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Effects of fire on architecture and composition of canopy shrubs in subtropical dune thicket of the southeastern Cape Floristic Region

  • 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
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  • 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
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  • Date Issued: 2023-12

Evaluating antidiabetic properties of selected African medicinal plants in a cell-based model

  • 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
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  • Date Issued: 2023-12

Evaluation of the antidiabetic potential, safety and efficacy of selected natural products using zebrafish larvae and in vitro bioassays

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
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  • Date Issued: 2023-12

Field mapping and geochemistry of lower Jurassic sediments and volcanics of the upper Karoo supergroup near Ha Mosi, Lesotho mountains

  • Authors: Valashiya, Khaya
  • Date: 2023-12
  • Subjects: Sediments (Geology) -- South Africa -- karoo basin , Geochemistry , Geological mapping
  • Language: English
  • Type: Master's theses , text
  • Identifier: http://hdl.handle.net/10948/62687 , vital:72925
  • Description: Geological mapping in the Lesotho-Drakensberg Mountains spans over 100 years with du Toit and Stockley being the major contributors to the published maps and to the understanding of emplacement of the Karoo Large Igneous Province (KLIP) in the countries of South Africa and Lesotho. Despite the detailed previous work, there remains limited data on paleoenvironmental changes at the contact between the sedimentary and volcanic sequences of the upper Karoo Supergroup. This study aims to map the lithostratigraphic boundaries, volcano-sedimentary facies and faults near Ha Mosi in southern Lesotho. A total 48 rock samples were collected for petrography, XRF and ICP-MS analyses. The new results were used to characterize the local chemostratigraphy and to propose new regional correlations across Lesotho and South Africa. In this thesis, eight lithostratigraphic units were defined with a total thickness of 550 m. The first two units (Units 1 and 2) comprise massive and bedded sandstones, interpreted as possible floodplain and ephemeral lacustrine deposits; these are ascribed to the upper Stormberg Group. These units are unconformably overlain by locally preserved thin basaltic (Unit 3) flows that are characterised by high Zr/Nb and Zr/Y ratios; and low Ti/Zr and P/Zr ratios similar to the Golden Gate Unit of the Drakensberg Group. The lava flows are overlain by bedded sandstone ascribed to Unit 4 and volcaniclastic breccia ascribed to Units 5 and 6. Unit 6 consists of a monolithic breccia that is composed of angular sandstone clasts similar to those of the underlying Stormberg Group. The monolithic breccia transitions upwards into a massive megaclastic clast-supported volcanic breccia, which consists of angular to sub-rounded basaltic and doleritic boulders. Petrified wood fragments are found within the megaclastic breccia, indicating the presence of vegetation during deposition and enhanced preservation. Unit 6 laterally grades into Unit 5, which is characterised by poorly bedded breccia composed of angular sandstone, mudstone clasts with minor basaltic and doleritic clasts and, breccia intraclasts. The breccia units are often associated with reworked sediments interpreted to be deposited by fluvial systems. The breccia is conformably overlain by basaltic lava flows (Unit 8) characterised by high Ti/Zr and P/Zr ratios and moderate to low Zr/Y and Zr/Nb ratios compared to the Unit 3 lavas and is similar to that of the Sani Pass Unit of the Drakensberg Group. The basaltic sequences in the Ha Mosi studied area preserve both pahoehoe textures and pillow lavas, indicating subaerial and subaqueous volcanism. The studied lithologies are intruded by gabbro and dolerites of the Karoo Dolerite Suite at 183 Ma. This stratigraphy records the transition from sedimentation in the Karoo Basin through to a dominantly volcanic succession, which has importance in terms of the Toarcian extinction at ca. 182 Ma. Mapped faults and associated fractures are orientated predominantly NW-SE with the hanging walls moved maximum 80 m to the south. The different dykes and fault structures possibly relate to the Weddel Triple Junction that developed during the Early Jurassic break up of Gondwana, between 200 and 180 Ma. The mapped lavas show that the magma source was a chemically heterogenous mantle that was subjected to different degrees of partial melting, with the introduction of small-scale chemical heterogeneities. The geodynamic setting is comparable to the Afar Triangle of north-east Africa where active tectonics created a large-scale NW-SE orientated fault system in response to crustal thinning and rifting. In both the Afar and Lesotho, vertical movements created lowlands that allow for the preservation of volcanic breccia and basalts with pillow lavas. These findings show that existing geological models in the Drakensberg-Lesotho Mountains can be improved upon detailed field mapping and geochemistry. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
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  • Date Issued: 2023-12

