Reliability analysis: assessment of hardware and human reliability
- Authors: Mafu, Masakheke
- Date: 2017
- Subjects: Bayesian statistical decision theory , Reliability (Engineering) , Human machine systems , Probabilities , Markov processes
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/6280 , vital:21077
- Description: Most reliability analyses involve the analysis of binary data. Practitioners in the field of reliability place great emphasis on analysing the time periods over which items or systems function (failure time analyses), which make use of different statistical models. This study intends to introduce, review and investigate four statistical models for modeling failure times of non-repairable items, and to utilise a Bayesian methodology to achieve this. The exponential, Rayleigh, gamma and Weibull distributions will be considered. The performance of the two non-informative priors will be investigated. An application of two failure time distributions will be carried out. To meet these objectives, the failure rate and the reliability functions of failure time distributions are calculated. Two non-informative priors, the Jeffreys prior and the general divergence prior, and the corresponding posteriors are derived for each distribution. Simulation studies for each distribution are carried out, where the coverage rates and credible intervals lengths are calculated and the results of these are discussed. The gamma distribution and the Weibull distribution are applied to failure time data.The Jeffreys prior is found to have better coverage rate than the general divergence prior. The general divergence shows undercoverage when used with the Rayleigh distribution. The Jeffreys prior produces coverage rates that are conservative when used with the exponential distribution. These priors give, on average, the same average interval lengths and increase as the value of the parameter increases. Both priors perform similar when used with the gamma distribution and the Weibull distribution. A thorough discussion and review of human reliability analysis (HRA) techniques will be considered. Twenty human reliability analysis (HRA) techniques are discussed; providing a background, description and advantages and disadvantages for each. Case studies in the nuclear industry, railway industry, and aviation industry are presented to show the importance and applications of HRA. Human error has been shown to be the major contributor to system failure.
- Full Text:
- Date Issued: 2017
- Authors: Mafu, Masakheke
- Date: 2017
- Subjects: Bayesian statistical decision theory , Reliability (Engineering) , Human machine systems , Probabilities , Markov processes
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/6280 , vital:21077
- Description: Most reliability analyses involve the analysis of binary data. Practitioners in the field of reliability place great emphasis on analysing the time periods over which items or systems function (failure time analyses), which make use of different statistical models. This study intends to introduce, review and investigate four statistical models for modeling failure times of non-repairable items, and to utilise a Bayesian methodology to achieve this. The exponential, Rayleigh, gamma and Weibull distributions will be considered. The performance of the two non-informative priors will be investigated. An application of two failure time distributions will be carried out. To meet these objectives, the failure rate and the reliability functions of failure time distributions are calculated. Two non-informative priors, the Jeffreys prior and the general divergence prior, and the corresponding posteriors are derived for each distribution. Simulation studies for each distribution are carried out, where the coverage rates and credible intervals lengths are calculated and the results of these are discussed. The gamma distribution and the Weibull distribution are applied to failure time data.The Jeffreys prior is found to have better coverage rate than the general divergence prior. The general divergence shows undercoverage when used with the Rayleigh distribution. The Jeffreys prior produces coverage rates that are conservative when used with the exponential distribution. These priors give, on average, the same average interval lengths and increase as the value of the parameter increases. Both priors perform similar when used with the gamma distribution and the Weibull distribution. A thorough discussion and review of human reliability analysis (HRA) techniques will be considered. Twenty human reliability analysis (HRA) techniques are discussed; providing a background, description and advantages and disadvantages for each. Case studies in the nuclear industry, railway industry, and aviation industry are presented to show the importance and applications of HRA. Human error has been shown to be the major contributor to system failure.
