A Combined Experimental and Computational Study of Hydridospirophosphorane Ligand Systems Featuring Halogenated Mandelic Acids
- Authors: Maritz, Marius Johann
- Date: 2023-12
- Subjects: Organic compounds -- Synthesis , Heterocyclic compounds , catalysis -- South Africa
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62096 , vital:71911
- Description: The search for new stereoselective catalysts remains important for the isolation of enantiomeric products from racemic mixtures. The need exists for these catalysts to be more efficient, to be more cost effective as well as be stable over time without undergoing changes in molecular structure and selectivity. The purpose of this research project was to experimentally synthesise and characterise asymmetric catalysts for the use in enantioselective synthesis. The catalysts consisted of the main group element phosphorous as central atom, with the phenyl rings of mandelic acid ligands monosubstituted with halogen atoms fluorine, chlorine and bromine in different configurations. Ligand binding resulted in the formation of hydridospirophosphorane structures, from which the molecular properties and binding geometry of these molecules could be explained by the theory of apicophilicity. Characterization was performed by NMR and IR spectroscopy as well as diffraction studies that provided the experimental crystal structures. The structural, energetic and spectroscopy results were compared to the theoretically obtained molecular properties using DFT analysis. Various interand intramolecular interactions that existed between molecules found in crystal packing environments were discussed. Additional properties that were investigated included modelling solvation effects, molecular orbital analysis, Hirshfeld surfaces, orbital and atomic energy and population analysis as well as ESP energy calculations with the optimized crystal structures as input. Molecular overlay comparisons were also performed between the experimental and optimized structures where the effectiveness of various DFT functionals and basis sets could be determined. The method with the best overall cost-to-accuracy ratio was found to be the triple-zeta def2-tzvp basis set with B3LYP functional theory and the addition of Grimme’s dispersion correction. Results indicated differences in crystal packing depending largely on the given halogen atoms present in the substituted phenyl rings, with differences observed in electronegativity and steric effects. One of the crystal systems showed additional interactions with solvent molecules, giving the impression that obtaining crystal void formation was possible. Alterations in the transition state activation energies between the isomers of each molecule were found to be present and supported the theory behind the mechanism of stereochemical induction. The studied compounds were therefore effective in isolating different enantiomeric ligands by means of energy differences between conformers and displayed unique catalytic properties resulting from the phosphorous main group element. The hydridospirophosphoranes conformers responsible for the lowest theoretically calculated activation energy induced crystallization as was seen by diffraction results for all compounds. Even as an intriguing observation, crystallization will largely depend on solubility rather than a specific conformer’s amount in solution. , Thesis (MSc) -- Faculty of Science, School of Biomolecular and Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Maritz, Marius Johann
- Date: 2023-12
- Subjects: Organic compounds -- Synthesis , Heterocyclic compounds , catalysis -- South Africa
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62096 , vital:71911
- Description: The search for new stereoselective catalysts remains important for the isolation of enantiomeric products from racemic mixtures. The need exists for these catalysts to be more efficient, to be more cost effective as well as be stable over time without undergoing changes in molecular structure and selectivity. The purpose of this research project was to experimentally synthesise and characterise asymmetric catalysts for the use in enantioselective synthesis. The catalysts consisted of the main group element phosphorous as central atom, with the phenyl rings of mandelic acid ligands monosubstituted with halogen atoms fluorine, chlorine and bromine in different configurations. Ligand binding resulted in the formation of hydridospirophosphorane structures, from which the molecular properties and binding geometry of these molecules could be explained by the theory of apicophilicity. Characterization was performed by NMR and IR spectroscopy as well as diffraction studies that provided the experimental crystal structures. The structural, energetic and spectroscopy results were compared to the theoretically obtained molecular properties using DFT analysis. Various interand intramolecular interactions that existed between molecules found in crystal packing environments were discussed. Additional properties that were investigated included modelling solvation effects, molecular orbital analysis, Hirshfeld surfaces, orbital and atomic energy and population analysis as well as ESP energy calculations with the optimized crystal structures as input. Molecular overlay comparisons were also performed between the experimental and optimized structures where the effectiveness of various DFT functionals and basis sets could be determined. The method with the best overall cost-to-accuracy ratio was found to be the triple-zeta def2-tzvp basis set with B3LYP functional theory and the addition of Grimme’s dispersion correction. Results indicated differences in crystal packing depending largely on the given halogen atoms present in the substituted phenyl rings, with differences observed in electronegativity and steric effects. One of the crystal systems showed additional interactions with solvent molecules, giving the impression that obtaining crystal void formation was possible. Alterations in the transition state activation energies between the isomers of each molecule were found to be present and supported the theory behind the mechanism of stereochemical induction. The studied compounds were therefore effective in isolating different enantiomeric ligands by means of energy differences between conformers and displayed unique catalytic properties resulting from the phosphorous main group element. The hydridospirophosphoranes conformers responsible for the lowest theoretically calculated activation energy induced crystallization as was seen by diffraction results for all compounds. Even as an intriguing observation, crystallization will largely depend on solubility rather than a specific conformer’s amount in solution. , Thesis (MSc) -- Faculty of Science, School of Biomolecular and Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Evidence of Late Holocene extreme marine wave event (tsunami) deposits along the South African coast and implications for coastal zone management
- Authors: Mfikili, Athi Nkosibonile
- Date: 2023-12
- Subjects: Tsunamis -- South Africa , Coasts -- Risk assessment , Sediments (Geology)
- Language: English
- Type: Doctoral theses , text
- Identifier: http://hdl.handle.net/10948/62517 , vital:72811
- Description: Although extreme marine wave events such as tsunamis and storm surges have always been part of human existence, their impact on ever-growing coastal population of the world’s coast was highlighted by the recent catastrophic events over the past three decades. Although in situ observations and eyewitness accounts have improved our ability to record and interpret wave inundation by modern extreme marine events, records documenting inundation by pre-historic and historical events are relatively sparse to provide reasonable information on their distribution, magnitude and frequency intervals in most parts of the world. Owing to consequences these natural coastal hazards have on coastal population and infrastructure of the world’s coast, onshore sedimentary deposits preserved in the geological records have been extensively utilized by scientists worldwide to reconstruct the record of pre-historic and historical events and establish the recurrence interval of future events. Although studies investigating inundation of past tsunami has increased worldwide over the past two decades, research on extreme marine inundation has received little attention along the South African coast, despite known inundation by recent events and potential source mechanisms. Therefore, the aim of this study is to investigate sedimentary evidence of past tsunamis and related extreme marine wave events (i.e., storm surges) preserved in the recent geological archive of several coastal environments along the South African coast. The Swartkops, Kabeljous, Kromme and Keurbooms estuaries located in log-spiral bays along the south-east coast and sheltered coastal systems of the Berg Estuary and Verlorenvlei as well as coastal lowlands of the Dwarskersbos on the west coast were selected as the study sites. The sediment cores were collected from these coastal environments and identification of extreme marine wave inundation was based on the recognition of distinct anomalous sand layers. To characterise sediment transport and reconstruct provenance source origin of the deposits, a combination of sedimentological (i.e., grain size distribution), exoscopy (i.e., quartz grain surface microtextures) and micropaleontological (i.e., foraminiferal assemblages) proxies were utilized. Furthermore, age estimation of the deposits was determined using a combination of radiocarbon (14C) and radiometric (137Cs and 210Pb) dating methods.Evidence of coastal flooding by high-energy marine wave events is found preserved in the stratigraphic records of Swartkops and Kabeljous estuaries along the south-east coast and lowlands of Dwarskersbos on the west coast in the form of anomalous sand deposits (layers). The anomalous deposits of Swartkops and Kabeljous estuaries generally consist of gravel-sized shell fragments often with a sharp erosive contact suggesting deposition by a highly energetic marine wave event. Although the preservation varies between cores, a maximum of three anomalous sand depositional layers are preserved in the Swartkops whereas only a single layer in the Kabeljous Estuary with a basal layer of calcrete deposits. 210Pb and 14C dating, constrain the ages of the younger deposits (i.e., the uppermost layer) at Swartkops between 1770-1804 AD and 339-3 cal. BP (1611-1947 cal. AD), respectively. Although these ages span over a wide period, they are interpreted to represent evidence of one of the historical tsunamis generated in the subduction zones of the Indian Ocean e.g., 1762 AD and 1797 AD events generated by 8.8 and 8.0 Mw earthquakes in the Arakan and Sunda Subduction Zones, respectively. Furthermore, the deposits could also represent geological evidence of the 1833 Mentawai events whereas evidence of 1883 Krakatau tsunami is not disregarded, since this event reportedly inundated Algoa Bay. On the other hand, the 14C dating constrain the ages of the second anomalous deposits between 1526-1253 cal. BP (424-697 cal. AD), whereas the older anomalous deposits preserved in the deeper sections of the Swartkops cores as well as the backwater channel of the Kabeljous Estuary are constrained to have been deposited around 4000 cal. BP. Although there is no known locally documented extreme marine wave event during this period, these deposits are interpreted to represent late and mid-Holocene tsunamis associated with mega-thrust subduction zones of the Indian Ocean whereas local submarine landslide generated event are also not disregarded entirely. On the west coast, three anomalous deposits representing extreme marine wave inundation are preserved in the coastal lowlands of the Dwarskersbos. Although the general sedimentary features and thickness vary between the deposits, the first anomalous deposits in the uppermost section of the cores consist of medium sand with scattered shell fragments whereas, the third anomalous deposits in the deeper section of the cores are generally coarser with gravel-sized shell fragments and sharp erosive basal contacts. By contrast, the second anomalous deposits consist of three successive sub-layers of yellow sand with variable sedimentary features and these layers represent successive wave inundation events. Although the sedimentary characteristics of these sub-layers varies, it was noted that the lowermost layers consist of coarser and less well sorted sediments often with basal erosive contact, suggesting that the first wave was more energetic than the two-succeeding waves. Furthermore, calibrated 14C dated shell fragments from the first and second anomalous deposits yielded ‘post-bomb’ ages suggesting deposition after 1950 AD. Given their position within the stratigraphic records, the two deposits are interpreted to represent first geological evidence of the 2008 west coast and 1969 Dwarskersbos events, respectively. On the other hand, the 14C dated shell fragments constrain the deposition of the third anomalous deposits between 315-0 cal. BP (1635-11950 cal. AD) and 358-0 cal. BP (1592-1950 cal. AD), respectively. The third anomalous deposits are interpreted to the 07 April 1620 event, which was described as ‘Two startling thunderclaps’ near Robben Island. Although initially associated to earthquakes, there are no records of an earthquake during this period, therefore, we postulate that the 1620 event could have been a similar event to that of 2008 that inundated the west coast region and/or an unknown event. While it is acknowledged that the absence of reliable source mechanisms poses a great challenge in the reconstruction of extreme marine wave events inundation along the south-east coast, the findings of exoscopy and micropaleontological analyses suggest that the deposits were transported to their depositional environments, although resultant microtextural features and occurrence of individual foraminiferal species and their taphonomical conditions is dependent on coastal setting. The south-east coast deposits consist of highly diverse foraminiferal assemblages, which are dominated by marine and marginal-marine taxa with relatively low abundances of estuarine-brackish species and variable taphonomical conditions. Furthermore, the mechanical-induced features such as percussion marks, fresh surfaces with sharp edges were still preserved on quartz grain surface of the Swartkops deposits, despite dominance by chemical-induced features such as dissolution. By contrast, grain surface microtextural signatures of the Dwarskersbos deposits are dominated by mechanical features such as fresh surfaces and v-percussion marks. Furthermore, the foraminiferal assemblages of the Dwarskersbos deposits consist of exclusively marine and marginal-marine species, suggesting that the sediments were sourced from shallow water environments as well as the adjacent beach. It was further noted that the foraminiferal tests of these deposits consist of higher abundance of corroded and fragmented tests indicating deposition by high-energy conditions. , Thesis (D.Phil) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Mfikili, Athi Nkosibonile
- Date: 2023-12
- Subjects: Tsunamis -- South Africa , Coasts -- Risk assessment , Sediments (Geology)
- Language: English
- Type: Doctoral theses , text
- Identifier: http://hdl.handle.net/10948/62517 , vital:72811
- Description: Although extreme marine wave events such as tsunamis and storm surges have always been part of human existence, their impact on ever-growing coastal population of the world’s coast was highlighted by the recent catastrophic events over the past three decades. Although in situ observations and eyewitness accounts have improved our ability to record and interpret wave inundation by modern extreme marine events, records documenting inundation by pre-historic and historical events are relatively sparse to provide reasonable information on their distribution, magnitude and frequency intervals in most parts of the world. Owing to consequences these natural coastal hazards have on coastal population and infrastructure of the world’s coast, onshore sedimentary deposits preserved in the geological records have been extensively utilized by scientists worldwide to reconstruct the record of pre-historic and historical events and establish the recurrence interval of future events. Although studies investigating inundation of past tsunami has increased worldwide over the past two decades, research on extreme marine inundation has received little attention along the South African coast, despite known inundation by recent events and potential source mechanisms. Therefore, the aim of this study is to investigate sedimentary evidence of past tsunamis and related extreme marine wave events (i.e., storm surges) preserved in the recent geological archive of several coastal environments along the South African coast. The Swartkops, Kabeljous, Kromme and Keurbooms estuaries located in log-spiral bays along the south-east coast and sheltered coastal systems of the Berg Estuary and Verlorenvlei as well as coastal lowlands of the Dwarskersbos on the west coast were selected as the study sites. The sediment cores were collected from these coastal environments and identification of extreme marine wave inundation was based on the recognition of distinct anomalous sand layers. To characterise sediment transport and reconstruct provenance source origin of the deposits, a combination of sedimentological (i.e., grain size distribution), exoscopy (i.e., quartz grain surface microtextures) and micropaleontological (i.e., foraminiferal assemblages) proxies were utilized. Furthermore, age estimation of the deposits was determined using a combination of radiocarbon (14C) and radiometric (137Cs and 210Pb) dating methods.Evidence of coastal flooding by high-energy marine wave events is found preserved in the stratigraphic records of Swartkops and Kabeljous estuaries along the south-east coast and lowlands of Dwarskersbos on the west coast in the form of anomalous sand deposits (layers). The anomalous deposits of Swartkops and Kabeljous estuaries generally consist of gravel-sized shell fragments often with a sharp erosive contact suggesting deposition by a highly energetic marine wave event. Although the preservation varies between cores, a maximum of three anomalous sand depositional layers are preserved in the Swartkops whereas only a single layer in the Kabeljous Estuary with a basal layer of calcrete deposits. 