Finite difference methods for Burgers-Huxley equation and biofilm formation

  • Authors: Tijani, Yusuf Olatunji
  • Date: 2023-12
  • Subjects: Burgers equation , Terrestrial heat flow , Applied mathematics
  • Language: English
  • Type: Doctorial theses , text
  • Identifier: http://hdl.handle.net/10948/62732 , vital:72934
  • Description: In this thesis, we constructed some versions of finite difference scheme for the Burgers-Huxley equation and for a set of partial differential equations (PDEs) arising in biofilm formation. The Burgers-Huxley equation serves as a fundamental model that describes the interaction between reaction mechanisms, convection effects, and diffusion transport. It has applications in the study of wave mechanics, population dynamics, physiology, fluid mechanics to list but a few. The study of biofilm formation is becoming increasingly important due to micro-organisms (i.e. bacteria) forming a protected mode from the host defense mechanism which may result in alteration in the host gene transcription and growth rate. Applications can be found useful in the treatment of bacterial infections, contamination of foods and water quality. We designed two nonstandard finite difference and two exponential finite difference schemes for the Burgers-Huxley equation. Numerical experiments with six cases and in three different regimes were studied. We show that the nonstandard scheme preserves the properties of the continuous equation which include positivity and boundedness. The stability region of the explicit exponential scheme was obtained and we outlined the algorithm for the implicit exponential scheme. The performance of the four schemes are compared in regard to absolute error, relative error, L1 and L∞ norms. For a singularly perturbed Burgers-Huxley equation, a novel nonstandard finite difference technique is constructed. It is demonstrated numerically that the NSFD scheme outperforms the classical scheme by comparing maximum pointwise errors and rate of convergence. We then solved the 2D Burgers-Huxley equation using four novel nonstandard finite difference schemes (NSFD1, NSFD2, NSFD3 and NSFD4). The numerical profiles from NSFD1 and NSFD2 exhibit some deviation from the exact profile. Our quest for a better performing scheme led to the modification of NSFD1 using the remainder effect technique. NSFD4 was designed by employing the time splitting approach. All the schemes preserve the properties of the continuous model (positivity and boundedness). The performance of all the schemes are analysed. We construct three nonstandard finite difference schemes for the equations modelling biomass equation and coupled substrate-biomass system of equations respectively. We checked the accuracy of our scheme by the conservation of physical properties (positivity, boundedness, biofilm formation and annihilation) since an analytical solution is not available. We show the instability, lack of conservation of physical properties by the classical scheme. Our proposed scheme shows good performance when compared with other results in the literature. The results here give more insight into the benefits of the nonstandard finite difference approximations. , Thesis (DPhil) -- Faculty of Science, School of Computer Science, Mathematics, Physics and Statistics , 2023
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  • Date Issued: 2023-12

Functional traits and potential physical drivers of offshore benthic epifauna on the west and south coast of South Africa

