 19.17 MeV. This thesis presents a study of the 20Ne nucleus with the 22Ne(p,t)20Ne reaction at laboratory angles θlab =(0◦, 7◦, 16◦, 27◦). The iThemba LABS K600 magnetic spectrometer was employed with a beam of energy Elab = 60 MeV, incident upon a 22Ne gas target held intact by Aramid foils. The aim was to search for low spin states in 20Ne at excitation energies above Ex = 15 MeV, and, possibly, to find an indication of the 5-α cluster state. Three narrow states were discovered at energies of Ex = 20.59 MeV, Ex = 21.16 MeV and Ex = 21.80 MeV. Calculations performed with the isobaric multiplet mass equation indicate that these states may be T = 2 isobaric analogue states of three known states in 20O. However, shell-model calculations indicate that these states may also have T = 0 or T = 1 isospin values. There is also evidence of a new state at Ex = 17.67 MeV and, possibly, of a collection of new states which could not be resolved at Ex = 18.84 MeV. A tentative candidate for the desired 5-α cluster state was observed, but this will require another measurement with cleaner background to be confirmed. / AFRIKAANSE OPSOMMING: Alfa bondelvorming is ’n gevestigde navorsingsonderwerp in kernfisika. Daar is onlangse bewyse vir die ontdekking van die 2+ opwekking van die Hoyle toestand in 12C, wat ’n erkende alfa bondelstruktuur het. Die idee van multi-alfa bondelstrukture in ligte kerne het onlangs baie aandag geniet in teoretiese ondersoeke. Hierdie navorsing het besondere implikasies vir kernstruktuur, sowel as vir kernastrofisika. Die 20Ne kern bied ‘n ideale voorbeeld vir alfa bondelvorming aangesien dit bekend is dat baie van die kern se toestande alfa bondelstrukture het. Min lae-spin toestande is by ho¨e opwekenergie¨e bekend in hierdie kern. Daar word voorspel dat ’n 0+ 5-alfa bondeltoestand, ’n sogenaamde ‘Hoyle analoogtoestand’, bo die drumpel vir 5-alfa verval by Ex = 19.17 MeV bestaan. Hierdie tesis beskryf ‘n studie van die 20Ne kern met die 22Ne(p,t)20Ne reaksie by laboratorium hoeke van θlab =(0◦, 7◦, 16◦, 27◦). Die K600 magnetiese spektrometer van iThemba LABS is gebruik met ‘n proton bundel, by ‘n energie van Elab = 60 MeV, wat op ‘n 22Ne gas teiken omhul met aramid foelies gerig is. Die doel was om lae-spin toestande in 20Ne by opwekenergie¨e bo Ex = 15 MeV op te spoor, en om moontlik ook ‘n aanduiding van die 5-alfa bondeltoestand te vind. Drie smal toestande is by energie¨e van Ex = 20.59 MeV, Ex = 21.16 MeV en Ex = 21.80 MeV opgespoor. Berekeninge wat met die isobariese multiplet massa vergelyking uitgevoer is, dui daarop dat hierdie toestande T = 2 isobariese analoogtoestande van drie bekende toestande in 20O kan wees, hoewel skilmodel berekeninge ook T = 0 en T = 1 kandidate aandui. Daar is ook bewyse van ’n nuwe toestand by Ex = 17.67 MeV, en moontlik van ’n versameling nuwe toestande rondom Ex = 18.84 MeV wat nie uitmekaar geken kon word nie. ‘n Tentatiewe kandidaat vir die gesogte 5-alfa bondel toestand is waargeneem, maar nog ‘n meting met ’n skoner agtergrond word vir bevestiging benodig.

The use of enzymes as catalysts for chemical transformations has emerged as a “greener” alternative to traditional organic synthesis. An issue to solve though, is that enzymes are designed by nature to catalyze reactions in a living cell and therefore, in many cases, do not meet the requirements of a suitable biocatalyst. By mimicking Darwinian evolution these problems can be addressed in vitro by different types of directed evolution strategies. α-Hydroxy aldehydes and α-hydroxy ketones are important building blocks in the synthesis of natural products, fine chemicals and pharmaceuticals. In this thesis, two alcohol dehydrogenases, FucO and ADH-A, have been studied. Their potentials to serve as useful biocatalysts for the production of these classes of molecules have been investigated, and shown to be good. FucO for its strict regiospecificity towards primary alcohols and that it strongly prefers the S-enantiomer of diol substrates. ADH-A for its regiospecificity towards secondary alcohols, its enantioselectivity and that is has the ability to use a wide variety of bulky substrates. The kinetic mechanisms of these enzymes were investigated using pre-steady state kinetics, product inhibition, kinetic isotope effects and solvent viscosity effects, and in both cases, the rate limiting steps were pin-pointed to conformational changes occurring at the enzyme-nucleotide complex state. These characterizations provide an important foundation for further studies on these two enzymes.   FucO is specialized for activity with small aliphatic substrates but is virtually inactive with aryl-substituted compounds. By the use of iterative saturation mutagenesis, FucO was re-engineered and several enzyme variants active with S-3-phenylpropane-1,2-diol and phenylacetaldehyde were obtained. It was shown that these variants capability to act on larger substrates are mainly due to an enlargement of the active site cavity. Furthermore, several amino acids which are important for catalysis and specificity were identified. Phe254 interacts with aryl-substituted substrates through π-π stacking and may be essential for activity with these larger substrates. One mutation caused a loss in the interactions made between the enzyme and the nucleotide and thereby enhanced the turnover number for the preferred substrate

