<p>Hybrid density functional theory (DFT) B3LYP method is applied to study the four diverse enzyme systems: <i>zinc-containing peptidases</i> (thermolysin and stromelysin),<i> methyl-coenzyme M reductase</i>, <i>ribonucleotide reductases</i> (classes I and III), and <i>superoxide dismutases</i> (Cu,Zn- and Ni-dependent enzymes). Powerfull tools of modern quantum chemistry are used to address the questions of biological pathways at their molecular level, proposing a novel mechanism for methane production by methyl-coenzyme M reductase and providing additional insights into hydrolysis by zinc peptidases, substrate conversion by ribonucleotide reductases, and biological superoxide dismutation. Catalysis by these enzymes, with the exception of zinc peptidases, involves radical chemistry.</p>

Hybrid density functional theory (DFT) B3LYP method is applied to study the four diverse enzyme systems: zinc-containing peptidases (thermolysin and stromelysin), methyl-coenzyme M reductase, ribonucleotide reductases (classes I and III), and superoxide dismutases (Cu,Zn- and Ni-dependent enzymes). Powerfull tools of modern quantum chemistry are used to address the questions of biological pathways at their molecular level, proposing a novel mechanism for methane production by methyl-coenzyme M reductase and providing additional insights into hydrolysis by zinc peptidases, substrate conversion by ribonucleotide reductases, and biological superoxide dismutation. Catalysis by these enzymes, with the exception of zinc peptidases, involves radical chemistry.

While great strides have been made in treating many classes of human disease, the late-onset neurodegenerative diseases continue to elude modern medicine. These diseases, which include Alzheimer's disease (AD), Parkinson's disease (PD), Huntington's disease (HD), the transmissible spongiform encephalopathies (TSEs), and amyotrophic lateral sclerosis (ALS), involve accumulation of insoluble aggregates of one or more causative proteins, leading to progressive loss of central nervous system neurons, progressively worsening neurological symptoms, and eventual patient death. All of these diseases are currently incurable and fatal. In the case of ALS, progressive death of upper and lower motor neurons leads to full-body paralysis, respiratory difficulty, and patient death. Of the subset of ALS cases showing familial inheritance, approximately 20% are caused by mutations in the SOD1 gene, encoding the Cu, Zn superoxide dismutase (SOD1). These mutations do not have the common property of impairing SOD1's normal function as a free radical scavenger. Instead, they are thought to increase the protein's likelihood of misfolding and aggregating via a poorly-understood aggregation cascade. It is believed that species populated along the misfolding and aggregation pathway may prove to be good targets for therapies designed to block accumulation of downstream toxic species, or to prevent aberrant protein-protein interactions responsible for neurotoxicity. In this thesis, several new techniques are developed to enable detailed elucidation of the SOD1 unfolding and misfolding pathways. Time-resolved measurements collected during SOD1 unfolding or misfolding of release of bound Cu and Zn, of changes in intrinsic fluorescence, of exposure of hydrophobic surface area, and of alterations in the chemical environment of histidine residues, are presented. A new mathematical analysis technique named the Analytical Laplace Inversion Algorithm is developed for rapid extraction of mechanistic information from these time-resolved signals. These tools are applied to the construction of the most detailed models to date of the unfolding and misfolding mechanisms of WT and ALS-causing mutant SOD1. The models presented identify several well-populated unfolding and misfolding intermediates that could serve as good targets for therapies designed to address the fundamental molecular mechanisms underlying SOD1-associated ALS, and to treat what is currently a devastating and incurable disease.