- Full Text:
- Date Issued: 2017
Resource partitioning in the world’s largest gannetry
- Authors: Botha, Jonathan Aubrey
- Date: 2017
- Subjects: Gannets -- South Africa Birds of prey -- Behavior -- South Africa , Birds -- Behavior
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/14707 , vital:27828
- Description: Understanding strategies of resource partitioning within populations is a fundamental aspect of the study of ecology, and one which has been well documented across various taxa. In seabirds, sex-specific differences in foraging behaviour are often thought to reflect strategies of resource partitioning to avoid intra-specific competition. At present Bird Island in Algoa Bay hosts the world’s largest breeding population of gannets, with recent population estimates numbering well over 90 000 breeding pairs. Given the large size of this colony, intense levels of intra-specific competition are expected during the breeding season, particularly in years of poor feeding conditions. In addition, continuous foraging around the breeding colony may lead to the local depletion of prey as the season progresses, calling for flexibility in the foraging behaviour and diet of breeding individuals. Therefore, the aim of this dissertation was to investigate resource partitioning in Cape gannets breeding at Bird Island through strategies of sex-specific foraging and intra-seasonal variability in foraging behaviour and diet. To achieve this, the spatial and temporal aspects of Cape gannet foraging behaviour were assessed during the early stages of chick rearing, over two consecutive breeding seasons (2011/12, 2012/13) using GPS tracking and VHF monitoring. In addition, intra-seasonal variability in foraging behaviour and diet were investigated, taking into account the influence of sex and chick age, to provide a comprehensive assessment of foraging behaviour throughout the chick rearing period. GPS tracking data for 79 birds revealed limited evidence for sex-specific differences over spatial dimensions. An extension in the foraging range of females during a year of lower prey availability (2012/13) was, however, evident. This suggests a possible sex-specific response to prey limitation, likely reflecting resource partitioning strategies or differences in nutritional requirements. VHF data for 95 additional birds revealed a clear pattern in temporal foraging behaviour. In general, females were more likely to be on a foraging trip during the early and mid-day hours, with the probability of males being on a foraging trip increasing towards the late afternoon. Continuous tracking of individuals throughout the 2015/16 breeding season further revealed little evidence for sex-specific differences in spatial distribution and forging effort during both the guard and post-guard stages of chick rearing. A clear increase in foraging range was evident during the early stages of chick rearing as the season progressed. However, birds attending chicks older than 50 days showed an unexpected contraction in foraging range, which appeared to coincide with a dietary shift. During the early stages of breeding the diet was comprised almost exclusively of anchovy, the proportion of which decreased progressively in the diet throughout the breeding season. This was mirrored by a substantial increase in the proportion of saury in the diet. These results suggest that Cape gannets increase their foraging range in response to local prey depletion as the breeding season progresses. However, when alternative prey becomes available they may shift their diet, allowing them to access prey closer to the breeding colony. Overall, this dissertation provides insight into sex-specific behaviour in a monomorphic seabird, suggesting a marginal degree of spatial segregation. The results provide the first support for sex-related temporal foraging segregation in gannets. Such separation could potentially be driven by resource partitioning, but could also relate to differential nutritional requirements. In addition, this study also provided the first comprehensive assessment of foraging behaviour throughout the guard and post guard stages of chick rearing in gannets. These results suggest that a combination of foraging and dietary flexibility may allow Cape gannets to buffer the effects of prey depletion during the breeding season. In conclusion, resource partitioning through sex-specific foraging appears to be limited in the Cape gannet population at Bird Island. Segregation via alternative pathways may however be possible and as such, future studies should consider the influence of individual level segregation and habitat specialization.