210Pb and 14C dating, constrain the ages of the younger deposits (i.e., the uppermost layer) at Swartkops between 1770-1804 AD and 339-3 cal. BP (1611-1947 cal. AD), respectively. Although these ages span over a wide period, they are interpreted to represent evidence of one of the historical tsunamis generated in the subduction zones of the Indian Ocean e.g., 1762 AD and 1797 AD events generated by 8.8 and 8.0 Mw earthquakes in the Arakan and Sunda Subduction Zones, respectively. Furthermore, the deposits could also represent geological evidence of the 1833 Mentawai events whereas evidence of 1883 Krakatau tsunami is not disregarded, since this event reportedly inundated Algoa Bay. On the other hand, the 14C dating constrain the ages of the second anomalous deposits between 1526-1253 cal. BP (424-697 cal. AD), whereas the older anomalous deposits preserved in the deeper sections of the Swartkops cores as well as the backwater channel of the Kabeljous Estuary are constrained to have been deposited around 4000 cal. BP. Although there is no known locally documented extreme marine wave event during this period, these deposits are interpreted to represent late and mid-Holocene tsunamis associated with mega-thrust subduction zones of the Indian Ocean whereas local submarine landslide generated event are also not disregarded entirely. On the west coast, three anomalous deposits representing extreme marine wave inundation are preserved in the coastal lowlands of the Dwarskersbos. Although the general sedimentary features and thickness vary between the deposits, the first anomalous deposits in the uppermost section of the cores consist of medium sand with scattered shell fragments whereas, the third anomalous deposits in the deeper section of the cores are generally coarser with gravel-sized shell fragments and sharp erosive basal contacts. By contrast, the second anomalous deposits consist of three successive sub-layers of yellow sand with variable sedimentary features and these layers represent successive wave inundation events. Although the sedimentary characteristics of these sub-layers varies, it was noted that the lowermost layers consist of coarser and less well sorted sediments often with basal erosive contact, suggesting that the first wave was more energetic than the two-succeeding waves. Furthermore, calibrated 14C dated shell fragments from the first and second anomalous deposits yielded ‘post-bomb’ ages suggesting deposition after 1950 AD. Given their position within the stratigraphic records, the two deposits are interpreted to represent first geological evidence of the 2008 west coast and 1969 Dwarskersbos events, respectively. On the other hand, the 14C dated shell fragments constrain the deposition of the third anomalous deposits between 315-0 cal. BP (1635-11950 cal. AD) and 358-0 cal. BP (1592-1950 cal. AD), respectively. The third anomalous deposits are interpreted to the 07 April 1620 event, which was described as ‘Two startling thunderclaps’ near Robben Island. Although initially associated to earthquakes, there are no records of an earthquake during this period, therefore, we postulate that the 1620 event could have been a similar event to that of 2008 that inundated the west coast region and/or an unknown event. While it is acknowledged that the absence of reliable source mechanisms poses a great challenge in the reconstruction of extreme marine wave events inundation along the south-east coast, the findings of exoscopy and micropaleontological analyses suggest that the deposits were transported to their depositional environments, although resultant microtextural features and occurrence of individual foraminiferal species and their taphonomical conditions is dependent on coastal setting. The south-east coast deposits consist of highly diverse foraminiferal assemblages, which are dominated by marine and marginal-marine taxa with relatively low abundances of estuarine-brackish species and variable taphonomical conditions. Furthermore, the mechanical-induced features such as percussion marks, fresh surfaces with sharp edges were still preserved on quartz grain surface of the Swartkops deposits, despite dominance by chemical-induced features such as dissolution. By contrast, grain surface microtextural signatures of the Dwarskersbos deposits are dominated by mechanical features such as fresh surfaces and v-percussion marks. Furthermore, the foraminiferal assemblages of the Dwarskersbos deposits consist of exclusively marine and marginal-marine species, suggesting that the sediments were sourced from shallow water environments as well as the adjacent beach. It was further noted that the foraminiferal tests of these deposits consist of higher abundance of corroded and fragmented tests indicating deposition by high-energy conditions. , Thesis (D.Phil) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Assessing land degradation and the effectiveness of calcrete bontveld rehabilitation in a grassridge PPC cement mining area using multi-sensor remotely sensed data and machine learning techniques
- Authors: Mpisane, Khanyisa
- Date: 2023-12
- Subjects: Land degradation -- South Africa , Environmental degradation , Mines and mineral resources -- South Africa
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62527 , vital:72821
- Description: This study uses multi-temporal remote sensing data to spatially visualise and quantify land degradation due to mining as well as Calcrete Bontveld rehabilitation at the Grassridge PPC Cement mine, Gqeberha formerly known as Port Elizabeth in the Eastern Cape, South Africa. Botanical field data is also used to verify the suasses of rehabilitation in the area. SPOT-6 and Landsat multi-spectral images were compared, and Support Vector Machine and Random Forest algorithms were used for classification in order to determine which yields more accurate results for a limestone mine. Support Vector Machine analysis using SPOT-6 images yielded the best results. This was due to the high spatial resolution of SPOT-6 compared to Landsat and Support Vector Machine classifier was able to classify images with fewer training points compared to Random Forest. The spatio-temporal land cover change at the mine was then determined between the years 2000, 2015 and 2020. Land cover classification is useful for monitoring land degradation and, in this case, was able to show the extent of rehabilitation success. For the year 2020, a 17% area was rehabilitated; however, the algorithm could not distinguish between unmined Calcrete Bontveld matrix and rehabilitation sites that were older than five years. The performed change detection also showed that 29.50% of unmined Calcrete Bontveld matrix had changed to “mature rehabilitation” (rehabilitation sites older than five years). Again, for this percentage in some areas the algorithm could not distinguish between the unmined Calcrete Bontveld matrix and rehabilitation sites that were older than five years due to high similarities between the two land cover types. Area changes of the different land cover classes could also be used to demonstrate how rehabilitation areas have matured over time and lead to the conclusion that most of the Calcrete Bontveld which was mined, has over the years been successfully rehabilitated. Vegetation analysis was conducted to further validate the rehabilitation success of Calcrete Bontveld matrix. Multivariant Detrended Correspondent Analysis showed that rehabilitation sites which were younger than five years (2–year-old rehabilitation plots that were sampled) had great dissimilarity to the natural unmined Calcrete Bontveld matrix and that rehabilitation sites older than five years, in this case 16–years older, had high similarity and resemblance to natural unmined Calcrete Bontveld matrix and therefore could be considered as being mature. This was a more definitive assessment as it considers all aspects of the vegetation. Species cover and species richness also showed that Calcrete Bontveld matrix rehabilitation sites which have been rehabilitated for more than 5 years had greater similarity to natural unmined vegetation compared to areas that have been rehabilitated for less than five years. This study, therefore, demonstrates that due to the high similarity between mature rehabilitation sites and unmined Calcrete Bontveld, rehabilitation has been successful. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Mpisane, Khanyisa
- Date: 2023-12
- Subjects: Land degradation -- South Africa , Environmental degradation , Mines and mineral resources -- South Africa
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62527 , vital:72821
- Description: This study uses multi-temporal remote sensing data to spatially visualise and quantify land degradation due to mining as well as Calcrete Bontveld rehabilitation at the Grassridge PPC Cement mine, Gqeberha formerly known as Port Elizabeth in the Eastern Cape, South Africa. Botanical field data is also used to verify the suasses of rehabilitation in the area. SPOT-6 and Landsat multi-spectral images were compared, and Support Vector Machine and Random Forest algorithms were used for classification in order to determine which yields more accurate results for a limestone mine. Support Vector Machine analysis using SPOT-6 images yielded the best results. This was due to the high spatial resolution of SPOT-6 compared to Landsat and Support Vector Machine classifier was able to classify images with fewer training points compared to Random Forest. The spatio-temporal land cover change at the mine was then determined between the years 2000, 2015 and 2020. Land cover classification is useful for monitoring land degradation and, in this case, was able to show the extent of rehabilitation success. For the year 2020, a 17% area was rehabilitated; however, the algorithm could not distinguish between unmined Calcrete Bontveld matrix and rehabilitation sites that were older than five years. The performed change detection also showed that 29.50% of unmined Calcrete Bontveld matrix had changed to “mature rehabilitation” (rehabilitation sites older than five years). Again, for this percentage in some areas the algorithm could not distinguish between the unmined Calcrete Bontveld matrix and rehabilitation sites that were older than five years due to high similarities between the two land cover types. Area changes of the different land cover classes could also be used to demonstrate how rehabilitation areas have matured over time and lead to the conclusion that most of the Calcrete Bontveld which was mined, has over the years been successfully rehabilitated. Vegetation analysis was conducted to further validate the rehabilitation success of Calcrete Bontveld matrix. Multivariant Detrended Correspondent Analysis showed that rehabilitation sites which were younger than five years (2–year-old rehabilitation plots that were sampled) had great dissimilarity to the natural unmined Calcrete Bontveld matrix and that rehabilitation sites older than five years, in this case 16–years older, had high similarity and resemblance to natural unmined Calcrete Bontveld matrix and therefore could be considered as being mature. This was a more definitive assessment as it considers all aspects of the vegetation. Species cover and species richness also showed that Calcrete Bontveld matrix rehabilitation sites which have been rehabilitated for more than 5 years had greater similarity to natural unmined vegetation compared to areas that have been rehabilitated for less than five years. This study, therefore, demonstrates that due to the high similarity between mature rehabilitation sites and unmined Calcrete Bontveld, rehabilitation has been successful. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Evaluation of the antidiabetic potential, safety and efficacy of selected natural products using zebrafish larvae and in vitro bioassays
- Reddy, Shanika, Dambuza, Ntokozo
- Authors: Reddy, Shanika , Dambuza, Ntokozo
- Date: 2023-12
- Subjects: Traditional medicine -- Research -- South Africa , Medicinal plants -- South Africa -- Research , Insulin resistance
- Language: English
- Type: Doctoral theses , text
- Identifier: http://hdl.handle.net/10948/62575 , vital:72825
- Description: Abstract. , Thesis (MSc) -- Faculty of Science, School of Biomolecular & Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Reddy, Shanika , Dambuza, Ntokozo
- Date: 2023-12
- Subjects: Traditional medicine -- Research -- South Africa , Medicinal plants -- South Africa -- Research , Insulin resistance
- Language: English
- Type: Doctoral theses , text
- Identifier: http://hdl.handle.net/10948/62575 , vital:72825
- Description: Abstract. , Thesis (MSc) -- Faculty of Science, School of Biomolecular & Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Pyrolysis of algal biomass and coal in a rotary kiln reactor: Pyrolysis behaviour, product distribution and kinetic analysis
- Authors: Nyoni, Bothwell
- Date: 2023-12
- Subjects: Algal biofuels , Biomass energy , Coal -- South Africa
- Language: English
- Type: Doctorate theses , text
- Identifier: http://hdl.handle.net/10948/62550 , vital:72823
- Description: There are two primary reasons why the global economy is gradually reducing its dependence on coal as an energy source. Firstly, coal reserves are finite, and while some argue that current reserves will last for generations, the reality is that coal is a non-renewable resource. Secondly, the emissions associated with coal usage have adverse effects on both the environment and human health. While European countries have adopted seemingly aggressive strategies to replace coal and other fossil fuels, South Africa and other developing nations face economic constraints that limit such actions. Fortunately, there are more conservative approaches that can be employed, one of which involves a gradual introduction of renewable energy sources into the energy grid. Wind, solar, and biomass currently stand as the major renewable energy sources under consideration. However, it's worth noting that the intermittent nature of wind and solar energy production poses a significant challenge. Biomass holds the potential to replace coal in retrofitted coal-fired plants. However, the unchecked utilisation of biomass can lead to deforestation and have adverse effects on the human and animal food supply chain, as many essential food items are derived from plants. The debate over using biomass as a fuel source, especially when some types of biomasses can serve as food for humans and animals, has been a subject of ongoing discussion. Furthermore, biomass exhibits a lower energy density when compared to coal. Combustion stands as the primary technology for converting coal into energy and is widely used in most coal-based power plants. Gasification, on the other hand, has been employed for years in South Africa as a coal-to-liquids technology to supplement transportation fuel requirements and reduce reliance on crude oil imports. Pyrolysis, too, has found application as a key method for obtaining high-energy coal char, serving both as an energy source and a reducing agent in blast furnaces for the steelmaking industry. Pyrolysis technologies are gaining popularity in biomass-to-liquids processes due to their simplicity. Currently, there is growing research interest in simultaneous pyrolysis of coal and biomass. The study presented in this thesis focuses on investigating the pyrolysis of Scenedesmus algae biomass and low-grade coal in a small-scale rotary kiln, with particular emphasis on the synthesised liquid products. Algae represent a unique type of biomass that can be cultivated in photo-bioreactors with minimal use of agricultural land. This suggests significant potential for large-scale cultivation of algae, and ongoing efforts are exploring strategies for the mass production of algal biomass.Firstly, pyrolysis studies were carried out via thermogravimetric analysis instruments. It was revealed that because of algae’s considerably higher volatile content and lower carbon content when compared to coal, the pyrolysis process of algal biomass occurred at a faster rate. The highest pyrolytic reactivity of algae was 0.41 mg/min occurring at approximately 290 ᵒC in comparison with coal’s 0.06 mg/min occurring in the approximate temperature range of 550 – 600 ᵒC. The magnitude of the reactivity of the blends depended on the coal/algae ratios used. Furthermore, kinetics analysis revealed that the overall pyrolytic decomposition of coal followed 2nd order kinetics with an activation energy of 81.8 kJ/mol. The decomposition of algae and coal-algae blends occurred in two stages; the first stage decomposition followed 2nd order kinetics with activation energies in the range 130.3 – 145.5 kJ/mol. The second stage decomposition of algae followed 1st order kinetics with an activation energy of 27.3 kJ/mol, whilst coal-algae blends followed 2nd order decomposition with an activation energy range of 69.4 – 74.2 kJ/mol. Secondly, pyrolysis studies were carried out in a rotary kiln reactor wherefrom the char products were collected, and pyrolytic gases condensed to obtain pyroligneous liquid. It was found that the composition of oils synthesised from the pyrolysis of coal was rich in paraffins (52.6 % at 550 ᵒC), however the yield of oil from the pyrolysis of coal was low (6.9 %). Oils from algae and coal-algae blends were dominated by alcohols, fatty acids, fatty acid esters and poly-cyclic aromatic compounds. For example, the most abundant compounds in algae oil produced at 550 ᵒC were fatty acid esters (28.8 %), alcohols (17.6 %), fatty acids (10.8 %) and unsaturated aliphatics (10.7 %); the oil yield obtained from pyrolysis of algae was 40 %. The yields and composition of oils obtained from coal-algae blends were linked to individual contributions from coal and algae, especially at 550 ᵒC; however, the contributions were not proportional due to synergistic effects. This kind of study will contribute to the already existing but limited literature on coal-algae pyrolysis. Furthermore, this study demonstrates the potential of using low-grade coals (an abundant resource in Southern Africa) in conjunction with algal biomass (a renewable resource), in large-scale synthesis of liquid fuels and valuable chemicals via a simple pyrolysis process. , Thesis (MSc) -- Faculty of Science, School of Biomolecular & Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Nyoni, Bothwell
- Date: 2023-12
- Subjects: Algal biofuels , Biomass energy , Coal -- South Africa
- Language: English
- Type: Doctorate theses , text
- Identifier: http://hdl.handle.net/10948/62550 , vital:72823