Three series of studies were conducted to quantify the effectiveness of dietary incorporation of b-1,3-glucan (BG) from Schizophyllum commune in enhancing the immunity and resistance of grass prawn Penaeus monodon to vibriosis and white spot syndrome virus (WSSV) infections. In the first series of studies, three experiments were conducted to evaluate the effectiveness of dietary b-1,3-glucan on shrimp growth and resistance to vibriosis. Weight gain, survival and feed efficiency of juvenile shrimp (0.5 ¡Ó 0.1 g) were not significantly different (P>0.05) after being fed the diets containing BG 0, 0.2, 2, 10 g/kg diet for 18 weeks. Subadult shrimp (20.4 ¡Ó 2.1 g) fed the diet containing of BG 2 g/kg diet for 10 days showed a significantly (P<0.001) enhanced resistance against vibriosis. Postlarvae fed with the BG diet (2 g/kg diet) were more resistant (P<0.001) against starvation and V. harveyi challenges than the postlarvae fed non-BG diet. Additive disease resistance was observed when polyphosphorylated L-ascorbic acid (PAA) was used together with BG. In challenge tests with V. damsela, shrimp fed with PAA (0.2 g/kg diet) + BG (2 g/kg diet) diet for 20 days had a survival rate up to 60%. In the second series of studies, two experiments were conducted to evaluate the effectiveness of dietary b-1,3-glucan on wound healing and immunity in spawners. Dietary supplement of BG reduced the chance of infections, but did not help wound healing as did the supplement of PAA. And regardless of indoor or outdoor rearing, the survival rate of brooder (135 ¡Ó 25 g) fed the BG (2 g/kg diet) diet was higher (P<0.001) than that of the non-BG group. Fed the BG brooders showed enhanced haemocyte phagocytic activity, cell adhesion and superoxide anion production then the control group. Third series of studies evaluated the effectiveness against white spot syndrome virus (WSSV). Six days after being challenged with WSSV, 12.2 % of the BG-treated (2 g/kg diet for 15 days) postlarvae (PL15) and 20 % BG-treated (2 g/kg diet for 20 days) juveniles (5.5 ¡Ó 0.5 g) were still alive; while all non-BG-treated shrimp died. In order to quantify the effectiveness of BG to WSSV, juveniles (6.5 ¡Ó 0.4 g) were fed diets containing graded levels of BG. The results showed that shrimp fed the diet containing BG 10 g/kg for 20 days had the highest (P<0.001) survival rate (42 %) among all groups. Shrimp that received diets supplemented with BG at a dosage >2 g/kg recuperated 9 ~ 12 days after WSSV challenge; while the group fed diets with no or 1 g/kg BG suffered from rapid decrease in total haemocyte count, phagocytic activity, phenoloxidase, O2-, superoxide dismutase (SOD) production and subsequent high mortality. The results in this study showed that b-1,3-glucan is effective in enhancing the phagocytic activity, phenoloxidase, O2- and SOD productions and consequently the resistance of postlarval, juvenile, subadult and brooder P. monodon against vibriosis and viral infections. Since prolonged use of BG, even at optimal dietary levels, decreased the immunity of the shrimp, care therefore must be taken to maximize its effectiveness. A cycle of dietary BG supplement of 2 ~ 10 g/kg diet for 20 days with an intermission of 10 days may serve the purposes.

Cardiovascular diseases are the leading cause of death throughout the world and various estimates predict that heart disease will remain the number one killer in the world. Pharmacotherapies have not shown significant long term survival benefits to the patients, therefore alternate therapeutic strategies such as bioactive agent delivery and cell therapy based approaches are being investigated. One of the major causes of heart failure is the disease progression after an ischemic event and any successful therapy will be needed over the course of several days/weeks. Oxidative stress is greatly increased in the myocardium following infarction. This plays a significant role in cardiac disease progression and it has also been implicated in the failure of implanted cell therapy. Therefore, reducing oxidative stress in damaged tissue using antioxidants may have broad clinical implications for both the treatment of cardiac dysfunction and for cardiac regeneration applications. This dissertation work examines the effect of sustained delivery of endogenous antioxidant superoxide dismutase (SOD) to the rat myocardium following ischemia/reperfusion (IR) using polyketal polymers as drug carriers. The second major objective of this dissertation is to examine the effects of oxidative stress on cardiac progenitor cells - a promising endogenous adult stem cell in cardiac cell therapy applications