- Full Text:
- Date Issued: 2017
- Authors: Botha, Jonathan Aubrey
- Date: 2017
- Subjects: Gannets -- South Africa Birds of prey -- Behavior -- South Africa , Birds -- Behavior
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/14707 , vital:27828
- Description: Understanding strategies of resource partitioning within populations is a fundamental aspect of the study of ecology, and one which has been well documented across various taxa. In seabirds, sex-specific differences in foraging behaviour are often thought to reflect strategies of resource partitioning to avoid intra-specific competition. At present Bird Island in Algoa Bay hosts the world’s largest breeding population of gannets, with recent population estimates numbering well over 90 000 breeding pairs. Given the large size of this colony, intense levels of intra-specific competition are expected during the breeding season, particularly in years of poor feeding conditions. In addition, continuous foraging around the breeding colony may lead to the local depletion of prey as the season progresses, calling for flexibility in the foraging behaviour and diet of breeding individuals. Therefore, the aim of this dissertation was to investigate resource partitioning in Cape gannets breeding at Bird Island through strategies of sex-specific foraging and intra-seasonal variability in foraging behaviour and diet. To achieve this, the spatial and temporal aspects of Cape gannet foraging behaviour were assessed during the early stages of chick rearing, over two consecutive breeding seasons (2011/12, 2012/13) using GPS tracking and VHF monitoring. In addition, intra-seasonal variability in foraging behaviour and diet were investigated, taking into account the influence of sex and chick age, to provide a comprehensive assessment of foraging behaviour throughout the chick rearing period. GPS tracking data for 79 birds revealed limited evidence for sex-specific differences over spatial dimensions. An extension in the foraging range of females during a year of lower prey availability (2012/13) was, however, evident. This suggests a possible sex-specific response to prey limitation, likely reflecting resource partitioning strategies or differences in nutritional requirements. VHF data for 95 additional birds revealed a clear pattern in temporal foraging behaviour. In general, females were more likely to be on a foraging trip during the early and mid-day hours, with the probability of males being on a foraging trip increasing towards the late afternoon. Continuous tracking of individuals throughout the 2015/16 breeding season further revealed little evidence for sex-specific differences in spatial distribution and forging effort during both the guard and post-guard stages of chick rearing. A clear increase in foraging range was evident during the early stages of chick rearing as the season progressed. However, birds attending chicks older than 50 days showed an unexpected contraction in foraging range, which appeared to coincide with a dietary shift. During the early stages of breeding the diet was comprised almost exclusively of anchovy, the proportion of which decreased progressively in the diet throughout the breeding season. This was mirrored by a substantial increase in the proportion of saury in the diet. These results suggest that Cape gannets increase their foraging range in response to local prey depletion as the breeding season progresses. However, when alternative prey becomes available they may shift their diet, allowing them to access prey closer to the breeding colony. Overall, this dissertation provides insight into sex-specific behaviour in a monomorphic seabird, suggesting a marginal degree of spatial segregation. The results provide the first support for sex-related temporal foraging segregation in gannets. Such separation could potentially be driven by resource partitioning, but could also relate to differential nutritional requirements. In addition, this study also provided the first comprehensive assessment of foraging behaviour throughout the guard and post guard stages of chick rearing in gannets. These results suggest that a combination of foraging and dietary flexibility may allow Cape gannets to buffer the effects of prey depletion during the breeding season. In conclusion, resource partitioning through sex-specific foraging appears to be limited in the Cape gannet population at Bird Island. Segregation via alternative pathways may however be possible and as such, future studies should consider the influence of individual level segregation and habitat specialization.