- Description: There are two primary reasons why the global economy is gradually reducing its dependence on coal as an energy source. Firstly, coal reserves are finite, and while some argue that current reserves will last for generations, the reality is that coal is a non-renewable resource. Secondly, the emissions associated with coal usage have adverse effects on both the environment and human health. While European countries have adopted seemingly aggressive strategies to replace coal and other fossil fuels, South Africa and other developing nations face economic constraints that limit such actions. Fortunately, there are more conservative approaches that can be employed, one of which involves a gradual introduction of renewable energy sources into the energy grid. Wind, solar, and biomass currently stand as the major renewable energy sources under consideration. However, it's worth noting that the intermittent nature of wind and solar energy production poses a significant challenge. Biomass holds the potential to replace coal in retrofitted coal-fired plants. However, the unchecked utilisation of biomass can lead to deforestation and have adverse effects on the human and animal food supply chain, as many essential food items are derived from plants. The debate over using biomass as a fuel source, especially when some types of biomasses can serve as food for humans and animals, has been a subject of ongoing discussion. Furthermore, biomass exhibits a lower energy density when compared to coal. Combustion stands as the primary technology for converting coal into energy and is widely used in most coal-based power plants. Gasification, on the other hand, has been employed for years in South Africa as a coal-to-liquids technology to supplement transportation fuel requirements and reduce reliance on crude oil imports. Pyrolysis, too, has found application as a key method for obtaining high-energy coal char, serving both as an energy source and a reducing agent in blast furnaces for the steelmaking industry. Pyrolysis technologies are gaining popularity in biomass-to-liquids processes due to their simplicity. Currently, there is growing research interest in simultaneous pyrolysis of coal and biomass. The study presented in this thesis focuses on investigating the pyrolysis of Scenedesmus algae biomass and low-grade coal in a small-scale rotary kiln, with particular emphasis on the synthesised liquid products. Algae represent a unique type of biomass that can be cultivated in photo-bioreactors with minimal use of agricultural land. This suggests significant potential for large-scale cultivation of algae, and ongoing efforts are exploring strategies for the mass production of algal biomass.Firstly, pyrolysis studies were carried out via thermogravimetric analysis instruments. It was revealed that because of algae’s considerably higher volatile content and lower carbon content when compared to coal, the pyrolysis process of algal biomass occurred at a faster rate. The highest pyrolytic reactivity of algae was 0.41 mg/min occurring at approximately 290 ᵒC in comparison with coal’s 0.06 mg/min occurring in the approximate temperature range of 550 – 600 ᵒC. The magnitude of the reactivity of the blends depended on the coal/algae ratios used. Furthermore, kinetics analysis revealed that the overall pyrolytic decomposition of coal followed 2nd order kinetics with an activation energy of 81.8 kJ/mol. The decomposition of algae and coal-algae blends occurred in two stages; the first stage decomposition followed 2nd order kinetics with activation energies in the range 130.3 – 145.5 kJ/mol. The second stage decomposition of algae followed 1st order kinetics with an activation energy of 27.3 kJ/mol, whilst coal-algae blends followed 2nd order decomposition with an activation energy range of 69.4 – 74.2 kJ/mol. Secondly, pyrolysis studies were carried out in a rotary kiln reactor wherefrom the char products were collected, and pyrolytic gases condensed to obtain pyroligneous liquid. It was found that the composition of oils synthesised from the pyrolysis of coal was rich in paraffins (52.6 % at 550 ᵒC), however the yield of oil from the pyrolysis of coal was low (6.9 %). Oils from algae and coal-algae blends were dominated by alcohols, fatty acids, fatty acid esters and poly-cyclic aromatic compounds. For example, the most abundant compounds in algae oil produced at 550 ᵒC were fatty acid esters (28.8 %), alcohols (17.6 %), fatty acids (10.8 %) and unsaturated aliphatics (10.7 %); the oil yield obtained from pyrolysis of algae was 40 %. The yields and composition of oils obtained from coal-algae blends were linked to individual contributions from coal and algae, especially at 550 ᵒC; however, the contributions were not proportional due to synergistic effects. This kind of study will contribute to the already existing but limited literature on coal-algae pyrolysis. Furthermore, this study demonstrates the potential of using low-grade coals (an abundant resource in Southern Africa) in conjunction with algal biomass (a renewable resource), in large-scale synthesis of liquid fuels and valuable chemicals via a simple pyrolysis process. , Thesis (MSc) -- Faculty of Science, School of Biomolecular & Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Investigating the effect of peptide-functionalized gold nanoparticles on colon cancer cells
- Authors: Ramagoma, Rolivhuwa Bishop
- Date: 2023-12
- Subjects: Colon (Anatomy) -- Cancer -- Research , Colon (Anatomy) -- Cancer -- Treatment , Nanoparticles
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62564 , vital:72824
- Description: Colon cancer like any other cancer is a condition in which cells grow uncontrollably and may even spread to other regions of the body through metastasis. Colon cancer was ranked the second leading cause of cancer related deaths worldwide in 2018. Research to advance treatment of cancer keeps advancing daily, However, a big challenge is drug-induced side effects due to toxicity against normal body cells. Therefore, the development of controlled release technologies in conjunction with targeted drug delivery may provide a more efficient and less dangerous approach to overcome the limits of traditional chemotherapy. Including the creation of nanoscale delivery vehicles capable of directing the release of chemotherapeutic drugs into cancer cells only. This study aims to investigate p14 peptide that would specifically target colorectal cancer cells and not normal body cells to develop a targeted drug delivery system using gold nanoparticles. This study serves as a pilot study of the primary aim. To achieve this, the effect of the peptide p14 and peptide functionalized gold nanoparticles (p14-AuNP) on colon cancer cells (HT-29) and normal epithelial cells (KMST-6) was determined. Firstly, gold nanoparticles were chemically synthesised and then functionalized with p14 peptide through Polyethylene glycol. Then assessment of their effect through in vitro cytotoxicity assay (MTT) and gene expression analysis (RT-qPCR) was conducted. Nanoparticles’ synthesis and functionalization was performed and confirmed: In vitro cytotoxicity through MTT assay was successfully conducted and p14-AuNP showed toxicity against colon cancer cells and lesser toxicity towards normal cells as compared to 5-Flourouracil (commercially approved drug for colon cancer treatment). Gene expression analysis revealed that apoptosis was induced in both cell lines by p14-AuNP either through upregulation of caspase 3, 7 and/or BCL2. A cell survival gene, AKT1, also had significant effect on this. CDC42 was downregulated which indicates that cell proliferation was inhibited. , Thesis (MSc) -- Faculty of Science, School of Biomolecular & Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Ramagoma, Rolivhuwa Bishop
- Date: 2023-12
- Subjects: Colon (Anatomy) -- Cancer -- Research , Colon (Anatomy) -- Cancer -- Treatment , Nanoparticles
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62564 , vital:72824
- Description: Colon cancer like any other cancer is a condition in which cells grow uncontrollably and may even spread to other regions of the body through metastasis. Colon cancer was ranked the second leading cause of cancer related deaths worldwide in 2018. Research to advance treatment of cancer keeps advancing daily, However, a big challenge is drug-induced side effects due to toxicity against normal body cells. Therefore, the development of controlled release technologies in conjunction with targeted drug delivery may provide a more efficient and less dangerous approach to overcome the limits of traditional chemotherapy. Including the creation of nanoscale delivery vehicles capable of directing the release of chemotherapeutic drugs into cancer cells only. This study aims to investigate p14 peptide that would specifically target colorectal cancer cells and not normal body cells to develop a targeted drug delivery system using gold nanoparticles. This study serves as a pilot study of the primary aim. To achieve this, the effect of the peptide p14 and peptide functionalized gold nanoparticles (p14-AuNP) on colon cancer cells (HT-29) and normal epithelial cells (KMST-6) was determined. Firstly, gold nanoparticles were chemically synthesised and then functionalized with p14 peptide through Polyethylene glycol. Then assessment of their effect through in vitro cytotoxicity assay (MTT) and gene expression analysis (RT-qPCR) was conducted. Nanoparticles’ synthesis and functionalization was performed and confirmed: In vitro cytotoxicity through MTT assay was successfully conducted and p14-AuNP showed toxicity against colon cancer cells and lesser toxicity towards normal cells as compared to 5-Flourouracil (commercially approved drug for colon cancer treatment). Gene expression analysis revealed that apoptosis was induced in both cell lines by p14-AuNP either through upregulation of caspase 3, 7 and/or BCL2. A cell survival gene, AKT1, also had significant effect on this. CDC42 was downregulated which indicates that cell proliferation was inhibited. , Thesis (MSc) -- Faculty of Science, School of Biomolecular & Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Mechanical recyclability and biodegradation of biopolymers, biopolymer blends and biocomposite in natural environmental conditions
- Authors: Nomadolo, Nomvuyo Elizabeth
- Date: 2023-12
- Subjects: Polymers , Polymeric composites , Biopolymers
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62539 , vital:72822
- Description: The present research aimed at investigating mechanical recyclability and studying the potential biotic and abiotic degradation behaviors of biobased biodegradable polymers in different environmental conditions. The mechanical recyclability tests monitored the effect of multiple reprocessing on the mechanical, thermal, physical, chemical, and morphological properties of poly (butylene adipate-co-terephthalate) (PBAT), poly (butylene succinate) (PBS), poly (lactic acid) (PLA), PBAT-PBS blend, and PBAT-thermoplastic starch (TPS) composite. Low-density polyethylene (LDPE), a conventional non-biodegradable plastic, was also monitored for comparison studies. The mechanical recyclability tests were carried out by eight melt extrusion cycles using twin-screw extrusion and injection molding processing techniques. Tensile testing, impact analysis, melt flow index test (MFI), differential scanning calorimetry (DSC), thermogravimetry (TGA), dynamic mechanical analysis (DMA), Fourier Transform Infrared Spectroscopy (FTIR) and scanning electron microscopy (SEM) techniques were employed to monitor the effect mechanical recycling at each melt extrusion cycle. Tensile and impact strength results showed that PBAT and PBAT-TPS biocomposite were mechanical recyclable for at least eight cycles and this was comparable to LDPE recyclability performance. In contrast, neat PBS, PLA, and PBAT-PBS blend were found to be melt extrudable only up to six cycles as the mechanical properties declined with the increase of reprocessing cycles. MFI tests suggest that molecular weight of PBAT and PBAT-TPS were not significantly affected by multiple extrusion cycles while the melt flow properties of PBS, PLA, and PBAT-PBS samples were affected from third cycle. DSC, TGA, and DMA demonstrated that PBAT and PBAT-TPS were more thermo-mechanically stable than PBS, PLA, and PBAT-PBS blend. FTIR spectroscopy results showed that the chemical structure of both PBAT and PBAT-TPS were unaffected by the multiple recycling cycles typically indicated by characteristic peak vibrations bands of C=O and C-O around 1710 cm-1 and 1046-1100 cm-1, respectively. SEM micrographs of PBS, PLA, and PBAT-PBS clearly evidenced the degradation of the biopolymers by severely fractured morphology as a result multiple reprocessing cycle.The rate of aerobic biodegradation for PBAT-PBS and PBAT-PLA blends was examined under controlled home and industrial composting using the CO2 evolution respirometric method. FTIR, DSC, TGA, X-ray diffraction analysis (XRD), and SEM were employed to monitor the changes in the structural, chemical, thermal, and morphological characteristics of the biopolymer blends before and after biodegradation. The biodegradation tests showed that PBAT-PBS and PBAT-PLA blends exhibited higher degradation rates under industrial composting conditions than under home composting conditions. The increased intensity of hydroxyl and carbonyl absorption bands on the FTIR spectra confirmed that the biodegradation process occurred. SEM revealed that there was microbial colony formation and disintegration on the surfaces of the biopolymer blends. Moreover, abiotic degradation results suggested that thermal and hydrolytic conditions influence the degradation process than sunlight exposure. Additionally, aquatic biodegradation results showed that PBAT-PBS blend and PBAT-TPS composite undergo a higher rate of biodegradation as compared to PBAT, PBS, and PLA.The results obtained from this research work conclude that biobased biodegradable polymers can be mechanically recycled, and they are suitable for biological degradation in industrial composting, home composting and marine environment. , Thesis (MSc) -- Faculty of Science, School of Biomolecular and Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Nomadolo, Nomvuyo Elizabeth
- Date: 2023-12
- Subjects: Polymers , Polymeric composites , Biopolymers
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62539 , vital:72822
- Description: The present research aimed at investigating mechanical recyclability and studying the potential biotic and abiotic degradation behaviors of biobased biodegradable polymers in different environmental conditions. The mechanical recyclability tests monitored the effect of multiple reprocessing on the mechanical, thermal, physical, chemical, and morphological properties of poly (butylene adipate-co-terephthalate) (PBAT), poly (butylene succinate) (PBS), poly (lactic acid) (PLA), PBAT-PBS blend, and PBAT-thermoplastic starch (TPS) composite. Low-density polyethylene (LDPE), a conventional non-biodegradable plastic, was also monitored for comparison studies. The mechanical recyclability tests were carried out by eight melt extrusion cycles using twin-screw extrusion and injection molding processing techniques. Tensile testing, impact analysis, melt flow index test (MFI), differential scanning calorimetry (DSC), thermogravimetry (TGA), dynamic mechanical analysis (DMA), Fourier Transform Infrared Spectroscopy (FTIR) and scanning electron microscopy (SEM) techniques were employed to monitor the effect mechanical recycling at each melt extrusion cycle. Tensile and impact strength results showed that PBAT and PBAT-TPS biocomposite were mechanical recyclable for at least eight cycles and this was comparable to LDPE recyclability performance. In contrast, neat PBS, PLA, and PBAT-PBS blend were found to be melt extrudable only up to six cycles as the mechanical properties declined with the increase of reprocessing cycles. MFI tests suggest that molecular weight of PBAT and PBAT-TPS were not significantly affected by multiple extrusion cycles while the melt flow properties of PBS, PLA, and PBAT-PBS samples were affected from third cycle. DSC, TGA, and DMA demonstrated that PBAT and PBAT-TPS were more thermo-mechanically stable than PBS, PLA, and PBAT-PBS blend. FTIR spectroscopy results showed that the chemical structure of both PBAT and PBAT-TPS were unaffected by the multiple recycling cycles typically indicated by characteristic peak vibrations bands of C=O and C-O around 1710 cm-1 and 1046-1100 cm-1, respectively. SEM micrographs of PBS, PLA, and PBAT-PBS clearly evidenced the degradation of the biopolymers by severely fractured morphology as a result multiple reprocessing cycle.The rate of aerobic biodegradation for PBAT-PBS and PBAT-PLA blends was examined under controlled home and industrial composting using the CO2 evolution respirometric method. FTIR, DSC, TGA, X-ray diffraction analysis (XRD), and SEM were employed to monitor the changes in the structural, chemical, thermal, and morphological characteristics of the biopolymer blends before and after biodegradation. The biodegradation tests showed that PBAT-PBS and PBAT-PLA blends exhibited higher degradation rates under industrial composting conditions than under home composting conditions. The increased intensity of hydroxyl and carbonyl absorption bands on the FTIR spectra confirmed that the biodegradation process occurred. SEM revealed that there was microbial colony formation and disintegration on the surfaces of the biopolymer blends. Moreover, abiotic degradation results suggested that thermal and hydrolytic conditions influence the degradation process than sunlight exposure. Additionally, aquatic biodegradation results showed that PBAT-PBS blend and PBAT-TPS composite undergo a higher rate of biodegradation as compared to PBAT, PBS, and PLA.The results obtained from this research work conclude that biobased biodegradable polymers can be mechanically recycled, and they are suitable for biological degradation in industrial composting, home composting and marine environment. , Thesis (MSc) -- Faculty of Science, School of Biomolecular and Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Investigating the interannual variability of the Benguela coastal upwelling system using a ROMS numerical model from 1993-2014
- Silima, Rudzani Faith, Roagosha, Moagabo
- Authors: Silima, Rudzani Faith , Roagosha, Moagabo
- Date: 2023-12
- Subjects: Oceanography , Coasts , Marine sciences
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62586 , vital:72826
- Description: The seasonal and interannual variability of the coastal Benguela upwelling system is described using 22 years (September 1993 - December 2014) of a regional Ocean model (ROMS) output. The model-derived SSTs are evaluated against satellite SSTs (GHRSST) and biases between the datasets investigated, allowing for confidence in using the ROMS data to investigate details of spatial and temporal variability over the Benguela System. Variability of coastal SSTs are investigated together with alongshore winds (from the ERA-Interim Reanalysis product). The driver of the seasonality in upwelling in the Benguela region is the seasonal shift of the South Atlantic High pressure system, leading to an enhanced seasonal signal in the southern Benguela (with strongest upwelling favourable winds in austral spring and summer). In the northern Benguela, the seasonal signal reduces with the peak of upwelling favourable winds shifting to late winter and spring. Interannual variability is evident in the model and is investigated with respect to various modes of climate variability. Though the direct relationship of the Benguela upwelling system to large-scale climate modes such as SAM and ENSO is not clear in most places, some evidence was found for their connection. For instance, in the southernmost cell of the southern Benguela a significant positive and negative correlation exists between SST and wind respectively with ENSO during summer months. This relates to increased (decreased) winds and decreased (increased) SST during La Niña (El Niño) events. Although there was no direct correlation with either SST or alongshore wind anywhere in the Benguela system, there was some indication of its importance. A trend toward a positive SAM (i.e a more poleward position of the South Atlantic High-Pressure system) was consistent with a trend toward enhanced winds and reduced SSTs in the southernmost upwelling cell. In addition to this, there was evidence to suggest that when SAM and ENSO are out-of-phase, which occurred primarily during summer months, the wind and SST response is amplified. This seemed to be particularly true in the first 10 years of the timeseries when the anomalies were strongly alternating. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Silima, Rudzani Faith , Roagosha, Moagabo
- Date: 2023-12
- Subjects: Oceanography , Coasts , Marine sciences
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62586 , vital:72826