Occupational exposure-related hearing loss is a significant health concern for affected workers. Organic solvent exposure has emerged as an important contributor to hearing loss. It is thought that hearing loss related to solvent and noise exposure is mediated by reactive oxygen species (ROS). The glutathione associated enzymes and the manganese superoxide dismutase enzymes (SOD2) are important components of the cochlear hair cellâs defense against oxidative stress. This study is aimed to determine whether polymorphisms within the glutathione S-transferases (GST) P1 and GSTM1, glutathione peroxidase 1 (GPX1), and SOD2 are associated with hearing status in solvent exposed factory workers. Genotypes for the GSTM1 + vs. null, GSTP1 Ile105Val, GPX1 Pro198Leu, SOD2 Val16Ala polymorphisms along with hearing status were determined in factory workers exposed to organic solvents. Hearing tests consisted of pure tone audiometric (PTA) thresholds from 3-6 kHz and distortion product otoacoustic emissions (DPOAEs) for 3-6 kHz. Bivariate and multivariate regression analysis was undertaken to assess for association between polymorphisms and hearing outcomes. The GSTP1 Val/Ile genotype at position 105 was associated with higher PTA thresholds (β=12.41, P value= 0.01) from 3-6 kHz in workers below age 22-43. The analysis showed a protective association of the SOD2 Ala/Val genotype (β= -26.42, P value= 0.025) and The GPX1 Leu/Leu genotypes (β=47.81, P value= 0.034) with audiometric thresholds from 3-6 kHz in individuals above age 43. This small cross-sectional study suggests that polymorphisms within the antioxidant system may alter susceptibility to hearing loss in workers exposed to organic solvents. These results also suggest the mechanisms by which this affect are mediated are complex and should be further investigated.

Hydroxyurea is a teratogen; treatment of dams during organogenesis causes various malformations. Administration of a free radical scavenger ameliorates the embryotoxicity of hydroxyurea, suggesting that oxidative stress mediates this toxicity. The goal of this thesis was to test the hypothesis that superoxide, a reactive oxygen species, is involved. Superoxide dismutase 1 (SOD1) is an antioxidant enzyme that converts superoxide to hydrogen peroxide. To elucidate the role of superoxide in mediating hydroxyurea teratogenicity, dams that were wildtype or hemizygous for hSOD1 were treated on gestation day 9 with saline (control) or hydroxyurea (400 or 600 mg/kg). Fetal death rate and weight were affected similarly by hydroxyurea treatment in litters from wildtype and hemizygous dams. However, fetuses from hemizygote dams exposed to 600 mg/kg hydroxyurea had fewer specific external and skeletal malformations when compared to wildtype dams. These data suggest that superoxide dismutase 1 protects fetuses against specific consequences of oxidative insult during organogenesis.