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Edible potatoes originated in the Andes and were brought to Europe in the 16th century. Their introduction spurred both the European population growth and economic development. Being the world's fourth-largest food crop, potatoes continue to shape the global economy and world history. Glycoalkaloids are natural insect deterrents generated by potatoes, and are known for their toxic effects as well as potential medicinal utilities. Demissidine, the aglycone of the primary glycoalkaloids, represents one major Solanum alkaloid. Its unique indolizidine framework presents a challenging synthetic target in organic chemistry. Our synthesis of demissidine starts from readily available epiandrosterone and takes advantage of a Lewis acid-mediated fragmentation of a γ-silyloxy-β-hydroxy-α-diazoester; the D-ring of a diazo ester derivative of epiandrosterone was efficiently ruptured to provide an aldehyde tethered ynoate product. In combination with a subsequent azomethine ylide 1,3-dipolar cycloaddition and a transition metal catalyzed oxidation/reduction, the core indolizidine framework of demissidine was successfully prepared in a stereoselective manner. In addition, the syntheses of two amino acids, 5-methylenepipecolic acid and (5S)-5-methylpipecolic acid were explored; they are used for the installation of the α-oriented C25 methyl group on demissidine. The successful preparation of demissidine was supported by NMR analysis of the synthetic compound in comparison with a natural sample. As an efficient and stereoselective synthesis, our efforts toward demissidine illuminate a strategy to indolizidine frameworks that could be applied in the preparation of other polycyclic amine natural products.

Les ARN 5'-triphosphates (TP) et 5'-coiffés sont des molécules très convoitées des biologistes pour des études structurales par cristallographie ou comme outils thérapeutiques. Actuellement, ces oligonucléotides sont produits dans de faibles quantités via des procédés enzymatiques dépendants de la nature du nucléoside situé à l'extrémité 5'. Ces travaux se sont donc inscrits dans l'enjeu majeur de mettre au point une méthode chimique sur support solide qui permette l'accès à ces ARN 5'-fonctionnalisés en quantités importantes et sans restriction de séquences.Ce manuscrit rapporte une nouvelle méthode efficace de synthèse sur support solide d'ARN 5'-TP à grande échelle indépendante du nucléotide situé à l'extrémité 5' ou de la longueur de la séquence ARN. De plus, cette stratégie a été étendue avec quelques modifications à la synthèse d'analogues enzymatiquement plus stables de type: ARN 5'-β,γ-méthylène-TP, -(α-P-thio)-TP et -(α-P-thio)-(β,γ-méthylène)-TP.Une deuxième partie présente la synthèse supportée et l'évaluation antivirale de courts adénylates 2-5A 5'-TP portant des groupements enzymolabiles de type acétalesters en position 3' du ribose. Une dernière partie est consacrée à l'élaboration de nouvelles stratégies pour la synthèse d'ARN 5-coiffés. La première approche est un procédé en deux étapes où la structure coiffe (Gppp) est ajoutée sur support solide suivie d'une N7- méthylation enzymatique en solution, alors que la seconde est une méthode plus directe entièrement chimique. Par ailleurs, le couplage chimique de la coiffe sur les ARN supportés nécessite l'emploi d'un acide de Lewis. Ainsi l'utilisation de chlorures métalliques « verts » produits à partir de métaux de transition extraits de la biomasse a été évaluée dans la réaction du couplage de la coiffe sur les ARN. / 5'-triphosphates RNAand 5'-capped RNA are high valuable molecules which serve as important substrates for structural and mechanistic studies or drugs. To date, these oligonucléotides are produced by enzymatic process in low yields with a weak variability of the 5'-end. To overcome this bottleneck we aimed to develop a chemical access on solid-support of these 5'-functionalized RNA in great amount without any limitations in the RNA sequence.Here, a robust, reproducible, and scalable method for the solid-phase synthesis of 5′-triphosphate RNA is presented. Furthermore, this strategy was extended to produce enzymatic resistant analogs of the triphosphate counterpart like: 5'-β,γ-methylene-TP, -(α-P-thio)-TP et -(α-P-thio)-(β,γ-methylene)-TP RNA.In a second part, the solid-phase synthesis of short adenylates 2-5A 5'-TP bearing biolabile acetalester groups on nucleosides 3'-hydroxyls and their antiviral activities are described.Finally, we focused on developing two approaches for the production of 5'-capped RNA. One is a two-steps process which consists in the coupling of the cap structure on solid-support followed by an enzymatic N7-methylation in solution while the other one is a straightforward chemical strategy. Beside, the chemical coupling of the cap moiety on solid-supported RNA requires the use of Lewis acids. Then, the ability of « green » metal chlorides prepared from phytoextracted heavy metals to promote this reaction was studied.