  • Authors: Van Stavel, Jordan , Morris, Tamaryn
  • Date: 2023-12
  • Subjects: Marine ecology , Marine biology -- South Africa , Oceanography -- South Africa
  • Language: English
  • Type: Master's theses , text
  • Identifier: http://hdl.handle.net/10948/62698 , vital:72931
  • Description: Offshore benthic ecosystems (> 200 m depth) are challenging to access and remain poorly studied globally. Epifaunal invertebrates comprise a critical trophic level in benthic ecosystems and can serve as indicators of the overall health and functioning. There is limited knowledge of South Africa’s offshore marine environment and benthic ecosystem functioning due to limitations in funding, resources, and the lack of suitable science-based monitoring tools which are vital for sustainable management into the future. The aim of this research was to improve the understanding of epifaunal functioning as well as their potential physical drivers in 13 South African offshore biogeographic ecotypes. The objectives of this study were threefold: 1) to investigate the functional composition of benthic epifauna from 13 biogeographic ecotypes, 2) to quantify the Functional Diversity (FD) associated with epifaunal traits between the different assemblages (i.e. biogeographic ecotypes), and 3) to evaluate the relationship between physical variables and epifaunal functional traits at the biogeographic ecotype level. Biological trait-based approaches were applied to a subset of 80 benthic epifaunal species collected from 909 offshore stations along the west and south coasts of South Africa. Nine biological traits (associated with life history, morphology and behavioural characteristics exhibited by each species) were classified into 39 modalities and weighted with biomass. Community Weighted Means (CWMs) were used to evaluate the benthic epifaunal functional trait composition of the 13 biogeographic ecotypes. Functional composition across the 13 ecotype assemblages on the west and south coast appeared to be dominated by species with similar trait compositions, such as large, long-lived, surface crawling/burrowing/filter-feeding epifauna with medium to no mobility, however, their percentage of contribution to trait expression (CWMs) was higher on the west coast. Functional diversity indices (alpha and beta) showed higher overall FD for west coast ecotypes, with most ecotypes on the continental shelf (except slopes and canyons) being significantly different (p<0.05) from ecotypes on the south coast. The global RLQ (three-table co-inertia) test did not reveal a significant relationship between biomass and physical variables or between biomass and traits (p>0.05). The fourth-corner method was used to test the significance of individual traitenvironment relationships. The fourth-corner results were similar overall to the RLQ analysis, revealing that three physical variables (temperature, depth, and fluorescence) were significantly correlated to two trait modalities belonging to the feeding mode filter-feeders (FM1) and scavengers (FM5). Scavengers were positively correlated with depth and negatively with temperature, while filter-feeders were positively correlated with fluorescence levels. This indicated that the presence of scavenging epifauna increased with a decrease in temperature and an increase in depth. While a positive significant correlation between filter-feeders and fluorescence suggested their potential tolerance or preference for environmental conditions with high levels of fluorescence. This research was the first such study to explore the functional composition and diversity of benthic epifauna and their relationship with potential physical drivers in offshore west and south coast benthic biogeographic ecotypes of South Africa. The application of new tools to quantify the functional diversity of epifauna as indicators of ecosystem health, and their potential physical drivers. This provided a platform on which to advance our understanding of benthic communities and the roles they play in ecosystem functioning under changing environments. Functional trait-based approaches such as those applied in this study can provide us with vital information on the relationship between biodiversity, ecosystem functioning, and physical drivers. Environmental stressors and changing climate patterns threaten to impact marine ecosystems and their functioning. Benthic epifauna are especially sensitive to changes in their environment and these fluctuations could potentially lead to the loss of certain benthic functionality, altering the thresholds these ecosystems have to response to disturbances. This undermines the stability of these ecosystems which can have ripple effects on the health of these ecosystems and their ability to provide the ecosystem services humans dependent on. Having suitable tools to track current and predict future changes will therefore be vital to inform management and conservation strategies for sustainable ocean utilisation. , Thesis (MSc) -- Faculty of Science, School of Environmental Sciences, 2023
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  • 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
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  • Date Issued: 2023-12

Integrating state-space modelling and systematic conservation planning to recommend penguin-fishery management zones in Algoa Bay, South Africa

  • 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
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  • 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
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  • Date Issued: 2023-12

Investigating the interannual variability of the Benguela coastal upwelling system using a ROMS numerical model from 1993-2014

  • 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
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  • 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
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  • 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
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  • 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
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  • Date Issued: 2023-12

Spatial patterns of human-elephant conflict and elephant space-use in Liwonde National Park, Malawi

  • Authors: Voges, Mignon
  • Date: 2023-12
  • Subjects: Human-animal relationships , Wildlife management -- Malawi , Wildlife conservation -- Malawi
  • Language: English
  • Type: Master's theses , text
  • Identifier: http://hdl.handle.net/10948/62721 , vital:72933
  • Description: Human-wildlife conflict (HWC) is a prevailing issue worldwide, threatening the livelihood of the affected human communities, and the persistence of wildlife populations and habitat. Human-elephant conflict (HEC) is particularly challenging, given the damage or harm these large animals can cause to human communities. Moreover, HEC threatens the safety of elephant populations as elephants can be injured or killed when people retaliate. Several studies have therefore been conducted to investigate HEC spatiotemporal patterns in order to better understand it and to develop mitigation measures. These studies predominantly used non-spatial statistics or global regressions to investigate HEC patterns and drivers. The general understanding of HEC patterns and drivers are therefore based on general predictions derived from global regressions that assume stationarity of the relationship between HEC and its drivers across the landscape. Previous studies using global regressions may therefore have missed or misidentified important drivers of the spatial patterns, making the resultant global regression models misleading. The aim of this study was therefore to investigate the spatiotemporal patterns and drivers of HEC adjacent to Liwonde National Park using spatial analytical tools that account for the spatial nature of the data and the spatial variation in conflict drivers across a landscape. Using a Geographically Weighted Regression, I identified vegetation quality, season, and distance to seasonal water as drivers of HEC hotspots adjacent to Liwonde. HEC was more intense in areas with higher quality vegetation (compared to vegetation quality inside the Park) and areas that were closer to seasonal water. The relationship between HEC hotspots and these drivers varied at the patch-level and according to season. My findings suggest that HEC is more complex than the general patterns described with global regressions. The localized patterns and drivers of HEC hotspots identified, reflect trade-off between elephants securing rewards (crops), while reducing risks (encountering humans), as expected under forage optimality models. The understanding of elephant adaptation and trade-offs in human landscapes gained from my study, along with the approach I have adopted, can be applied to other HEC study sites, and help guide HEC management in Liwonde. This approach can also be applied to analysis of other forms of HWC, greatly improving HWC mitigation. , Thesis (MSc) -- Faculty of Science, School of Natural Resource Management, 2023
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  • 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
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  • Date Issued: 2023-12