Zielstellung dieser Studie war es zu überprüfen, ob durch Fütterung einer mit Vitamin E und Selen angereicherten Mineralstoffmischung in der Transitphase eine Beeinflussung des antioxidativen Status mit Reaktionen GPX [Glutathionperoxidase], SOD [Superoxiddismutase], TEAC [Trolox equivalent antioxidative capacity] und ACW [nichtenzymatische wasserlösliche Antioxidantien] sowie des Stoffwechsels erreicht werden kann und ob damit die Häufigkeit der in der Frühlaktation typischen Erkrankungen sinkt. Zur Beantwortung dieser Fragestellung wurden in einem Milchviehbestand mit 1400 Kühen und Färsen zwei Gruppen von je 26 Tieren zu Beginn der Transitfütterung zusammengestellt. Die Versuchsgruppe erhielt drei Wochen ante partum bis drei Wochen post partum eine Mineralstoffmischung mit einem Vitamin E- Gehalt von 300 mg/kg TM (= 447 IU /kg TM) und einem Selengehalt von 0,5 mg/ kg TM, die Kontrollgruppe die stallübliche Mineralstoffmischung mit 0,3 mg Selen/kg TM ohne zusätzliche Vitamin E Ergänzung. Jedem Tier wurde drei Wochen ante partum, 2 bis 4 Tage post partum und 3 Wochen post partum zur klinisch- chemischen Kontrolle Blut entnommen.Zur Bestimmung des antioxidativen Status wurden die GPX, SOD, TEAC und ACW untersucht. Zur Bewertung des peripartalen Stoffwechsels wurden die Parameter des Energie-, Fett- und Leberstoffwechsels (BHB [ß-0H-Butyrat], Cholesterol, AST [Aspartat-Amino-Transferase], GLDH [Glutamat- Dehydrogenase]), des Eiweißstoffwechsels (Albumin, TP [Gesamt-Eiweiß]), sowie des Mineralstoffwechsels (Ca [Calcium], Pi [anorganisches Phosphat] und der CK [Creatinkinase] bestimmt und mit den Kühen der Kontrollgruppe verglichen. Im Blutbild wurden die Erythrozytenzahl, die Leukozytenzahl, die Erythrozytenindices (MCH, MCHC, MCV), Hämatokrit, Hämoglobin und Thrombozytenzahlen verglichen. Die Häufigkeit des Auftretens der klinischen Krankheitsbilder Mastitis, Gebärparese, Retentio secundinarum, Klauenerkrankungen und puerperale Septikämie und die Produktionsdaten Milchleistung nach 100 Tagen, Milchleistung nach 305 Tagen und Zwischenkalbezeit wurden nach Ende der Untersuchungen statistisch ausgewertet. Eine direkte Beeinflussung des SOD und der GPX ist möglich. Durch die Gabe der mit Vitamin E und Selen angereicherten Mineralstoffmischung konnte in der Versuchsgruppe ein Anstieg der GPX-Aktivität und eine Plateaubildung erreicht werden. Die SOD-Aktivitäten lagen in der Versuchsgruppe drei Wochen post partum signifikant höher als in der Kontrollgruppe. Eine bessere Adaptation an den oxidativen Stress im peripartalen Zeitraum kann durch eine mit Vitamin E und Selen angereicherte Mineralstoffmischung erreicht werden. Die Inzidenz der Mastitiserkrankungen in der Frühlaktation wurde signifikant gesenkt.Die Inzidenz der Mastitiserkrankungen in der Frühlaktation wurde signifikant gesenkt. Signifikante Unterschiede ergaben sich auch in der Aktivität der GLDH. In der Versuchsgruppe wurden 3 Wochen post partum deutlich niedrigere GLDH- Aktivität gemessen als in der Kontrollgruppe, woraus auf einen besseren Leberzellschutz in der kritischen biologischen Phase der Milchkuh zu schließen ist. Hinsichtlich der Häufigkeit des Auftretens weiterer klinischer Erkrankungen im peripartalen Zeitraum konnte jedoch keine Verbesserung erzielt werden. Ebenso haben sich die Produktionsparameter Milchleistung und Zwischenkalbezeit nicht verbessert.