Oxymonads are a group of heterotrophic flagellates living in low oxygen environment. These protists inhabit mainly the gut of xylophagous insects (cockroaches, termites), with an exception of the genus Monocercomonoides, which was described from the intestinal contents of many vertebrates. On the basis of molecular data, Oxymonadida are classified into the supergroup Excavata (Cavalier-Smith, 2002; Simpson et al., 2006, Hampl et al. 2009). This thesis was focused on the diversity of genus Monocecomonoides from the morphologically simplest family Polymastigidae. The main goal of our work was to gather sequence data from strains isolated from a wide spectrum of hosts. We have obtained 26 partial sequences of the gene for the SSU rDNA in total, of which two belonged to another oxymonad, apparently genus Oxymonas. Our phylogenetic analysis indicated that the representatives of the genus Monocercomonoides form one group, however with a low bootstrap support. On the basis of published data about the presence of non-canonical genetic code in some oxymonads (Keeling and Leander, 2003; de Koning et al., 2008), we decided to explore this rare phenomenon in representatives of the genus Monocercomonoides. For this part of the study we gathered 9 partial sequences of α-tubulin gene. In these sequences we have not...

Magnesidin is a magnesium chelate of the 3-hexanoyl and 3-octanoyl tetramic acid derivatives isolated from Psuedomonas magensiorubra. Its activity against grampositive bacteria was found to be a specific target for Gingivitis, a dental plaque.Although the synthesis of magnesidin has been reported earlier, it was not reproducible. The highly polar nature and it’s ability to exhibit tautomerization makes their chemical behavior complex and difficult to predict its structure. A variety of reactions and an in depth understanding of the chemical structure is necessary to attain the synthesis of these compounds. This dissertation focuses on addressing the attempts towards the synthesis of Magnesidin by identifying the important intermediates necessary for the synthesis as β- keto esters, α,β-unsaturated amino esters. The focus of the work has been addressed by developing a TAG molecule approach, which is similar to the concept of solid phase synthesis except for the fact that the TAG molecule can be identified under UV and also can be detected using various spectroscopic techniques. Microwave synthesis has been explored and applied in to the synthesis of benzyl mono and di bromination, 1,3- benzodioxoles have been established. The benzyl mono bromination is applied to synthesize the TAG molecule, which is then applied in developing a method of synthesis for β-keto esters. The azide approach was used to synthesize the α,β- unsaturated amides, which are another essential class of compounds in the synthesis of magnesidin.

One of the main effects of pro-inflammatory cytokines is the induction of chemokines and the expression of adhesive molecules that regulate the migration of immune cells to the center of the damage. Chemoattractant gradient also provides a physiological delivery of cells to tissues and lymphatic organs under normal circumstances. Chemokines are chemotactic cytokines that form a very large and diverse group of secreted proteins that have many functions both in processes that maintain homeostasis but also in inflammatory states. Production of some chemokines also has a major effect on graft rejection. Further understanding of the mechanisms involved in the acute rejection chemokine could contribute to improving treatment steps in transplantology. In this diploma thesis, serum chemokine levels were monitored in renal transplant patients, but these measurements did not show significant dynamics. Furthermore, the effect of pro- inflammatory cytokines on the release of chemokines from renal epithelial cells and monocytes was studied. Experiments were performed to monitor the levels of individual chemokines such as ENA-78, IL-8, MCP-1, MIP-1β, RANTES, GRO-α, THP-1 (monocyte/macrophage cell line), RPTEC (renal epithelial cells of proximal tubules) and RA (renal cell tumor lines). TNF-α had an effect on the...