The use of a novel chemical system towards improving waste tyre pyrolysis and the quality of waste tyre pyrolysis products

  • Authors: Tsipa, Phuti Cedric , Iwarere, Samuel
  • Date: 2023-12
  • Subjects: Tires -- Recycling , Rubber chemicals , Rubber, Reclaimed
  • Language: English
  • Type: Doctorial theses , text
  • Identifier: http://hdl.handle.net/10948/62666 , vital:72912
  • Description: Pyrolysis process is one of the most efficient methods in the waste tyre recycling sector at this moment, hence the attention it is receiving. However, this process has some limitations, with the main one being that it is non-conventional and typically energy intensive. In addition, its resultant products have been reported to have significantly poorer properties relative to their virgin counterparts, making it difficult to incorporate them in the mainstream of raw materials. For instance, waste tyre pyrolysis oil typically has poor fuel properties, high sulfur content, high amount of polycyclic aromatic hydrocarbons (PAHs) and strong unpleasant odour; on the other hand, the quality of the recovered carbon black is dependent on the feedstock and the pyrolysis process conditions. Hence the need for further research and development to make the process effective and improve the quality of resultant products. The aim of this research project was to study the impact of pre-pyrolysis treatment of tyre crumbs and post-pyrolysis treatment of the oil using a novel chemical system on the quality/composition of the resultant products. In addition, the study compared the impact of pre- and post-pyrolysis treatments on the optimum pyrolysis time and temperature (energy). The equipment employed in this study included a vertical fixed bed pyrolysis pilot reactor (modified to suit the reaction/experiment) as well as characterization techniques such as fourier transform infrared (FTIR), elemental analysis (carbon, hydrogen, nitrogen and sulfur – CHNS analysis), gas chromatography coupled to mass spectrometer (GCMS), gas chromatography coupled to flame photometric detector (GCFPD), thermo-gravimetric and derivative analysis (TG/DTG isothermal analysis, and proximate analysis) and scanning electron microscope (SEM). The highlight of the findings is that chemically pre-treating tyre crumbs with a mixture of protonic acid and organic solvent before pyrolysis significantly lowered the temperature required to pyrolyze them, from around 400-500 ℃ to 100-115 ℃. This meant that by using the chemical treatment on waste tyres a lot of energy can be saved. In addition, the sulfur content in the oil fraction was reduced from a total of 1.7 wt% to a total of about 0.2 wt%. This also showed that the contaminants in oil were significantly reduced. The oil was condensed into three (3) collectors for fractionation; in collector 2 was about 54 % of the total oil with sulfur content of about 0.015 wt%. The PAHs amounts were also lowered, as literature indicated that PAHs are mostly formed at around 600-700 ℃. It was also found that the oil produced from post-pyrolysis treatment of oil has a petroleum-like smell, whereas the pre-pyrolysis treated oil has a tyre-like pungent odour. Furthermore, the post-pyrolysis treated oil contains higher contents of alkanes and benzene, toluene, xylene (BTX). Findings of this study have a profound potential impact on the waste tyre recycling industry; for example, reduced production energy cost due to lowered temperature required for pyrolysis, improved quality of the products such as lowered sulfur and PAHs content as well as improved quality of the residual char and odour. , Thesis (PhD) -- Faculty of Science, School of Biomolecular and Chemical Sciences, 2023
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  • Date Issued: 2023-12