- Description: The seasonal and interannual variability of the coastal Benguela upwelling system is described using 22 years (September 1993 - December 2014) of a regional Ocean model (ROMS) output. The model-derived SSTs are evaluated against satellite SSTs (GHRSST) and biases between the datasets investigated, allowing for confidence in using the ROMS data to investigate details of spatial and temporal variability over the Benguela System. Variability of coastal SSTs are investigated together with alongshore winds (from the ERA-Interim Reanalysis product). The driver of the seasonality in upwelling in the Benguela region is the seasonal shift of the South Atlantic High pressure system, leading to an enhanced seasonal signal in the southern Benguela (with strongest upwelling favourable winds in austral spring and summer). In the northern Benguela, the seasonal signal reduces with the peak of upwelling favourable winds shifting to late winter and spring. Interannual variability is evident in the model and is investigated with respect to various modes of climate variability. Though the direct relationship of the Benguela upwelling system to large-scale climate modes such as SAM and ENSO is not clear in most places, some evidence was found for their connection. For instance, in the southernmost cell of the southern Benguela a significant positive and negative correlation exists between SST and wind respectively with ENSO during summer months. This relates to increased (decreased) winds and decreased (increased) SST during La Niña (El Niño) events. Although there was no direct correlation with either SST or alongshore wind anywhere in the Benguela system, there was some indication of its importance. A trend toward a positive SAM (i.e a more poleward position of the South Atlantic High-Pressure system) was consistent with a trend toward enhanced winds and reduced SSTs in the southernmost upwelling cell. In addition to this, there was evidence to suggest that when SAM and ENSO are out-of-phase, which occurred primarily during summer months, the wind and SST response is amplified. This seemed to be particularly true in the first 10 years of the timeseries when the anomalies were strongly alternating. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Evaluating antidiabetic properties of selected African medicinal plants in a cell-based model
- Sirkhotte, Saeedah, Reddy, Shanika
- Authors: Sirkhotte, Saeedah , Reddy, Shanika
- Date: 2023-12
- Subjects: Medicinal plants -- South Africa , Insulin resistance , Gluconeogenesis
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62600 , vital:72827
- Description: The World Health Organisation lists diabetes as one of the major non-communicable diseases affecting the world, and its prevalence is expected to increase rapidly. Type II diabetes mellitus (T2DM) is characterised by insulin resistance and impaired blood glucose control. T2DM is of growing concern within South Africa, with 10.8% of the population currently diagnosed. The popularity, as well as availability, of traditional plant-based medicine in South Africa, might provide a solution. Antidiabetic potential is commonly tested by in vitro assays, however the methods to test this potential via gluconeogenesis are limited. This project aimed to optimise an in vitro hepatic gluconeogenesis model. In addition, this project aimed to determine the antidiabetic properties of Prunus africana, Hypoxis stellipilis, and Eriocephalus africanus by in vitro analysis. These properties were examined in human hepatoma cells (C3A cell line) and rat pancreatic cells (INS1 cell line) and methods included: cytotoxicity analysis, Amplex® red glucose oxidase assay, antibody staining, gene expression analysis by RT-qPCR, oxidative stress analysis, and calcium signaling for insulin release. Insulin resistance was successfully induced by exposing C3A hepatocarcinoma cells to a combination treatment of 50 μM dexamethasone, 1.25 mM fructose and 0.125 mM palmitic acid for a period of three days. Thereafter, gluconeogenesis was assessed using the Amplex® red glucose oxidase assay. The established model was effective in inducing insulin resistance and upregulating gluconeogenesis. Of the tested plant extracts, H. stellipilis showed the most potential as an antidiabetic treatment. It had low toxicity, significantly decreased hepatic glucose production and reduced the amount of phosphoenolpyruvate carboxykinase (PCK) and well as PCK gene expression, and reduced lipid content and reactive oxygen species (ROS) in the C3A cell line. H. stellipilis increased calcium signalling in INS1 rat insulinoma cells, however there was a decrease in expression of genes for insulin and glucose transporter 2 after 6 hr exposure. H. stellipilis appears be beneficial as an antidiabetic treatment. Although antidiabetic studies have been done on other Hypoxis species, this is the first study on the effects of H. stellipilis on gluconeogenesis and diabetes. , Thesis (MSc) -- Faculty of Science, School of Biomolecular & Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Sirkhotte, Saeedah , Reddy, Shanika
- Date: 2023-12
- Subjects: Medicinal plants -- South Africa , Insulin resistance , Gluconeogenesis
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62600 , vital:72827
- Description: The World Health Organisation lists diabetes as one of the major non-communicable diseases affecting the world, and its prevalence is expected to increase rapidly. Type II diabetes mellitus (T2DM) is characterised by insulin resistance and impaired blood glucose control. T2DM is of growing concern within South Africa, with 10.8% of the population currently diagnosed. The popularity, as well as availability, of traditional plant-based medicine in South Africa, might provide a solution. Antidiabetic potential is commonly tested by in vitro assays, however the methods to test this potential via gluconeogenesis are limited. This project aimed to optimise an in vitro hepatic gluconeogenesis model. In addition, this project aimed to determine the antidiabetic properties of Prunus africana, Hypoxis stellipilis, and Eriocephalus africanus by in vitro analysis. These properties were examined in human hepatoma cells (C3A cell line) and rat pancreatic cells (INS1 cell line) and methods included: cytotoxicity analysis, Amplex® red glucose oxidase assay, antibody staining, gene expression analysis by RT-qPCR, oxidative stress analysis, and calcium signaling for insulin release. Insulin resistance was successfully induced by exposing C3A hepatocarcinoma cells to a combination treatment of 50 μM dexamethasone, 1.25 mM fructose and 0.125 mM palmitic acid for a period of three days. Thereafter, gluconeogenesis was assessed using the Amplex® red glucose oxidase assay. The established model was effective in inducing insulin resistance and upregulating gluconeogenesis. Of the tested plant extracts, H. stellipilis showed the most potential as an antidiabetic treatment. It had low toxicity, significantly decreased hepatic glucose production and reduced the amount of phosphoenolpyruvate carboxykinase (PCK) and well as PCK gene expression, and reduced lipid content and reactive oxygen species (ROS) in the C3A cell line. H. stellipilis increased calcium signalling in INS1 rat insulinoma cells, however there was a decrease in expression of genes for insulin and glucose transporter 2 after 6 hr exposure. H. stellipilis appears be beneficial as an antidiabetic treatment. Although antidiabetic studies have been done on other Hypoxis species, this is the first study on the effects of H. stellipilis on gluconeogenesis and diabetes. , Thesis (MSc) -- Faculty of Science, School of Biomolecular & Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Integrating state-space modelling and systematic conservation planning to recommend penguin-fishery management zones in Algoa Bay, South Africa
- Stockdale, Victoria, Goodall, Victoria, Clifford-Holmes, Jia
- Authors: Stockdale, Victoria , Goodall, Victoria , Clifford-Holmes, Jia
- Date: 2023-12
- Subjects: Biodiversity conservation -- South Africa -- Port Elizabeth , Natural resource conservation , Marine ecology
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62611 , vital:72828
- Description: Direct anthropogenic impacts on vulnerable marine ecosystems are growing and require effective conservation measures. Integrating the cost impacts of conservation interventions and optimising the spatiotemporal scale of management interventions may improve cohesion between opposing marine users. This study aimed to integrate spatial and temporal models to advise dynamic penguin-fishery management plans in Algoa Bay, off Gqeberha, South Africa, that would maximise penguin foraging success while minimising the impact on the fishing industry. Determining the foraging locations important to breeding penguins is fundamental when understanding the relationship between fisheries and prey availability. Using Global Positioning System (GPS) data gathered from feeding trips of breeding African penguins between 2012 and 2017, and a hidden Markov model, three behavioural states (foraging, commuting, transitioning) were inferred and used as conservation targets in spatial prioritisation using the prioritizr package in R. The cost to the fishery was estimated using the catch of pelagic fish by the fishing industry between 2012 and 2015 as the proxy. The energetic cost to penguins was the distance they travelled from their breeding colony. Nine prioritisation scenarios, varying in levels of conservation for penguins, spatial cohesion and costs to fisheries, were developed using all year’s combined data to explore an ‘optimal’ closure configuration. The optimal closure was determined as an area which met the targets for penguin conservation, with a low cost to the fishery, close to the breeding colony and spatially clumped. The best solution from each scenario was isolated and the solution for the conservation target of 20% foraging habitat, 10% commuting habitat and 10% transitioning habitat and a boundary penalty of 0.01 (a dimensionless value that is used to reduce spatial fragmentation – increasing the value of the parameter signals that it is important to minimise the total exposed boundary of the prioritisation by favouring solutions where units are clumped together) was chosen as the optimal closure. This configuration was used as a static closure and applied to individual fishing seasons to estimate how the cost of a static closure design to the fishery would vary between seasons. Subsequently, a dynamic closure was designed using the same optimal configuration criteria every year, and the cost to the fishing industry was compared seasonally with the cost of a static closure. The cost to fisheries of dynamic closures was consistently lower than that of a static closure and the area required to meet the penguin feeding targets was drastically reduced. While dynamic closure scenarios show promise to minimise costs to the industry while meeting penguin conservation targets, these configurations were designed retrospectively with data collected after the end of the fishery seasons. For efficient management, the closures need to be designed by using data collected at an appropriate temporal scale. For that, the critical missing dimension to this study is the addition of real-time data on pelagic fish positions, areas of fishing intensity and sites of penguin foraging to create appropriate recommendations for up-to-date fishery exclusion zones. Therefore, the priority now is to explore methods of collecting real-time data on pelagic fish abundance, feeding behaviour of penguins at sea, site and mass of pelagic fishery catch, and using these data to delineate real-time, dynamic closures, coupled with a governance and management strategy that can implement dynamic closures. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Stockdale, Victoria , Goodall, Victoria , Clifford-Holmes, Jia
- Date: 2023-12
- Subjects: Biodiversity conservation -- South Africa -- Port Elizabeth , Natural resource conservation , Marine ecology
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62611 , vital:72828
- Description: Direct anthropogenic impacts on vulnerable marine ecosystems are growing and require effective conservation measures. Integrating the cost impacts of conservation interventions and optimising the spatiotemporal scale of management interventions may improve cohesion between opposing marine users. This study aimed to integrate spatial and temporal models to advise dynamic penguin-fishery management plans in Algoa Bay, off Gqeberha, South Africa, that would maximise penguin foraging success while minimising the impact on the fishing industry. Determining the foraging locations important to breeding penguins is fundamental when understanding the relationship between fisheries and prey availability. Using Global Positioning System (GPS) data gathered from feeding trips of breeding African penguins between 2012 and 2017, and a hidden Markov model, three behavioural states (foraging, commuting, transitioning) were inferred and used as conservation targets in spatial prioritisation using the prioritizr package in R. The cost to the fishery was estimated using the catch of pelagic fish by the fishing industry between 2012 and 2015 as the proxy. The energetic cost to penguins was the distance they travelled from their breeding colony. Nine prioritisation scenarios, varying in levels of conservation for penguins, spatial cohesion and costs to fisheries, were developed using all year’s combined data to explore an ‘optimal’ closure configuration. The optimal closure was determined as an area which met the targets for penguin conservation, with a low cost to the fishery, close to the breeding colony and spatially clumped. The best solution from each scenario was isolated and the solution for the conservation target of 20% foraging habitat, 10% commuting habitat and 10% transitioning habitat and a boundary penalty of 0.01 (a dimensionless value that is used to reduce spatial fragmentation – increasing the value of the parameter signals that it is important to minimise the total exposed boundary of the prioritisation by favouring solutions where units are clumped together) was chosen as the optimal closure. This configuration was used as a static closure and applied to individual fishing seasons to estimate how the cost of a static closure design to the fishery would vary between seasons. Subsequently, a dynamic closure was designed using the same optimal configuration criteria every year, and the cost to the fishing industry was compared seasonally with the cost of a static closure. The cost to fisheries of dynamic closures was consistently lower than that of a static closure and the area required to meet the penguin feeding targets was drastically reduced. While dynamic closure scenarios show promise to minimise costs to the industry while meeting penguin conservation targets, these configurations were designed retrospectively with data collected after the end of the fishery seasons. For efficient management, the closures need to be designed by using data collected at an appropriate temporal scale. For that, the critical missing dimension to this study is the addition of real-time data on pelagic fish positions, areas of fishing intensity and sites of penguin foraging to create appropriate recommendations for up-to-date fishery exclusion zones. Therefore, the priority now is to explore methods of collecting real-time data on pelagic fish abundance, feeding behaviour of penguins at sea, site and mass of pelagic fishery catch, and using these data to delineate real-time, dynamic closures, coupled with a governance and management strategy that can implement dynamic closures. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Dietary assessment of Cape Gannets (Morus capensis) and African Penguins (Spheniscus demersus) in Algoa Bay using molecular scatology
- Bowmaker - Falconer, Kezia, Von Der Heyden, Sophie
- Authors: Bowmaker - Falconer, Kezia , Von Der Heyden, Sophie
- Date: 2023-12
- Subjects: Gannets , Gannets -- Food , Sea birds -- South Africa -- Bird Island, Algoa Bay.
- Language: English
- Type: Master's theses
- Identifier: http://hdl.handle.net/10948/62420 , vital:72675
- Description: Seabirds are important marine sentinels, providing valuable information about ecosystem health and condition. Dietary studies of seabirds can inform on ecosystem functioning through identifying the condition and changes occurring in their surrounding environment. Dietary studies are also crucial as they can identify threats that seabirds face. Until recently, the diets of southern African endemic and Endangered Cape Gannets Morus capensis and African Penguins Spheniscus demersus were solely investigated through stomach content analyses, which allows for the identification and quantification of prey remains. To overcome some of the limitations associated with stomach content analysis, stable isotope and fatty acid analyses were proposed. However, these methods still require bird handling and thus impose some stress on the birds. DNA metabarcoding of faecal matter shows promise as a completely noninvasive method for seabird dietary studies. This thesis first examined whether DNA metabarcoding could be used to determine the diet of Cape Gannet and African Penguin breeding in Algoa Bay, South Africa. Then, this method was used to investigate the influence of intrinsic (both seabird species) and extrinsic (African Penguins) factors on the diet of the two seabird species. For the first data chapter, stomach content samples and faecal matter were collected concurrently from breeding Cape Gannets and African Penguins on Bird Island. DNA was successfully extracted from most faecal matter samples and the primers (18S_SSU, 16S_Fish) used for group, taxa and fish prey identification allowed amplification of prey DNA for both study species. A similar piscivorous diet was determined by both dietary methods for Cape Gannets with Sardine Sardinops sagax and Atlantic Saury Scomberesox saurus dominating the diet. Sardine also dominated the African Penguin diet in both dietary methods. In addition, DNA metabarcoding in African Penguins revealed a more diverse diet compared to the one determined by stomach content analysis. This was likely due to the limitations on the allowed number of stomach content samples to be collected for that Endangered species. Non-invasive DNA metabarcoding of faecal matter was then used to investigate whether the diet varied with breeding stages (incubation, chick-rearing) and age classes (chick-rearing adults, chicks) in both seabird species, but also breeding colonies (Algoa Bay: Bird Island, St Croix Island) in African Penguins. DNA metabarcoding revealed that breeding stages influenced the diet of Cape Gannets and African Penguins on Bird Island where prey species diversity was greater for incubating adults. On the contrary, the diet of incubating and chick-rearing penguins on St Croix Island was similar. When comparing the diet of African Penguins between Bird Island and St Croix Island, there was an increased overlap in diet composition between incubating and chick-rearing adults on St Croix Island when compared to Bird Island. Importantly, DNA metabarcoding indicated an increase in fishery interactions in Algoa Bay, particularly for Cape Gannets and the hake Merluccius spp. fishery, where the contribution of hake to chick-rearing adults and chick diet was considerably greater than incubating adult diet. In this study, I showed that DNA metabarcoding of faecal matter provides an opportunity for non-invasive dietary studies in two southern African endemic and Endangered seabird species. Incorporating non-invasive methods as a complement to other dietary methods for monitoring seabird trophic ecology is crucial when considering the worsening status of several seabird species. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Bowmaker - Falconer, Kezia , Von Der Heyden, Sophie
- Date: 2023-12
- Subjects: Gannets , Gannets -- Food , Sea birds -- South Africa -- Bird Island, Algoa Bay.