There is an influx in heavy metals into soils and ground water due to activities such as increased mineral mining, improper watering and the use of heavy metal contaminated fertilizers. These heavy metals are able to increase the ROS species within plants which may result in plant metabolism deterioration and tissue damage. Heavy metals may also directly damage plants by rendering important enzymes non-functional through binding in metal binding sites of enzymes. The heavy metal focused on in this study was vanadium due to South Africa being one of the primary produces of this metal. Two related Brassica napus L cultivars namely Agamax and Garnet which are economically and environmentally important to South Africa were exposed to vanadium. Physiological experiments such as cell death, chlorophyll and biomass determination were conducted to understand how these cultivars were affected by vanadium toxicity. A low cost, sensitive and robust vanadium assay was developed to estimate the amount of vanadium in samples such as water, soils and plant material. The oxidative state as well as the antioxidant profile of the two cultivars were also observed under vanadium stress. A chlorophyll assay which was conducted on the two cultivars xiv exposed to vanadium showed a marked decrease in chlorophyll A in the suspected sensitive cultivar which was Garnet. However, the suspected tolerant cultivar Agamax fared better and the decrease in chlorophyll A was much less. A similar trend was observed for the two cultivars when the cell death assay was conducted. The vanadium assay showed that Garnet had higher concentrations of vanadium within its leaves and lower concentrations in its roots when compared to Agamax. This observation displayed that Agamax had inherent mechanisms which it used to localize vanadium in its roots and which assisted in its tolerance to the vanadium stress. The oxidative state was determined by doing assays for the specific reactive oxygen species namely hydrogen peroxide and superoxide. It was observed that vanadium treated Garnet leaves had higher reactive oxygen species (ROS) production when compared to the Agamax treated leaves. In-gel native PAGE activity gels were conducted to determine the antioxidant profile for the two cultivars which were exposed to vanadium. The antioxidant enzymes which were under investigation were ascorbate peroxide (APX), superoxide dismutase (SOD) and glutathione-dependent peroxidases (GPX-like) as these enzymes are known to be responsible for controlling the ROS produced in the plants. The GPX-like profile consisted of three isoforms. No isoforms were inhibited by vanadium treatments but one isoform had increased activity in both the Garnet and Agamax treated samples. The SOD profile for Garnet consisted of six isoforms xv and Agamax had seven isoforms. One isoform which was visualized in both Agamax as well as Garnet was inhibited by vanadium treatments. Agamax also had two isoforms which were up-regulated however the corresponding isoforms in Garnet showed no change. The Ascorbate peroxidase profile consisted of seven isoforms for both Garnet and Agamax. No isoforms were inhibited by vanadium treatment. Three isoforms were up-regulated in Garnet and Agamax under vanadium treatments. Here, it is illustrated that Garnet lacked certain mechanisms found in Agamax (and thus experienced more cell death, yield and chlorophyll loss) and performed worst under high vanadium concentrations. Although Garnet increased the activity of some of its antioxidant isoforms in response to increasing ROS levels it was not adequate to maintain a normal oxidative homeostasis. This disruption in oxidative homeostasis lead to plant damage. Agamax was observed to produce less ROS than Garnet and was able to control the ROS produced more effectively than Garnet and thus less damage was observed in Agamax. / Magister Scientiae - MSc

While great strides have been made in treating many classes of human disease, the late-onset neurodegenerative diseases continue to elude modern medicine. These diseases, which include Alzheimer's disease (AD), Parkinson's disease (PD), Huntington's disease (HD), the transmissible spongiform encephalopathies (TSEs), and amyotrophic lateral sclerosis (ALS), involve accumulation of insoluble aggregates of one or more causative proteins, leading to progressive loss of central nervous system neurons, progressively worsening neurological symptoms, and eventual patient death. All of these diseases are currently incurable and fatal. In the case of ALS, progressive death of upper and lower motor neurons leads to full-body paralysis, respiratory difficulty, and patient death. Of the subset of ALS cases showing familial inheritance, approximately 20% are caused by mutations in the SOD1 gene, encoding the Cu, Zn superoxide dismutase (SOD1). These mutations do not have the common property of impairing SOD1's normal function as a free radical scavenger. Instead, they are thought to increase the protein's likelihood of misfolding and aggregating via a poorly-understood aggregation cascade. It is believed that species populated along the misfolding and aggregation pathway may prove to be good targets for therapies designed to block accumulation of downstream toxic species, or to prevent aberrant protein-protein interactions responsible for neurotoxicity. In this thesis, several new techniques are developed to enable detailed elucidation of the SOD1 unfolding and misfolding pathways. Time-resolved measurements collected during SOD1 unfolding or misfolding of release of bound Cu and Zn, of changes in intrinsic fluorescence, of exposure of hydrophobic surface area, and of alterations in the chemical environment of histidine residues, are presented. A new mathematical analysis technique named the Analytical Laplace Inversion Algorithm is developed for rapid extraction of mechanistic information from these time-resolved signals. These tools are applied to the construction of the most detailed models to date of the unfolding and misfolding mechanisms of WT and ALS-causing mutant SOD1. The models presented identify several well-populated unfolding and misfolding intermediates that could serve as good targets for therapies designed to address the fundamental molecular mechanisms underlying SOD1-associated ALS, and to treat what is currently a devastating and incurable disease.