An efficient approach for the synthesis of dolutegravir and its analogue exploiting flow chemistry

  • Authors: Nqeketo, Sinazo
  • Date: 2023-04
  • Subjects: HIV (Viruses) – Enzymes –Inhibitors , Antiviral agents -- South Africa
  • Language: English
  • Type: Doctoral theses , text
  • Identifier: http://hdl.handle.net/${Handle} , vital:70635
  • Description: Africa has the highest Human Immunodeficiency Virus (HIV) prevalence in the world and has invested heavily in running its HIV programmes and conducting research of medical significance. Despite efforts in combating this disease the production, distribution, cost, and availability of antiretroviral (ARV) generics remains a major problem as they are imported from China and India. Exploring the recently emerged “enabling technique”, namely flow chemistry in the production of APIs has gained a lot of attention. This study was devoted on exploring the application of flow chemistry on the synthesis of a newly approved anti-HIV drug dolutegravir (DTG); an integrase inhibitor with a high genetic barrier to resistance with a daily dosing scheduled compared to other ARVs and its third-generation inhibitor analogue, cabotegravir. Chapter one covers a comprehensive background and literature review of the HIV epidemic, an introduction of antiretroviral therapy as well as detailed dolutegravir and cabotegravir synthesis. A brief introduction of continuous flow technology with its advantages and disadvantages is discussed in this chapter. The efficient seven-step continuous flow procedure afforded dolutegravir and cabotegravir in improved reaction times and yields compared to the traditional batch procedure was demonstrated. The significant advantage of this flow process includes the reduction of the overall reaction time from step one to step seven, from prolonged 68 hours in batch to 34 minutes. The overall yield of each reaction step improved dramatically upon flow optimization. The yields of the second step (selective ester hydrolysis), fourth step (cyclization) and fifth step (amidation) increased from 64 %, 40 % and 33 % in batch to 98 %, 71 % and 100 % yield by HPLC respectively. Other than improved yields and residence times which was aided advantages of microreactor technology including intensive mixing, the flow process is also much better because it is cost effective. Most importantly, a novel process on the formation of pyridinone intermediate using ion-exchange resin catalysts towards the synthesis of dolutegravir and cabotegravir was described in this study , Thesis (PhD) -- Faculty of Science, School of Biomolecular and Chemical Science, 2023
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  • Date Issued: 2023-04

An evaluation of the effectiveness of area-based conservation intervention in avoiding biodiversity loss in South Africa

  • Authors: Van Straten, Maurice Oswald
  • Date: 2023-04
  • Subjects: Soil conservation -- South Africa , Livestock farms – South Africa
  • Language: English
  • Type: Master's theses , text
  • Identifier: http://hdl.handle.net/10948/61132 , vital:69765
  • Description: Habitat degradation, livestock farming, crop cultivation, rangeland overutilization and veld mismanagement are among the factors causing biodiversity loss worldwide. Rangelands in arid and semi-arid environments are no exception, as they are under stress from conversion into cropland and pressure from livestock farming. In these arid areas, rainfall is unpredictable and plant recruitment levels low, resulting in veld rehabilitation being a potentially expensive and time-consuming undertaking for landowners. Landowners implement different rehabilitation methods to increase overall vegetation cover and prevent further soil and vegetation degradation. These rehabilitation methods may include the creation of micro-catchments, mulching, brushpacking, ripping, geotextiles, stone cobbling and erosion control fences, individually or in combination with the addition of reseeding, replanting, and use of manure or fertilizer to supplement land rehabilitation. This study investigated the significance of three rehabilitation methods (hollows, brush packing and a combination of these two methods) on water infiltration rates, soil moisture content, and vegetation canopy cover with associated growth form canopy cover over a period of 17 months (March 2021 to August 2022). This study showed that rehabilitation methods implemented had no significant impact on water infiltration rates and vegetation canopy cover. However, rehabilitation methods had a significant impact on soil moisture content. The use of a hollows is recommended when attempting to increase the soil moisture content percentage when performing rehabilitation. Overall vegetation canopy cover is influenced more by seasonal changes than by the rehabilitation methods implemented. This study indicated that the creation of micro-catchments is an effective rehabilitation method to use in an arid area, as it promotes vegetation establishment and growth. , Thesis (MSc) -- Faculty of Science, School of Natural Resource Science and Management , 2023
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  • Date Issued: 2023-04
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