- Language: English
- Type: Master's theses
- Identifier: http://hdl.handle.net/10948/62420 , vital:72675
- Description: Seabirds are important marine sentinels, providing valuable information about ecosystem health and condition. Dietary studies of seabirds can inform on ecosystem functioning through identifying the condition and changes occurring in their surrounding environment. Dietary studies are also crucial as they can identify threats that seabirds face. Until recently, the diets of southern African endemic and Endangered Cape Gannets Morus capensis and African Penguins Spheniscus demersus were solely investigated through stomach content analyses, which allows for the identification and quantification of prey remains. To overcome some of the limitations associated with stomach content analysis, stable isotope and fatty acid analyses were proposed. However, these methods still require bird handling and thus impose some stress on the birds. DNA metabarcoding of faecal matter shows promise as a completely noninvasive method for seabird dietary studies. This thesis first examined whether DNA metabarcoding could be used to determine the diet of Cape Gannet and African Penguin breeding in Algoa Bay, South Africa. Then, this method was used to investigate the influence of intrinsic (both seabird species) and extrinsic (African Penguins) factors on the diet of the two seabird species. For the first data chapter, stomach content samples and faecal matter were collected concurrently from breeding Cape Gannets and African Penguins on Bird Island. DNA was successfully extracted from most faecal matter samples and the primers (18S_SSU, 16S_Fish) used for group, taxa and fish prey identification allowed amplification of prey DNA for both study species. A similar piscivorous diet was determined by both dietary methods for Cape Gannets with Sardine Sardinops sagax and Atlantic Saury Scomberesox saurus dominating the diet. Sardine also dominated the African Penguin diet in both dietary methods. In addition, DNA metabarcoding in African Penguins revealed a more diverse diet compared to the one determined by stomach content analysis. This was likely due to the limitations on the allowed number of stomach content samples to be collected for that Endangered species. Non-invasive DNA metabarcoding of faecal matter was then used to investigate whether the diet varied with breeding stages (incubation, chick-rearing) and age classes (chick-rearing adults, chicks) in both seabird species, but also breeding colonies (Algoa Bay: Bird Island, St Croix Island) in African Penguins. DNA metabarcoding revealed that breeding stages influenced the diet of Cape Gannets and African Penguins on Bird Island where prey species diversity was greater for incubating adults. On the contrary, the diet of incubating and chick-rearing penguins on St Croix Island was similar. When comparing the diet of African Penguins between Bird Island and St Croix Island, there was an increased overlap in diet composition between incubating and chick-rearing adults on St Croix Island when compared to Bird Island. Importantly, DNA metabarcoding indicated an increase in fishery interactions in Algoa Bay, particularly for Cape Gannets and the hake Merluccius spp. fishery, where the contribution of hake to chick-rearing adults and chick diet was considerably greater than incubating adult diet. In this study, I showed that DNA metabarcoding of faecal matter provides an opportunity for non-invasive dietary studies in two southern African endemic and Endangered seabird species. Incorporating non-invasive methods as a complement to other dietary methods for monitoring seabird trophic ecology is crucial when considering the worsening status of several seabird species. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Marine benthic (epilithic) diatom communities along the coast of South Africa: A contribution to their diversity, spatio-temporal variations, and ecology
- Authors: Cotiyane-Pondo, Phumlile
- Date: 2023-12
- Subjects: Marine ecology , Marine biodiversity , Coastal ecology
- Language: English
- Type: Doctorate Dissertation , text
- Identifier: http://hdl.handle.net/10948/62453 , vital:72754
- Description: Diatoms remain one of the most diverse and ecologically important microorganisms within microphytobenthos. The highly variable South African coastline, comprised of heterogeneous rocky intertidal habitats provides the ideal study area to investigate epilithic microphytobenthos and their associated influential drivers. In South Africa, in-depth taxonomic research on marine littoral diatoms exists, however, quantitative research and knowledge on their abundance, diversity, community composition and distribution remain limited. Thus, the main aim of this research was to explore the spatial and temporal variability of marine benthic (epilithic) diatoms, in relation to the variable physico-chemical conditions in the nearshore intertidal environments along the coastline of South Africa. To achieve this, field-based observational (natural substrata) and experimental (artificial substrata) studies were conducted on selected locations around the coastline, with a large focus on south coast localities. For the Spatial studies, large (i.e., encompassing all three biogeographical regions) and small-scale (i.e., coastal island in the warm temperate region) surveys of epilithic diatom assemblages from natural rocky substrata were conducted. Large-scale investigation results revealed highly variable diatom assemblages, diversity and distribution, with compositional differences observed between the coastal sections (around the coastline). A total of 85 diatom taxa from 31 genera were observed at 15 sites, and the number of taxa varied un-systematically along coastline. Genera with noticeable contribution included Nitzschia, Cocconeis and Achnanthes. On the coastal Bird Island (small-scale), similar variability was observed, but with a much higher diatom diversity and number of rarely observed species (e.g. Actinoptychus senarius (Ehrenberg) Ehrenberg, Cocconeis capensis (Cholnoky) Witkowski, Fragilariopsis kerguelensis (O’Meara) Hustedt, Striatella unipunctata (Lyngbye) Agardh. Seventy-two (72) species from 35 genera were recorded with a varied abundance and diversity around the island. The study also revealed a high contribution of typical benthic diatom species to the surf zone environment around the island. To study temporal variations, medium-term compositional differences on natural substrata were assessed monthly over an annual cycle at a single site. A paucity of diatom material was evident during this study and observations indicated a trend of presence and absence of diatom taxa from the study site. Nineteen (19) diatom genera were identified and those observed, albeit as one or two individual valves, included taxa from several genera including Biddulphia, Diploneis, Campyloneis, Trachyneis and Triceratium. Noteworthy was a seasonal increase in the number of diatom valves encountered, with the highest diatom abundance observed during spring (September) and the genera Cocconeis, Grammatophora and Navicula appearing regularly. To complement the sparse data from the long-term temporal study, a short-term experimental study on artificial substrata (Plexiglass) revealed rapid temporal variations of benthic diatom assemblages. The composition differed spatio-temporally during the experimental period, with fluctuating species occurrences and abundances between the two study sites. The experimental study also revealed the highest number of diatom species observed during this research (134 species belonging to 44 genera). While Cocconeis (13 species) and Nitzschia (9 species) were the dominant genera, 48% of the diatomcomposition was composed of rarely observed taxa that included Cocconeis testudo Giffen, Donkinia sp., Paralia sulcata (Ehrenberg) Cleve. Regarding environmental drivers, the findings indicated the importance of temperature and nutrients in driving diatom spatial abundance and composition along the coastline, as well as the island. However, the potential influence of the interplay between measured variables and unexplored coastal oceanographic processes (e.g., wave action) was noted. Temporally, from the annual study, the nature of the rocky substrate (rock type) rather than environmental conditions was postulated to have been the influential factor that resulted in the low diatom abundance data, however this requires further in-depth investigations on the influence of rock microtopography on microphytobenthos in this region. Contrastingly, the experimental study results indicated environmental variables having varying influences on the diatom diversity indices, however, study site and sampling occasion were revealed as the most important predictors of the observed variability. Further, site-specific biofilm processes, including biological interaction (e.g. grazing), were shown to alter biofilm succession, thus influencing the observed diatom assemblages. Overall, this research provided new and relevant knowledge on the variability of benthic (epilithic) diatom composition, biodiversity and distribution along the coastline, further contributing to our understanding of marine benthic diatoms ecology, their ecological role in the context of intertidal food web and their potential as bioindicators of change in the coastal ecosystems in Southern Africa. , Thesis (PhD) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Cotiyane-Pondo, Phumlile
- Date: 2023-12
- Subjects: Marine ecology , Marine biodiversity , Coastal ecology
- Language: English
- Type: Doctorate Dissertation , text
- Identifier: http://hdl.handle.net/10948/62453 , vital:72754
- Description: Diatoms remain one of the most diverse and ecologically important microorganisms within microphytobenthos. The highly variable South African coastline, comprised of heterogeneous rocky intertidal habitats provides the ideal study area to investigate epilithic microphytobenthos and their associated influential drivers. In South Africa, in-depth taxonomic research on marine littoral diatoms exists, however, quantitative research and knowledge on their abundance, diversity, community composition and distribution remain limited. Thus, the main aim of this research was to explore the spatial and temporal variability of marine benthic (epilithic) diatoms, in relation to the variable physico-chemical conditions in the nearshore intertidal environments along the coastline of South Africa. To achieve this, field-based observational (natural substrata) and experimental (artificial substrata) studies were conducted on selected locations around the coastline, with a large focus on south coast localities. For the Spatial studies, large (i.e., encompassing all three biogeographical regions) and small-scale (i.e., coastal island in the warm temperate region) surveys of epilithic diatom assemblages from natural rocky substrata were conducted. Large-scale investigation results revealed highly variable diatom assemblages, diversity and distribution, with compositional differences observed between the coastal sections (around the coastline). A total of 85 diatom taxa from 31 genera were observed at 15 sites, and the number of taxa varied un-systematically along coastline. Genera with noticeable contribution included Nitzschia, Cocconeis and Achnanthes. On the coastal Bird Island (small-scale), similar variability was observed, but with a much higher diatom diversity and number of rarely observed species (e.g. Actinoptychus senarius (Ehrenberg) Ehrenberg, Cocconeis capensis (Cholnoky) Witkowski, Fragilariopsis kerguelensis (O’Meara) Hustedt, Striatella unipunctata (Lyngbye) Agardh. Seventy-two (72) species from 35 genera were recorded with a varied abundance and diversity around the island. The study also revealed a high contribution of typical benthic diatom species to the surf zone environment around the island. To study temporal variations, medium-term compositional differences on natural substrata were assessed monthly over an annual cycle at a single site. A paucity of diatom material was evident during this study and observations indicated a trend of presence and absence of diatom taxa from the study site. Nineteen (19) diatom genera were identified and those observed, albeit as one or two individual valves, included taxa from several genera including Biddulphia, Diploneis, Campyloneis, Trachyneis and Triceratium. Noteworthy was a seasonal increase in the number of diatom valves encountered, with the highest diatom abundance observed during spring (September) and the genera Cocconeis, Grammatophora and Navicula appearing regularly. To complement the sparse data from the long-term temporal study, a short-term experimental study on artificial substrata (Plexiglass) revealed rapid temporal variations of benthic diatom assemblages. The composition differed spatio-temporally during the experimental period, with fluctuating species occurrences and abundances between the two study sites. The experimental study also revealed the highest number of diatom species observed during this research (134 species belonging to 44 genera). While Cocconeis (13 species) and Nitzschia (9 species) were the dominant genera, 48% of the diatomcomposition was composed of rarely observed taxa that included Cocconeis testudo Giffen, Donkinia sp., Paralia sulcata (Ehrenberg) Cleve. Regarding environmental drivers, the findings indicated the importance of temperature and nutrients in driving diatom spatial abundance and composition along the coastline, as well as the island. However, the potential influence of the interplay between measured variables and unexplored coastal oceanographic processes (e.g., wave action) was noted. Temporally, from the annual study, the nature of the rocky substrate (rock type) rather than environmental conditions was postulated to have been the influential factor that resulted in the low diatom abundance data, however this requires further in-depth investigations on the influence of rock microtopography on microphytobenthos in this region. Contrastingly, the experimental study results indicated environmental variables having varying influences on the diatom diversity indices, however, study site and sampling occasion were revealed as the most important predictors of the observed variability. Further, site-specific biofilm processes, including biological interaction (e.g. grazing), were shown to alter biofilm succession, thus influencing the observed diatom assemblages. Overall, this research provided new and relevant knowledge on the variability of benthic (epilithic) diatom composition, biodiversity and distribution along the coastline, further contributing to our understanding of marine benthic diatoms ecology, their ecological role in the context of intertidal food web and their potential as bioindicators of change in the coastal ecosystems in Southern Africa. , Thesis (PhD) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Chemical analysis and biological activities of crude extracts and essential oil of selected medicinal plants from the Eastern Cape, South Africa, and Volta Region of Ghana
- Authors: Agbo, Irene Adzo
- Date: 2023-12
- Subjects: Medicinal plants , Lantana camara , Peptic ulcer -- Treatment , Traditional medicine - South Africa -- Eastern Cape , Traditional medicine -- Ghana
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62431 , vital:72728
- Description: Lantana camara and Khaya grandifoliola extracts are among many plants found traditionally effective for the treatment of wounds and ulcers. This study assessed the phytochemical content, isolation and identification of single compounds from methanol and ethyl acetate extracts of Lantana camara and Khaya grandifoliola. Further, the bioactivity testing including antioxidant, antimicrobial and cytoxicity of the extracts was done to confirm the wound healing potential discovered by the traditional healers. Materials and methods: Extraction was done successively using maceration method with 100 % ethyl acetate and 100 % methanol with a biomass-to-solvent ratio of 1:3 (w/v) to obtain L. camara ethyl acetate extracts of berry (ELB), flower (ELF) and leaf (ELL) and methanol extracts of MLB, MLF, MLL and K. grandifoliola ethyl acetate extracts of leaf (EKL), root (EKR) and stem bark (EKSB) and methanol extracts of MKL, MKR, MKSB respectively. L. camara leaf essential oil (EO) was extracted using the hydro-distillation method with a Clevenger apparatus. Total phytochemical content was assessed for each extract using spectrophotometric methods and a calibration curve of standards: bromocresol green method with atropine; Folin–Ciocalteu colorimetric method with gallic acid, aluminium chloride colorimetric method with quercetin and concentrated sulphuric acid chloroform with linalool for total alkaloid, phenolic, flavonoid and terpenoid contents respectively. Single compound isolation and purification was conducted using chromatographic techniques. Elucidation of single compounds was done using spectrometric method, high resolution- mass spectrometry, and one and two-dimensional (1D and 2D)-NMR. Stereochemistry of each compound was confirmed using electronic circular dichroism spectra. A Crystalline compound was identified by single crystal X-ray diffraction using CuKα-radiation. In vitro bioactivities were assessed with methods such as 3-[4,5-dimethylthiazole-2-yl]-2,5-diphenyltetrazolium bromide, free radical scavenging activity of 1,1-diphenyl-2-picrylhydrazyl, inhibitory effect on nitric oxide production in lipopolysaccharide-activated RAW 264.7 macrophages, and 96-well plate micro dilution for cytotoxicity, ant-inflammatory and antimicrobial activity testing. Results: Methanol extracts of both plants retained high phytochemical concentrations of all the phytoconstituents investigated compared with the ethyl acetate extracts which retained lower concentrations. The results of the L. camara methanol extracts include; total alkaloid content (TAC) (2.05±0.18, 1.87±1.54 and 2.60±1.10 mg AEQ/100 mg); total phenolic content (TPC) (14.05±4.04, 34.59±3.01 and 18.58±1.87 mg GAEQ/100 mg); the total flavonoid content(TFC) of flower (12.45±1.87, 20.41±2.69 and mg QEQ/100 mg); total terpenoids (TTC) (20.74±2.34, 20.74±2.34 and 15.97±1.19 mg LIN EQ/100mg) of MLB, MLF and MLL respectively. Whereas that of the K. grandifoliola methanol extracts include; TAC (7.32±0.14,8.49±0.34, 10.67±0.22 mg AEQ/100 mg); TPC (37.49±1.40, 44.41±0.69, 53.57±1.50 mgGAEQ/100 mg); TFC (6.54±0.55, 9.58±0.89 and 10.26±0.92 mg QEQ/100 mg); TTC(10.16±1.41, 35.78±2.14 and 23.45±1.76 mg LIN EQ/100mg) of MKL, MKR and MKSB respectively. The major components of essential oil, out of the 71 constituents identified include Davanone D (32.91 %), Caryophyllene (5.07 %), Nerolidol 2 (3.56 %) and GermacreneD (3.13 %). Compounds 3.47 was isolated from the methanol extract of L. camara flowers. This compound is reported for the first time from the L. camara flower extract. Two compounds, compounds 4.23, and 4.26, were isolated from the methanol extract of K. grandifoliola roots, compound 4.22 was isolated from the ethyl acetate root extract while compounds 4.24 and 4.25 were isolated from the ethyl acetate stem bark extract as isomers in a mixture. Compounds 4.22 and 4.23 are reported from K. grandifoliola root for the first time. The isolated compounds (compounds 3.47 and 4.23) were nontoxic to the Vero cell line and this may contribute to possible stimulation of cell proliferation, promoting wound healing. Cytotoxicity describes extract virulence to Vero cell line. MLF and ELB were found nontoxic even at the highest concentration of 200 μg/mL. The MKSB and MKR, as well as the EKSB were nontoxic. Antioxidant activity results, described by the percentage inhibition in the DPPH assay, showed that MLF and MKSB had the highest antioxidant activities compared with the ascorbic acid standard, with IC50 of 38.68±5.09 and 37.03±11.95 μg/mL for L. camara and K. grandifoliola respectively. ELB exhibited a significant anti-inflammatory activity inhibiting NO• radical generation in the LPS-stimulated RAW 264.7 macrophages at concentration ranging from 50 and 100 μg/mL. EKSB and MKR showed significant anti-inflammatory activity at 100 and 200 μg/ml respectively. ELL and ELF demonstrated potent growth inhibition against S. pyogenes with an MIC value ≤ 0.125 mg/mL, while the MICs of the ELB and MLL were 0.5 mg/mL and 2 mg/mL respectively. MKSB and MKR and EKSB extract exhibited an effective growth inhibition against S. aureus with MIC of 1 mg/mL. The growth of S. pyogenes was supressed by both ethyl acetate and methanol extracts of all plant parts tested with MIC ranging from 0.25–2 mg/mL. Conclusion: The potent bioactivity shown in the results of the cytotoxicity, antioxidant activity, anti-inflammatory and antimicrobial activity testing, and the nontoxic singlecompounds of L. camara and K. grandifoliola extracts led to the conclusion that the two plants had wound healing potential. The study therefore confirmed their traditional uses for treatment of wounds. , Thesis (PhD) -- Faculty of Science, School of Biomolecular and Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Agbo, Irene Adzo