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Submitted by Angela Maria de Oliveira (amolivei@uepg.br) on 2018-12-21T13:19:49Z No. of bitstreams: 2 license_rdf: 811 bytes, checksum: e39d27027a6cc9cb039ad269a5db8e34 (MD5) Pamela Thaisa.pdf: 1195732 bytes, checksum: 0da9cde7a5b7b6d64fcef7d3e8a47ff0 (MD5) / Made available in DSpace on 2018-12-21T13:19:49Z (GMT). No. of bitstreams: 2 license_rdf: 811 bytes, checksum: e39d27027a6cc9cb039ad269a5db8e34 (MD5) Pamela Thaisa.pdf: 1195732 bytes, checksum: 0da9cde7a5b7b6d64fcef7d3e8a47ff0 (MD5) Previous issue date: 2018-09-28 / Coordenação de Aperfeiçoamento de Pessoal de Nível Superior / A germinação das sementes de cevada é essencial para a produção do malte e a degradação enzimática do amido em açúcares solúveis é parte do processo de germinação dessas sementes. O objetivo desse trabalho foi avaliar o parâmetro fisiológico de sementes de cevada, através de testes de germinação e de vigor, em função de diferentes momentos de colheita, armazenadas ou não, e a influência da expressão diferencial dos genes, que codificam as enzimas α-amilase e β-amilase. Assim, as sementes das cultivares BRS Cauê e Irina foram produzidas em 2017 e colhidas aos 99 (32% de água), 104 (19,18% de água), 107 (17,92% de água) e 114 (15,89% de água) dias após a semeadura (DAS) para BRS Cauê e 102 (32,76% de água), 107 (20,27% de água), 121 (13,63% de água) e 127 (17,43% de água) DAS para a Irina. A qualidade das sementes foi avaliada logo após a colheita e após o armazenamento por 111 dias (BRS Cauê) e 107 dias (Irina). As sementes mantiveram dormência, principalmente na avaliação inicial; a qualidade das sementes foi superior quando colhidas aos 114 DAS (15,89% de água) para as sementes da cultivar BRS Cauê e aos 107 (20,27% de água) para Irina, sem variação da qualidade das sementes avaliadas após o armazenamento. O nível da expressão diferencial do gene da α-amilase para as sementes da cultivar BRS Cauê colhidas aos 114 DAS foi superior, independentemente da época de avaliação e aos 99 DAS inicialmente. Para Irina os maiores níveis de expressão foram obtidos quando as sementes foram colhidas aos 127 DAS. O nível de expressão do gene da β-amilase foi superior para as sementes colhidas aos 99 DAS para BRS Cauê e aos 102 DAS para Irina avaliadas logo após a colheita, com redução após o armazenamento. A dormência das sementes favoreceu a manutenção da qualidade fisiológica, independentemente do momento em que foram colhidas. Não é possível estabelecer correlação entre os resultados dos testes de germinação e de vigor das sementes de cevada e a expressão gênica para este experimento, evidenciando a complexidade dessa relação e a necessidade de mais estudos que possam melhor elucida-la. / The germination of the barley seeds is essential for the production of malt and enzyme degradation of the starch to soluble sugars, makes part of this seed germination process. The objective of this study was to evaluate the physiological parameters of barley seeds, from germination and vigor tests, depending of the harvests close to physiological maturity, stored or not, and the influence of the differential expression of the genes which codify to α amylase and β-amylase enzymes. The seeds of BRS Cauê and Irina were cultivate in 2017 and harvested at 99 (32% water), 104 (19.18% water), 107 (17.92% water) and 114 (15.89% water) days after sowing (DAS) to BRS Cauê and 102 (32.76% water), 107 (20.27% water), 121 (13.63% water) and 127 (17.43 % water) DAS to Irina. The seed quality was evaluated immediately after harvesting and storage for 111 days (BRS Cauê) and 107 days (Irina). The seeds kept dormancy, mainly in the initial evaluation; (15.89% water) for seeds from BRS Cauê and 107 (20.27% water) for Irina, without variation in the quality of the seeds evaluated after storage. The differential expression level of gene coding to α-amylase, to the seeds of BRS Cauê harvested at 114 DAS, was higher, regardless of the evaluation time and the 99 DAS. For Irina the highest levels of expression were obtained when the seeds were harvested at 127 DAS. The level of expression of the gene coding to β-amylase was higher for seeds harvested at 99 DAS for BRS Cauê and 102 DAS for Irina initially evaluated, with decrease after storage. Seed dormancy favored the maintenance of seed quality, regardless of when they were harvested. It is not possible to establish a correlation between the results of germination and vigor tests of barley seeds and gene expression for this experiment, evidencing the complexity of this relationship and the requirement for research that can better elucidate it.