- Date: 2023-12
- Subjects: Medicinal plants , Lantana camara , Peptic ulcer -- Treatment , Traditional medicine - South Africa -- Eastern Cape , Traditional medicine -- Ghana
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62431 , vital:72728
- Description: Lantana camara and Khaya grandifoliola extracts are among many plants found traditionally effective for the treatment of wounds and ulcers. This study assessed the phytochemical content, isolation and identification of single compounds from methanol and ethyl acetate extracts of Lantana camara and Khaya grandifoliola. Further, the bioactivity testing including antioxidant, antimicrobial and cytoxicity of the extracts was done to confirm the wound healing potential discovered by the traditional healers. Materials and methods: Extraction was done successively using maceration method with 100 % ethyl acetate and 100 % methanol with a biomass-to-solvent ratio of 1:3 (w/v) to obtain L. camara ethyl acetate extracts of berry (ELB), flower (ELF) and leaf (ELL) and methanol extracts of MLB, MLF, MLL and K. grandifoliola ethyl acetate extracts of leaf (EKL), root (EKR) and stem bark (EKSB) and methanol extracts of MKL, MKR, MKSB respectively. L. camara leaf essential oil (EO) was extracted using the hydro-distillation method with a Clevenger apparatus. Total phytochemical content was assessed for each extract using spectrophotometric methods and a calibration curve of standards: bromocresol green method with atropine; Folin–Ciocalteu colorimetric method with gallic acid, aluminium chloride colorimetric method with quercetin and concentrated sulphuric acid chloroform with linalool for total alkaloid, phenolic, flavonoid and terpenoid contents respectively. Single compound isolation and purification was conducted using chromatographic techniques. Elucidation of single compounds was done using spectrometric method, high resolution- mass spectrometry, and one and two-dimensional (1D and 2D)-NMR. Stereochemistry of each compound was confirmed using electronic circular dichroism spectra. A Crystalline compound was identified by single crystal X-ray diffraction using CuKα-radiation. In vitro bioactivities were assessed with methods such as 3-[4,5-dimethylthiazole-2-yl]-2,5-diphenyltetrazolium bromide, free radical scavenging activity of 1,1-diphenyl-2-picrylhydrazyl, inhibitory effect on nitric oxide production in lipopolysaccharide-activated RAW 264.7 macrophages, and 96-well plate micro dilution for cytotoxicity, ant-inflammatory and antimicrobial activity testing. Results: Methanol extracts of both plants retained high phytochemical concentrations of all the phytoconstituents investigated compared with the ethyl acetate extracts which retained lower concentrations. The results of the L. camara methanol extracts include; total alkaloid content (TAC) (2.05±0.18, 1.87±1.54 and 2.60±1.10 mg AEQ/100 mg); total phenolic content (TPC) (14.05±4.04, 34.59±3.01 and 18.58±1.87 mg GAEQ/100 mg); the total flavonoid content(TFC) of flower (12.45±1.87, 20.41±2.69 and mg QEQ/100 mg); total terpenoids (TTC) (20.74±2.34, 20.74±2.34 and 15.97±1.19 mg LIN EQ/100mg) of MLB, MLF and MLL respectively. Whereas that of the K. grandifoliola methanol extracts include; TAC (7.32±0.14,8.49±0.34, 10.67±0.22 mg AEQ/100 mg); TPC (37.49±1.40, 44.41±0.69, 53.57±1.50 mgGAEQ/100 mg); TFC (6.54±0.55, 9.58±0.89 and 10.26±0.92 mg QEQ/100 mg); TTC(10.16±1.41, 35.78±2.14 and 23.45±1.76 mg LIN EQ/100mg) of MKL, MKR and MKSB respectively. The major components of essential oil, out of the 71 constituents identified include Davanone D (32.91 %), Caryophyllene (5.07 %), Nerolidol 2 (3.56 %) and GermacreneD (3.13 %). Compounds 3.47 was isolated from the methanol extract of L. camara flowers. This compound is reported for the first time from the L. camara flower extract. Two compounds, compounds 4.23, and 4.26, were isolated from the methanol extract of K. grandifoliola roots, compound 4.22 was isolated from the ethyl acetate root extract while compounds 4.24 and 4.25 were isolated from the ethyl acetate stem bark extract as isomers in a mixture. Compounds 4.22 and 4.23 are reported from K. grandifoliola root for the first time. The isolated compounds (compounds 3.47 and 4.23) were nontoxic to the Vero cell line and this may contribute to possible stimulation of cell proliferation, promoting wound healing. Cytotoxicity describes extract virulence to Vero cell line. MLF and ELB were found nontoxic even at the highest concentration of 200 μg/mL. The MKSB and MKR, as well as the EKSB were nontoxic. Antioxidant activity results, described by the percentage inhibition in the DPPH assay, showed that MLF and MKSB had the highest antioxidant activities compared with the ascorbic acid standard, with IC50 of 38.68±5.09 and 37.03±11.95 μg/mL for L. camara and K. grandifoliola respectively. ELB exhibited a significant anti-inflammatory activity inhibiting NO• radical generation in the LPS-stimulated RAW 264.7 macrophages at concentration ranging from 50 and 100 μg/mL. EKSB and MKR showed significant anti-inflammatory activity at 100 and 200 μg/ml respectively. ELL and ELF demonstrated potent growth inhibition against S. pyogenes with an MIC value ≤ 0.125 mg/mL, while the MICs of the ELB and MLL were 0.5 mg/mL and 2 mg/mL respectively. MKSB and MKR and EKSB extract exhibited an effective growth inhibition against S. aureus with MIC of 1 mg/mL. The growth of S. pyogenes was supressed by both ethyl acetate and methanol extracts of all plant parts tested with MIC ranging from 0.25–2 mg/mL. Conclusion: The potent bioactivity shown in the results of the cytotoxicity, antioxidant activity, anti-inflammatory and antimicrobial activity testing, and the nontoxic singlecompounds of L. camara and K. grandifoliola extracts led to the conclusion that the two plants had wound healing potential. The study therefore confirmed their traditional uses for treatment of wounds. , Thesis (PhD) -- Faculty of Science, School of Biomolecular and Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Insights into the relative abundance, demographics and behaviour of sea turtles along the east coast of South Africa
- Authors: dos Santos, Natalie Aida
- Date: 2023-12
- Subjects: Sea turtles -- Conservation -- South Africa , Sea turtles -- South Africa , Photogrammetry
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62495 , vital:72778
- Description: Sea turtles are ecologically important species that have endured a history of overexploitation. Combined with their long, complex life cycles and ongoing anthropogenic pressures, they remain conservation-dependent. Conservation efforts worldwide focus on sea turtle nesting beach protection, however, comprehensive management strategies require an understanding of their lives at sea which are often spent in distant waters. This understanding is hindered by the relative challenges of in-water studies. South Africa has also focused research and conservation efforts on nesting adult female loggerheads (Caretta caretta) and leatherbacks (Dermochelys coriacea), largely overlooking the species or age classes remaining at sea. Green turtles (Chelonia mydas), hawksbills (Eretmochelys imbricata) and non-breeding loggerheads are frequently stranded and rehabilitated by aquaria, and observed by recreational divers on reefs, suggesting year-round residency along the country’s entire seaboard. Recent technological advancements in photo-identification methods for sea turtles, underwater photography and internet connectivity allowing even recreational divers to become citizen scientists now place us on the verge of an exciting opportunity to unravel the cryptic in-water ecology of these species. The overall aim of this study was to conduct the first assessment of relative abundance, demographics, distribution, and behaviour of sea turtles on reefs within the iSimangaliso and Aliwal Shoal Marine Protected Areas (MPAs) on the east coast of South Africa. A robust photo-identification database was established from research dives, voluntourism and citizen science contributions over a two-year period. From 1057 sightings in the two MPAs, a total of 227 individual sea turtles were identified constituting three species (green turtles: n = 120; hawksbills: n = 46; loggerheads: n = 61). Their relative abundance was proportional to the overall sizes of the South West Indian Ocean (SWIO) populations (green turtles > hawksbills > loggerheads > leatherbacks). However, sightings per unit effort (SPUE) showed that loggerheads were more prevalent than hawksbills in iSimangaliso, likely due to its proximity to this loggerhead rookery. Reefs supported mixed size aggregations with juvenile to adult-sized green turtles (straight carapace lengths, SCLs of 44.9–99.2 cm), whilst hawksbills were mostly juveniles or subadults (SCL range: 37.4–73.4 cm) and loggerheads were mostly adult-sized (SCL range: 66.9–81 cm). Adult sex ratios were slightly female-biased but not significantly different from 1:1. The longest minimum residence periods recorded for individual subadult green and hawksbill turtles (676 and 675 days respectively) and adult-sized loggerheads (621 days) were suggestive of residency. Resident sea turtle activities were typical; they wereobserved foraging, resting, cleaning and interacting year-round, whilst only loggerheads and leatherbacks were observed in breeding behaviour (e.g., patrolling and mating) just after the seasonal arrival of transient individuals. This study thus reveals that the east coast of South Africa hosts regionally important resident and transient sea turtle aggregations with some of the highest SPUE results recorded for the region. This first attempt at monitoring foraging grounds using a variety of techniques and stakeholder groups can serve as the baseline assessment for future work and the foundation for a long-term in-water monitoring programme, allowing for expansion along the entire coastline. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: dos Santos, Natalie Aida
- Date: 2023-12
- Subjects: Sea turtles -- Conservation -- South Africa , Sea turtles -- South Africa , Photogrammetry
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62495 , vital:72778
- Description: Sea turtles are ecologically important species that have endured a history of overexploitation. Combined with their long, complex life cycles and ongoing anthropogenic pressures, they remain conservation-dependent. Conservation efforts worldwide focus on sea turtle nesting beach protection, however, comprehensive management strategies require an understanding of their lives at sea which are often spent in distant waters. This understanding is hindered by the relative challenges of in-water studies. South Africa has also focused research and conservation efforts on nesting adult female loggerheads (Caretta caretta) and leatherbacks (Dermochelys coriacea), largely overlooking the species or age classes remaining at sea. Green turtles (Chelonia mydas), hawksbills (Eretmochelys imbricata) and non-breeding loggerheads are frequently stranded and rehabilitated by aquaria, and observed by recreational divers on reefs, suggesting year-round residency along the country’s entire seaboard. Recent technological advancements in photo-identification methods for sea turtles, underwater photography and internet connectivity allowing even recreational divers to become citizen scientists now place us on the verge of an exciting opportunity to unravel the cryptic in-water ecology of these species. The overall aim of this study was to conduct the first assessment of relative abundance, demographics, distribution, and behaviour of sea turtles on reefs within the iSimangaliso and Aliwal Shoal Marine Protected Areas (MPAs) on the east coast of South Africa. A robust photo-identification database was established from research dives, voluntourism and citizen science contributions over a two-year period. From 1057 sightings in the two MPAs, a total of 227 individual sea turtles were identified constituting three species (green turtles: n = 120; hawksbills: n = 46; loggerheads: n = 61). Their relative abundance was proportional to the overall sizes of the South West Indian Ocean (SWIO) populations (green turtles > hawksbills > loggerheads > leatherbacks). However, sightings per unit effort (SPUE) showed that loggerheads were more prevalent than hawksbills in iSimangaliso, likely due to its proximity to this loggerhead rookery. Reefs supported mixed size aggregations with juvenile to adult-sized green turtles (straight carapace lengths, SCLs of 44.9–99.2 cm), whilst hawksbills were mostly juveniles or subadults (SCL range: 37.4–73.4 cm) and loggerheads were mostly adult-sized (SCL range: 66.9–81 cm). Adult sex ratios were slightly female-biased but not significantly different from 1:1. The longest minimum residence periods recorded for individual subadult green and hawksbill turtles (676 and 675 days respectively) and adult-sized loggerheads (621 days) were suggestive of residency. Resident sea turtle activities were typical; they wereobserved foraging, resting, cleaning and interacting year-round, whilst only loggerheads and leatherbacks were observed in breeding behaviour (e.g., patrolling and mating) just after the seasonal arrival of transient individuals. This study thus reveals that the east coast of South Africa hosts regionally important resident and transient sea turtle aggregations with some of the highest SPUE results recorded for the region. This first attempt at monitoring foraging grounds using a variety of techniques and stakeholder groups can serve as the baseline assessment for future work and the foundation for a long-term in-water monitoring programme, allowing for expansion along the entire coastline. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
A digital transformation framework for municipalities in the Eastern Cape
- Authors: Luke, Lamla Lonwabo Leadley
- Date: 2023-12
- Subjects: Internet in public administration , Information technology -- Political aspects , Electronic government information
- Language: English
- Type: Master's thesis , text
- Identifier: http://hdl.handle.net/10948/62506 , vital:72779
- Description: Digital transformation (DT) integrates technology into all business areas, fundamentally changing how businesses operate and deliver value to their clients. It is also a cultural change that requires organisations to continually challenge the status quo, experiment and get comfortable with change. Smart Municipalities in South Africa have various challenges concerning integrating services and information flow among departments within the municipalities, thus preventing the creation of value for the citizens. The ongoing digital transformation revolutionises urban development and governance, offering opportunities for enhanced citizen services, resource optimisation, and sustainable growth. However, the complexity of implementing smart city initiatives demands a structured approach. Due to urbanisation, municipal management in developing nations must deal with issues like increased energy consumption, pollution, the disposal of toxic wastes, resource depletion, ineffective management of urban infrastructures, ineffective planning processes, overloaded transportation networks, endemic congestion, as well as social inequality and socioeconomic disparity. The extent of digital adoption in the South African province of the Eastern Cape has provided municipalities with a learning opportunity to change into data-driven Smart Municipalities in order to increase productivity, growth, employment, and the need for people with a variety of skills. This study required a review of the literature to examine digital transformation, Smart Municipalities, Smart Municipalities at national and international levels, and Smart Municipality models. The literature review also helped to create a Smart Municipality conceptual model. Data for this study were collected in four Eastern Cape municipalities, namely: DR. AB. Xuma, Enoch Mgijima, Intsika Yethu Local municipalities, and their critical stakeholder Chris Hani District Municipality. The population was all municipal workers, including Municipal Managers, Councillors, Executive Management, ICT officials, Unit Managers, Computer Users and other municipal employees who were using IT to do their job responsibilities within the municipalities. This research study followed a positivistic approach using quantitative methods of analysis. Accordingly, the conceptual model was hypothesised and tested using a questionnaire to collect data and the data were statistically analysed. The study followed a descriptive research designwith a quantitative approach. Various statistical analyses were conducted, including descriptive statistics, reliability and validity metrics of the research instrument, correlation coefficients and Exploratory Factor Analysis (EFA). South Africa has provided municipalities with a learning opportunity to change into data-driven Smart Municipalities to increase productivity, growth, and employment supported by the need for people with a variety of skills. A Value Alignment Smart City Stakeholder (VASCS) model was created in previous research and identified nine dimensions of a smart city, namely Smart Economy, Smart Environment, Smart Governance, Smart Living, Smart Mobility, Smart Organisation, Smart People, Smart Policies and Smart Technology. Due to lack of DT framework and guidelines that guides municipalities on how they can adopt Smart Municipality concept, the objective of this study was to propose and evaluate a Value Alignment Smart Municipality Stakeholder (VASMS) model for municipalities in the Eastern Cape. The nine dimensions were empirically evaluated by stakeholders in four Eastern Cape municipalities. The results depict a change towards the importance of developing a Smart Municipality in the four municipalities, while following appropriate planning, designing, management, operations and governance guidelines. The respondents regarded the smart policy dimension as the most important dimension in the proposed VASMS model. This study further provided practical guidelines for the adoption of smart municipalities in the Eastern Cape Province of South Africa. This proposed VASMS model aims to address the unique challenges faced by municipalities in the Eastern Cape as they embark on their digital transformation journey. It outlines a stepby- step process encompassing strategic planning, technological integration, stakeholder engagement, and governance restructuring. Moreover, it emphasises the importance of fostering a collaborative ecosystem between government agencies, private sector partners, and citizens. By offering this VASMS model, this research contributes to the advancement of Smart Municipality initiatives in the Eastern Cape, ultimately paving the way for more efficient, resilient, and citizen-centric urban environments. , Thesis (MCom) -- Faculty of Science, School of Computing Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Luke, Lamla Lonwabo Leadley
- Date: 2023-12
- Subjects: Internet in public administration , Information technology -- Political aspects , Electronic government information
- Language: English
- Type: Master's thesis , text
- Identifier: http://hdl.handle.net/10948/62506 , vital:72779
- Description: Digital transformation (DT) integrates technology into all business areas, fundamentally changing how businesses operate and deliver value to their clients. It is also a cultural change that requires organisations to continually challenge the status quo, experiment and get comfortable with change. Smart Municipalities in South Africa have various challenges concerning integrating services and information flow among departments within the municipalities, thus preventing the creation of value for the citizens. The ongoing digital transformation revolutionises urban development and governance, offering opportunities for enhanced citizen services, resource optimisation, and sustainable growth. However, the complexity of implementing smart city initiatives demands a structured approach. Due to urbanisation, municipal management in developing nations must deal with issues like increased energy consumption, pollution, the disposal of toxic wastes, resource depletion, ineffective management of urban infrastructures, ineffective planning processes, overloaded transportation networks, endemic congestion, as well as social inequality and socioeconomic disparity. The extent of digital adoption in the South African province of the Eastern Cape has provided municipalities with a learning opportunity to change into data-driven Smart Municipalities in order to increase productivity, growth, employment, and the need for people with a variety of skills. This study required a review of the literature to examine digital transformation, Smart Municipalities, Smart Municipalities at national and international levels, and Smart Municipality models. The literature review also helped to create a Smart Municipality conceptual model. Data for this study were collected in four Eastern Cape municipalities, namely: DR. AB. Xuma, Enoch Mgijima, Intsika Yethu Local municipalities, and their critical stakeholder Chris Hani District Municipality. The population was all municipal workers, including Municipal Managers, Councillors, Executive Management, ICT officials, Unit Managers, Computer Users and other municipal employees who were using IT to do their job responsibilities within the municipalities. This research study followed a positivistic approach using quantitative methods of analysis. Accordingly, the conceptual model was hypothesised and tested using a questionnaire to collect data and the data were statistically analysed. The study followed a descriptive research designwith a quantitative approach. Various statistical analyses were conducted, including descriptive statistics, reliability and validity metrics of the research instrument, correlation coefficients and Exploratory Factor Analysis (EFA). South Africa has provided municipalities with a learning opportunity to change into data-driven Smart Municipalities to increase productivity, growth, and employment supported by the need for people with a variety of skills. A Value Alignment Smart City Stakeholder (VASCS) model was created in previous research and identified nine dimensions of a smart city, namely Smart Economy, Smart Environment, Smart Governance, Smart Living, Smart Mobility, Smart Organisation, Smart People, Smart Policies and Smart Technology. Due to lack of DT framework and guidelines that guides municipalities on how they can adopt Smart Municipality concept, the objective of this study was to propose and evaluate a Value Alignment Smart Municipality Stakeholder (VASMS) model for municipalities in the Eastern Cape. The nine dimensions were empirically evaluated by stakeholders in four Eastern Cape municipalities. The results depict a change towards the importance of developing a Smart Municipality in the four municipalities, while following appropriate planning, designing, management, operations and governance guidelines. The respondents regarded the smart policy dimension as the most important dimension in the proposed VASMS model. This study further provided practical guidelines for the adoption of smart municipalities in the Eastern Cape Province of South Africa. This proposed VASMS model aims to address the unique challenges faced by municipalities in the Eastern Cape as they embark on their digital transformation journey. It outlines a stepby- step process encompassing strategic planning, technological integration, stakeholder engagement, and governance restructuring. Moreover, it emphasises the importance of fostering a collaborative ecosystem between government agencies, private sector partners, and citizens. By offering this VASMS model, this research contributes to the advancement of Smart Municipality initiatives in the Eastern Cape, ultimately paving the way for more efficient, resilient, and citizen-centric urban environments. , Thesis (MCom) -- Faculty of Science, School of Computing Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Statistical analysis of hydrogeochemical data from fractured rock aquifers around Beaufort West, South Africa
- Authors: Berkland, James
- Date: 2023-12
- Subjects: Groundwater -- South Africa -- Beaufort West , Hydrogeology -- South Africa -- Beaufort West , Aquifers -- South Africa -- Beaufort West
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62442 , vital:72736
- Description: Knowledge surrounding the procedures and protocols related to groundwater sampling are currently limited. In particular, the sampling of radioactive elements from fractured rock aquifers is poorly understood and in need of further research. The aim of this study is to provide a comparative insight into groundwater sampling methods used for the sampling of major and minor elements as well as trace elements within fractured rock aquifers in the immediate vicinity of Beaufort West. The influence of sampling source, seasonality, and vertical flows on sample results are observed. Furthermore, the importance of historical datasets is raised. Aims of this study were achieved by making use of historical data from numerous studies that were conducted near the Karoo town of Beaufort West. Potential profitable uranium deposits saw a great influx of research into the geology, topography, climate and hydrogeology. Synthesising data from these historical research papers has provided valuable information regarding the influences of sampling procedures on the results. A total of 695 well data samples were analysed from four studies collected from farms around Beaufort West. The importance of adequately purging a well prior to sampling cannot be stressed enough. There are minimal chemical differences between sampling boreholes and wind pumps, however there was a noticeable difference in the inter-relationships between major chemical elements. Groundwater samplers were found to be contaminated with Zinc and Copper attributed to wind pump fittings. Boreholes were also analysed to observe any changes in depth. Sodium, temperature and uranium had little to no changes with depth due to the homogenous nature of the borehole water. Principal component analysis was conducted on 159 groundwater samples comprised of 13 variables. These samples were reduced to four principal components (PC) which explained a total of 91.09% of the total variance. Factor one explained 61.99% of the total variance and was strongly associated with water-type and lithology while factor two (13.57%) shows the potential relationship between molybdenum and uranium as well as possible copper contamination as a result of wind pump and borehole fittings. Further research should be conducted by carrying out multiple sampling procedures on a selection of controlled wells to determine the best applicable sampling procedures. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Berkland, James
- Date: 2023-12
- Subjects: Groundwater -- South Africa -- Beaufort West , Hydrogeology -- South Africa -- Beaufort West , Aquifers -- South Africa -- Beaufort West
- Language: English
- Type: Master's theses , text
- Identifier: http://hdl.handle.net/10948/62442 , vital:72736
- Description: Knowledge surrounding the procedures and protocols related to groundwater sampling are currently limited. In particular, the sampling of radioactive elements from fractured rock aquifers is poorly understood and in need of further research. The aim of this study is to provide a comparative insight into groundwater sampling methods used for the sampling of major and minor elements as well as trace elements within fractured rock aquifers in the immediate vicinity of Beaufort West. The influence of sampling source, seasonality, and vertical flows on sample results are observed. Furthermore, the importance of historical datasets is raised. Aims of this study were achieved by making use of historical data from numerous studies that were conducted near the Karoo town of Beaufort West. Potential profitable uranium deposits saw a great influx of research into the geology, topography, climate and hydrogeology. Synthesising data from these historical research papers has provided valuable information regarding the influences of sampling procedures on the results. A total of 695 well data samples were analysed from four studies collected from farms around Beaufort West. The importance of adequately purging a well prior to sampling cannot be stressed enough. There are minimal chemical differences between sampling boreholes and wind pumps, however there was a noticeable difference in the inter-relationships between major chemical elements. Groundwater samplers were found to be contaminated with Zinc and Copper attributed to wind pump fittings. Boreholes were also analysed to observe any changes in depth. Sodium, temperature and uranium had little to no changes with depth due to the homogenous nature of the borehole water. Principal component analysis was conducted on 159 groundwater samples comprised of 13 variables. These samples were reduced to four principal components (PC) which explained a total of 91.09% of the total variance. Factor one explained 61.99% of the total variance and was strongly associated with water-type and lithology while factor two (13.57%) shows the potential relationship between molybdenum and uranium as well as possible copper contamination as a result of wind pump and borehole fittings. Further research should be conducted by carrying out multiple sampling procedures on a selection of controlled wells to determine the best applicable sampling procedures. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Establishment of a high-content neurodegenerative disease model screening platform
- Authors: Swanepoel, Bresler
- Date: 2023-12
- Subjects: Molecular neurobiology , Nervous system -- Diseases , Nervous system -- Degeneration
- Language: English
- Type: Doctorial theses , text
- Identifier: http://hdl.handle.net/10948/62644 , vital:72906
- Description: The identification of viable therapeutic targets and new treatments for central nervous system disorders, especially neurodegenerative diseases, remain major challenges in the field of drug discovery. Over the past few years there has been a steady decline in the turnaround time of current screening processes to yield viable drugs. Therefore, an increasing need exists for better technologies, protocols, and the screening of larger libraries. High-throughput screening provides the best solution to this problem and has become a key part in the drug discovery and development process. Likewise, high-content analysis has gained popularity over the past few years and is suitable for high-throughput screening. The aim of this study was to establish a comprehensive in vitro neuroprotective screening platform incorporating high throughput screening, using Parkinson’s disease as the neurodegenerative disease of interest. To evaluate the success of this platform, the neuroprotective potential of two mushrooms (Hericium erinaceus and Phlebopus sudanicus), two plants (Lippia javanica and Myrothamnus flabellifolia) and two seaweeds (Eucheuma denticulatum and Kappaphycus alvarezii) were investigated. Aqueous and ethanolic extracts of the selected natural products were evaluated across 21 parameters associated with four hallmarks of neurodegeneration: acquiring senescence, acquiring cell death, neuroinflammation and altered metabolism/cell survival. Based on the effects of these selected natural products on the 21 parameters, their potential mechanisms of action were elucidated. In addition to this, the natural products were scored under each of these therapeutic targets in an attempt to identify the most suitable animal models for future studies. The scoring system indicated that animal models investigating anti-senescence ability would be more suited for extracts of H. erinaceus, P. sudanicus and E. denticulatum whereas studies investigating the prevention of cell death would be more suited for extracts of E. denticulatum, L. javanica and K. alvarezii. Likewise, models based on neuroinflammation would be best suited for extracts of H. erinaceus, E. denticulatum and L. javanica while studies examining altered metabolism/cell survival would be best suited to extracts of H. erinaceus, E. denticulatum, K. alvarezii and M. flabellifolia. Considering the pleiotropic nature of the selected natural products, models that can combine these therapeutic targets could be of great interest. 6-OHDA proved to be capable of inducing favourable effects, in all the parameters investigated, with regard to a neurodegenerative state. However, it is known to have some disadvantages when it comes to pathological features such as the lack of the ability to induce Lewy body formation. Choosing the correct inducer remains a daunting task and no model, whether cell-based or animal-based, exists yet in which all the features of neurodegenerative diseases have been successfully replicated. The limitations of the current models, however, does not mean that they do not produce valuable insights. This is especially true if the mechanism of action for a specific compound or natural product is unknown. Animal models are still indispensable for the validation and interpretation of the results obtained from cell models with particular importance to toxicity. Therefore, this study assessed the best studied extract with the highest overall score for its toxicity using a zebrafish larvae-based model. Assessment of the toxicity of H. erinaceus revealed that both aqueous and ethanolic extracts resulted in death at the highest concentrations. This was supported by the results obtained in the in vitro cytotoxicity screening. In conclusion, this highlighted the importance of using physiologically relevant concentrations and supported the translational value of the current cell-based screening model to animal models and possibly humans. The findings of the present study suggest that a scoring system, which categorizes the different activities of selected natural products into distinct groups, can be a useful tool to improve the translatability of in vitro results to animal models. Furthermore, the current study arguably provides the most comprehensive neuroprotective screening platform in existence. Future research can look at expanding the platform through incorporation of additional parameters based on other hallmarks of neurodegeneration, not covered in this study, including protein folding and aggregation, altered epigenetics and the examination of other neuronal markers such as the involvement of astrocytes, oligodendrocytes, and microglia. In addition to this, future research can make use of more sophisticated cell models such as differentiated, human induced pluripotent stem cells and three-dimensional cultures. , Thesis (PhD) -- Faculty of Science, School of Biomolecular and Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Swanepoel, Bresler
- Date: 2023-12
- Subjects: Molecular neurobiology , Nervous system -- Diseases , Nervous system -- Degeneration
- Language: English
- Type: Doctorial theses , text
- Identifier: http://hdl.handle.net/10948/62644 , vital:72906
- Description: The identification of viable therapeutic targets and new treatments for central nervous system disorders, especially neurodegenerative diseases, remain major challenges in the field of drug discovery. Over the past few years there has been a steady decline in the turnaround time of current screening processes to yield viable drugs. Therefore, an increasing need exists for better technologies, protocols, and the screening of larger libraries. High-throughput screening provides the best solution to this problem and has become a key part in the drug discovery and development process. Likewise, high-content analysis has gained popularity over the past few years and is suitable for high-throughput screening. The aim of this study was to establish a comprehensive in vitro neuroprotective screening platform incorporating high throughput screening, using Parkinson’s disease as the neurodegenerative disease of interest. To evaluate the success of this platform, the neuroprotective potential of two mushrooms (Hericium erinaceus and Phlebopus sudanicus), two plants (Lippia javanica and Myrothamnus flabellifolia) and two seaweeds (Eucheuma denticulatum and Kappaphycus alvarezii) were investigated. Aqueous and ethanolic extracts of the selected natural products were evaluated across 21 parameters associated with four hallmarks of neurodegeneration: acquiring senescence, acquiring cell death, neuroinflammation and altered metabolism/cell survival. Based on the effects of these selected natural products on the 21 parameters, their potential mechanisms of action were elucidated. In addition to this, the natural products were scored under each of these therapeutic targets in an attempt to identify the most suitable animal models for future studies. The scoring system indicated that animal models investigating anti-senescence ability would be more suited for extracts of H. erinaceus, P. sudanicus and E. denticulatum whereas studies investigating the prevention of cell death would be more suited for extracts of E. denticulatum, L. javanica and K. alvarezii. Likewise, models based on neuroinflammation would be best suited for extracts of H. erinaceus, E. denticulatum and L. javanica while studies examining altered metabolism/cell survival would be best suited to extracts of H. erinaceus, E. denticulatum, K. alvarezii and M. flabellifolia. Considering the pleiotropic nature of the selected natural products, models that can combine these therapeutic targets could be of great interest. 6-OHDA proved to be capable of inducing favourable effects, in all the parameters investigated, with regard to a neurodegenerative state. However, it is known to have some disadvantages when it comes to pathological features such as the lack of the ability to induce Lewy body formation. Choosing the correct inducer remains a daunting task and no model, whether cell-based or animal-based, exists yet in which all the features of neurodegenerative diseases have been successfully replicated. The limitations of the current models, however, does not mean that they do not produce valuable insights. This is especially true if the mechanism of action for a specific compound or natural product is unknown. Animal models are still indispensable for the validation and interpretation of the results obtained from cell models with particular importance to toxicity. Therefore, this study assessed the best studied extract with the highest overall score for its toxicity using a zebrafish larvae-based model. Assessment of the toxicity of H. erinaceus revealed that both aqueous and ethanolic extracts resulted in death at the highest concentrations. This was supported by the results obtained in the in vitro cytotoxicity screening. In conclusion, this highlighted the importance of using physiologically relevant concentrations and supported the translational value of the current cell-based screening model to animal models and possibly humans. The findings of the present study suggest that a scoring system, which categorizes the different activities of selected natural products into distinct groups, can be a useful tool to improve the translatability of in vitro results to animal models. Furthermore, the current study arguably provides the most comprehensive neuroprotective screening platform in existence. Future research can look at expanding the platform through incorporation of additional parameters based on other hallmarks of neurodegeneration, not covered in this study, including protein folding and aggregation, altered epigenetics and the examination of other neuronal markers such as the involvement of astrocytes, oligodendrocytes, and microglia. In addition to this, future research can make use of more sophisticated cell models such as differentiated, human induced pluripotent stem cells and three-dimensional cultures. , Thesis (PhD) -- Faculty of Science, School of Biomolecular and Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Effects of annealing on the structural and optical properties of nanostructured TiO2
- Talla, Assane, Urgessa, Zelalem
- Authors: Talla, Assane , Urgessa, Zelalem
- Date: 2023-12
- Subjects: Titanium dioxide , Nanostructured materials , Nanotubes
- Language: English
- Type: Doctorial theses , text
- Identifier: http://hdl.handle.net/10948/62655 , vital:72907
- Description: In this thesis, the structural, morphological and optical properties of titanium dioxide (TiO2) are investigated. Titanium dioxide (TiO2) nanotubes are prepared by anodic oxidation of titanium foil. The as-anodised samples are thermally annealed at various temperatures in nitrogen, air, oxygen and vacuum. The purpose is to study how the annealing conditions affect the properties of the nanostructures, including the anatase to rutile phase transformation. In all annealing atmospheres, except in vacuum, the dominant phase is found to be anatase when annealing is performed up to 600 oC. Above 700 oC the rutile phase becomes dominant. The anatase phase is stable above 600 oC in vacuum and does not evolve significantly up to 900 oC. The morphologies of the tubes tend to deteriorate with increased annealing temperature, in nitrogen, air and oxygen atmospheres, due to sintering effects. However, the integrity of the nanotubes is maintained up to 900 oC in vacuum. The photoluminescence (PL) spectra suggest mainly the presence of oxygen vacancies and self-trapped excitons, with respective emission bands around 2.5 eV and 2.3 eV. The results show that both the annealing temperature and atmosphere strongly influence the crystalline and optical properties of the TiO2 nanotubes. In addition, the phase transformation from anatase to rutile for samples annealed in an oxygen-rich environment is investigated in detail. Complementary structural information obtained from transmission electron microscopy and Raman analysis for oxygen-annealed samples reveals that the nucleation of the rutile phase starts from the titanium substrate and then propagates along the tubes. The results provide suitable annealing conditions to control the phase content and morphology of anodic TiO2 nanotubes. The PL characteristics of bulk crystalline anatase TiO2, namely virgin and hydrogen-annealed at 600 oC for 1 h, are studied. The low temperature PL spectra at 5.5 K shows near band edge (NBE) emissions with two dominant lines ascribed to shallow donor bound exciton and possibly free to bound recombination. The two main transitions are assisted by optical phononmodes. Temperature-dependent PL measurements performed on these anatase crystals reveal that the donor bound exciton is stable below 90 K. Hydrogen trapped in oxygen vacancies is proposed to be the shallow donor. In addition, two activation processes are involved for the thermal quenching of donor bound excitons. The total activation energy is found to correlate well with the localisation energy of the bound exciton. Site-selective PL spectra obtained from anodic TiO2 tubes reveals that the luminescence of the nanostructures depends on the morphology. The result shows unusual near-band edge emission (NBE) for these structures, which is rarely observed in indirect band gap TiO2. , Thesis (PhD) -- Faculty of Science, School of Biomolecular and Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Talla, Assane , Urgessa, Zelalem
- Date: 2023-12
- Subjects: Titanium dioxide , Nanostructured materials , Nanotubes
- Language: English
- Type: Doctorial theses , text
- Identifier: http://hdl.handle.net/10948/62655 , vital:72907
- Description: In this thesis, the structural, morphological and optical properties of titanium dioxide (TiO2) are investigated. Titanium dioxide (TiO2) nanotubes are prepared by anodic oxidation of titanium foil. The as-anodised samples are thermally annealed at various temperatures in nitrogen, air, oxygen and vacuum. The purpose is to study how the annealing conditions affect the properties of the nanostructures, including the anatase to rutile phase transformation. In all annealing atmospheres, except in vacuum, the dominant phase is found to be anatase when annealing is performed up to 600 oC. Above 700 oC the rutile phase becomes dominant. The anatase phase is stable above 600 oC in vacuum and does not evolve significantly up to 900 oC. The morphologies of the tubes tend to deteriorate with increased annealing temperature, in nitrogen, air and oxygen atmospheres, due to sintering effects. However, the integrity of the nanotubes is maintained up to 900 oC in vacuum. The photoluminescence (PL) spectra suggest mainly the presence of oxygen vacancies and self-trapped excitons, with respective emission bands around 2.5 eV and 2.3 eV. The results show that both the annealing temperature and atmosphere strongly influence the crystalline and optical properties of the TiO2 nanotubes. In addition, the phase transformation from anatase to rutile for samples annealed in an oxygen-rich environment is investigated in detail. Complementary structural information obtained from transmission electron microscopy and Raman analysis for oxygen-annealed samples reveals that the nucleation of the rutile phase starts from the titanium substrate and then propagates along the tubes. The results provide suitable annealing conditions to control the phase content and morphology of anodic TiO2 nanotubes. The PL characteristics of bulk crystalline anatase TiO2, namely virgin and hydrogen-annealed at 600 oC for 1 h, are studied. The low temperature PL spectra at 5.5 K shows near band edge (NBE) emissions with two dominant lines ascribed to shallow donor bound exciton and possibly free to bound recombination. The two main transitions are assisted by optical phononmodes. Temperature-dependent PL measurements performed on these anatase crystals reveal that the donor bound exciton is stable below 90 K. Hydrogen trapped in oxygen vacancies is proposed to be the shallow donor. In addition, two activation processes are involved for the thermal quenching of donor bound excitons. The total activation energy is found to correlate well with the localisation energy of the bound exciton. Site-selective PL spectra obtained from anodic TiO2 tubes reveals that the luminescence of the nanostructures depends on the morphology. The result shows unusual near-band edge emission (NBE) for these structures, which is rarely observed in indirect band gap TiO2. , Thesis (PhD) -- Faculty of Science, School of Biomolecular and Chemical Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Assessing the effects of fish stock management on Cape gannet foraging behaviour in South Africa
- Strydom, Zanri, Grémillet, David, Pichegru, Lorien
- Authors: Strydom, Zanri , Grémillet, David , Pichegru, Lorien
- Date: 2023-12
- Subjects: Gannets -- South Africa , Birds of prey -- Behavior -- South Africa , Fish stock assessment
- Language: English
- Type: Doctoral theses , text
- Identifier: http://hdl.handle.net/10948/62622 , vital:72887
- Description: Seabirds are one of the most threatened groups of birds under both marine and terrestrial pressures. Among seabirds, the Cape gannet Morus capensis is a southern African endemic species facing several pressures of anthropogenic origin, including competition with industrial fisheries on small pelagic fish stocks. Cape gannets, being a long-lived species that is sensitive to environmental changes, are sentinels of change in oceanic environments granting it important to understand which factors influence their foraging behaviour and breeding outputs. For example, factors like age can result in a loss of physical capabilities which can lead to behavioral compensation and subsequent changes in chick provisioning rates and amounts. With the current fisheries management the fish stocks are continually decreasing, indicating the importance of an updated fine-scale assessment on the spatiotemporal overlap between foraging gannets and fisheries. The first objective of this thesis was to determine the influence of adult Cape gannets’ age and sex on their foraging characteristics and energy expenditure during foraging. I equipped chick-rearing Cape gannets of known age and sex with a 3D accelerometer and GPS device. Foraging effort (trip duration, foraging path and maximum distance to the nest) did not differ between sexes nor with age in Cape gannets. Both sexes rested less on the water with age. Aging females also spent more time in flight than males. The age- and sexual differences in energy expenditure prevalent in our study might reflect niche and/or risk partitioning strategies to ensure adequate provisioning to the chick. The second objective of this thesis was to determine the influence of fisheries catch rates, sardine and anchovy biomass, and adult foraging effort on chick growth rates in Cape gannets, using a long-term dataset collected between 2005 and 2020 on Malgas Island. I equipped chick-rearing adults with a GPS device and I weighed the chicks for between 3 to 6 increments to calculate the average daily mass increment. Of all the variables, foraging trip duration was the main determinant of daily growth rates, with chicks benefitting from parents’ shorter foraging trip durations. Chicks tended to grow slower when fisheries catch of sardine and anchovy were higher, possibly an effect of competition with fisheries. Chicks also grew faster when fish biomass was higher. This long-term monitoring demonstrated the possible effect of food competition between Cape gannets and fisheries, with negative impacts on gannet fitness as determined via chick growth rates. The third objective of this thesis was to determine the influence of both the biomass and fisheries catch rates of sardine and anchovy on Cape gannet foraging effort at a spatial and temporal scale. This was achieved by equipping a total of 668 chick-rearing Cape gannets with a GPS device. With an increase in fisheries catch there was an increase in the birds’ foraging effort. To reduce competition between the gannets and fisheries, the gannets’ core foraging areas seldomly overlapped with the fisheries catch locations, at the cost of the gannets’ increased foraging effort. One method to halt the Cape gannet population decline would be to conserve the fish resources close to the breeding colonies. This would reduce the birds’ foraging whereby increasing their fitness. Safeguarding small pelagic fish to ensure the perseverance of the remaining Benguela seabird populations, would lead to preserving the Benguela marine ecosystem as a whole. My study provided new insight into effects of fish stock management on Cape gannet foraging behaviour in South Africa, and the need for adequate management to ensure population persistence. , Thesis (PhD) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Strydom, Zanri , Grémillet, David , Pichegru, Lorien
- Date: 2023-12
- Subjects: Gannets -- South Africa , Birds of prey -- Behavior -- South Africa , Fish stock assessment
- Language: English
- Type: Doctoral theses , text
- Identifier: http://hdl.handle.net/10948/62622 , vital:72887
- Description: Seabirds are one of the most threatened groups of birds under both marine and terrestrial pressures. Among seabirds, the Cape gannet Morus capensis is a southern African endemic species facing several pressures of anthropogenic origin, including competition with industrial fisheries on small pelagic fish stocks. Cape gannets, being a long-lived species that is sensitive to environmental changes, are sentinels of change in oceanic environments granting it important to understand which factors influence their foraging behaviour and breeding outputs. For example, factors like age can result in a loss of physical capabilities which can lead to behavioral compensation and subsequent changes in chick provisioning rates and amounts. With the current fisheries management the fish stocks are continually decreasing, indicating the importance of an updated fine-scale assessment on the spatiotemporal overlap between foraging gannets and fisheries. The first objective of this thesis was to determine the influence of adult Cape gannets’ age and sex on their foraging characteristics and energy expenditure during foraging. I equipped chick-rearing Cape gannets of known age and sex with a 3D accelerometer and GPS device. Foraging effort (trip duration, foraging path and maximum distance to the nest) did not differ between sexes nor with age in Cape gannets. Both sexes rested less on the water with age. Aging females also spent more time in flight than males. The age- and sexual differences in energy expenditure prevalent in our study might reflect niche and/or risk partitioning strategies to ensure adequate provisioning to the chick. The second objective of this thesis was to determine the influence of fisheries catch rates, sardine and anchovy biomass, and adult foraging effort on chick growth rates in Cape gannets, using a long-term dataset collected between 2005 and 2020 on Malgas Island. I equipped chick-rearing adults with a GPS device and I weighed the chicks for between 3 to 6 increments to calculate the average daily mass increment. Of all the variables, foraging trip duration was the main determinant of daily growth rates, with chicks benefitting from parents’ shorter foraging trip durations. Chicks tended to grow slower when fisheries catch of sardine and anchovy were higher, possibly an effect of competition with fisheries. Chicks also grew faster when fish biomass was higher. This long-term monitoring demonstrated the possible effect of food competition between Cape gannets and fisheries, with negative impacts on gannet fitness as determined via chick growth rates. The third objective of this thesis was to determine the influence of both the biomass and fisheries catch rates of sardine and anchovy on Cape gannet foraging effort at a spatial and temporal scale. This was achieved by equipping a total of 668 chick-rearing Cape gannets with a GPS device. With an increase in fisheries catch there was an increase in the birds’ foraging effort. To reduce competition between the gannets and fisheries, the gannets’ core foraging areas seldomly overlapped with the fisheries catch locations, at the cost of the gannets’ increased foraging effort. One method to halt the Cape gannet population decline would be to conserve the fish resources close to the breeding colonies. This would reduce the birds’ foraging whereby increasing their fitness. Safeguarding small pelagic fish to ensure the perseverance of the remaining Benguela seabird populations, would lead to preserving the Benguela marine ecosystem as a whole. My study provided new insight into effects of fish stock management on Cape gannet foraging behaviour in South Africa, and the need for adequate management to ensure population persistence. , Thesis (PhD) -- Faculty of Science, School of Environmental Sciences, 2023
- Full Text:
- Date Issued: 2023-12
Effects of fire on architecture and composition of canopy shrubs in subtropical dune thicket of the southeastern Cape Floristic Region
- Strydom, Tiaan, Grobler, Adriaan
- Authors: Strydom, Tiaan , Grobler, Adriaan
- Date: 2023-12
- Subjects: Plant ecology -- Research , Plant communities -- South Africa , Browsing (Animal behavior)
- Language: English
- Type: Doctorial theses , text
- Identifier: http://hdl.handle.net/10948/62632 , vital:72899
- Description: Disturbance, such as fire and megaherbivory, is a pervasive phenomenon globally and has different effects on the flora and vegetation of different ecosystems. The Cape Floristic Region (CFR) of South Africa includes the distinctive Subtropical Thicket biome, which occurs as interrupted blocks that are not exposed to fire, but also as mosaics with the fire-prone vegetation of the Fynbos biome, especially on coastal dunes where thicket species are exposed to fire. Subtropical Dune Thicket (hereafter thicket) thus co-occurs with Fynbos, capable of supporting intense fires that can lead to thicket shrub defoliation and mortality. Thicket also experiences disturbance from meso- and megaherbivores that causes defoliation and mortality of shrubs. The aim of this study was to investigate the resilience of thicket shrub species to varying disturbance levels from fire and browsing to understand what drives thicket persistence in a fire-prone landscape. Firstly, I established the architectural traits of thicket species in long unburnt and post-fire contexts and investigated the relationships between these traits and the survival, resprouting ability and persistence of thicket shrubs. In mature thicket, I identified three distinct architectural guilds, namely hedge formers, lateral spreaders, and vertical growers. In post-fire thicket I identified three resprouting architectures, namely weak resprouters, moderate resprouters and strong resprouters. There was no strong relationship between the unburnt and post-fire resprouting architectures. Secondly, I compared thicket species and architectural composition in patches of landscape that experience different levels of fire exposure to assess the potential effect of fire frequency on determining thicket structure. I recognised three thicket vegetation units, each with a distinct structure and each corresponding to the level of fire exposure in the landscape. The first unit, forest-thicket, is exposed to low levels of fire frequency (> 100 years) and harbours forest species, many of which were vertical growers. The second unit, thicket, is exposed to moderate levels of fire frequency (50-100 years) and is dominated by lateral spreaders. The last unit, fynbos-thicket, is exposed to high levels of fire frequency (10-50 years) and here hedge-forming shrubs dominate the canopy cover. Forest-thicket and fynbos-thicket had a diverse set of shrub species with many being restricted to their respective vegetation type, whereas thicket had a lower diversity with no unique shrub species. , Thesis (DPhil) -- Faculty of Science, School of Natural Resource Management, 2023
- Full Text:
- Date Issued: 2023-12
- Authors: Strydom, Tiaan , Grobler, Adriaan
- Date: 2023-12
- Subjects: Plant ecology -- Research , Plant communities -- South Africa , Browsing (Animal behavior)
- Language: English
- Type: Doctorial theses , text
- Identifier: http://hdl.handle.net/10948/62632 , vital:72899
- Description: Disturbance, such as fire and megaherbivory, is a pervasive phenomenon globally and has different effects on the flora and vegetation of different ecosystems. The Cape Floristic Region (CFR) of South Africa includes the distinctive Subtropical Thicket biome, which occurs as interrupted blocks that are not exposed to fire, but also as mosaics with the fire-prone vegetation of the Fynbos biome, especially on coastal dunes where thicket species are exposed to fire. Subtropical Dune Thicket (hereafter thicket) thus co-occurs with Fynbos, capable of supporting intense fires that can lead to thicket shrub defoliation and mortality. Thicket also experiences disturbance from meso- and megaherbivores that causes defoliation and mortality of shrubs. The aim of this study was to investigate the resilience of thicket shrub species to varying disturbance levels from fire and browsing to understand what drives thicket persistence in a fire-prone landscape. Firstly, I established the architectural traits of thicket species in long unburnt and post-fire contexts and investigated the relationships between these traits and the survival, resprouting ability and persistence of thicket shrubs. In mature thicket, I identified three distinct architectural guilds, namely hedge formers, lateral spreaders, and vertical growers. In post-fire thicket I identified three resprouting architectures, namely weak resprouters, moderate resprouters and strong resprouters. There was no strong relationship between the unburnt and post-fire resprouting architectures. Secondly, I compared thicket species and architectural composition in patches of landscape that experience different levels of fire exposure to assess the potential effect of fire frequency on determining thicket structure. I recognised three thicket vegetation units, each with a distinct structure and each corresponding to the level of fire exposure in the landscape. The first unit, forest-thicket, is exposed to low levels of fire frequency (> 100 years) and harbours forest species, many of which were vertical growers. The second unit, thicket, is exposed to moderate levels of fire frequency (50-100 years) and is dominated by lateral spreaders. The last unit, fynbos-thicket, is exposed to high levels of fire frequency (10-50 years) and here hedge-forming shrubs dominate the canopy cover. Forest-thicket and fynbos-thicket had a diverse set of shrub species with many being restricted to their respective vegetation type, whereas thicket had a lower diversity with no unique shrub species. , Thesis (DPhil) -- Faculty of Science, School of Natural Resource Management, 2023
- Full Text:
- Date Issued: 2023-12