- Full Text:
- Date Issued: 2017
Revising the distribution of mangrove forests in South Africa and changes in growth of mangrove species along a latitudinal gradient
- Authors: Bolosha, Uviwe
- Date: 2017
- Subjects: Mangrove ecology -- South Africa , Mangrove forests -- South Africa , Mangrove plants -- South Africa -- Effect of temperature on
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/7544 , vital:21271
- Description: Mangrove forests are a diverse assemblage of trees and shrubs that are adapted to a saline and tidally inundated environment. The global spread of mangrove species is affected by climate, with most confined to areas that are warmer and moist. At a global scale, temperature limits the distribution of mangrove forests but on a regional scale and local scale, rainfall, river flow and tidal exchange have a strong effect on the distribution and biomass of mangrove forests. Other factors that play a role in limiting growth and distribution of mangroves include accessibility of suitable habitats for growth and also conditions that are suitable for propagule dispersal. The objectives of this study were to review the distribution of mangroves in South Africa and determine the number of extreme temperature events that may limit further distribution and secondly to measure growth rates of mangrove species at Mngazana and Nahoon Estuary and the nutrient pools in the sediment of these forests. In 1982, Ward and Steinke published a list of estuaries where mangroves were present. The current study sampled the population structure, microclimate and level of expansion in two estuaries within and outside of the published range. The minimum, maximum temperature and number of extreme temperature events were measured using iButtons. Mangrove expansion will be limited by minimum temperatures (1.1 ° C) and an increase in extreme temperature events (830) (<5 ° C and 5- 10 ° C) at the latitudinal limits. Expansion of A. marina at Kwelera and Tyolomnqa Estuary was evident but sapling survival was low. Mangroves have expanded within and outside the range proposed by Ward and Steinke (1982), but are limited by physical factors, restricted by the presence of saltmarsh and other estuarine macrophytes and natural disturbance regimes. An increase in population growth was recorded over the years at both Mngazana and Nahoon Estuary. Nutrients, (ammonium, nitrates + nitrites and soluble reactive phosphorus) varied amongst sites and were related to seasonality. Nitrogen in both estuaries was available in the form of ammonium (NH4) and its concentration was generally higher (1.3-76.2 pm) than other forms of nitrogen (0.07-6.3 µm). Soluble reactive phosphorus (SRP) was higher during the wet seasons in both estuaries. An increase in porewater salinity since 2007 (41.3 practical salinity unit (PSU)) was measured at Mngazana and this is a result of freshwater abstraction and low rainfall. A. marina saplings and adults grew significantly faster at Nahoon Estuary (the distributional limit) (11.1 ± 1.1 cm year-¹) compared to Mngazana Estuary (5.3 ± 1.8 cm year-¹). Different mangrove species and forests respond differently to environmental factors and changes in mangrove distribution is expected in South Africa but changes are expected to happen slowly and opportunistically.
- Full Text:
- Date Issued: 2017
- Authors: Bolosha, Uviwe
- Date: 2017
- Subjects: Mangrove ecology -- South Africa , Mangrove forests -- South Africa , Mangrove plants -- South Africa -- Effect of temperature on
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/7544 , vital:21271
- Description: Mangrove forests are a diverse assemblage of trees and shrubs that are adapted to a saline and tidally inundated environment. The global spread of mangrove species is affected by climate, with most confined to areas that are warmer and moist. At a global scale, temperature limits the distribution of mangrove forests but on a regional scale and local scale, rainfall, river flow and tidal exchange have a strong effect on the distribution and biomass of mangrove forests. Other factors that play a role in limiting growth and distribution of mangroves include accessibility of suitable habitats for growth and also conditions that are suitable for propagule dispersal. The objectives of this study were to review the distribution of mangroves in South Africa and determine the number of extreme temperature events that may limit further distribution and secondly to measure growth rates of mangrove species at Mngazana and Nahoon Estuary and the nutrient pools in the sediment of these forests. In 1982, Ward and Steinke published a list of estuaries where mangroves were present. The current study sampled the population structure, microclimate and level of expansion in two estuaries within and outside of the published range. The minimum, maximum temperature and number of extreme temperature events were measured using iButtons. Mangrove expansion will be limited by minimum temperatures (1.1 ° C) and an increase in extreme temperature events (830) (<5 ° C and 5- 10 ° C) at the latitudinal limits. Expansion of A. marina at Kwelera and Tyolomnqa Estuary was evident but sapling survival was low. Mangroves have expanded within and outside the range proposed by Ward and Steinke (1982), but are limited by physical factors, restricted by the presence of saltmarsh and other estuarine macrophytes and natural disturbance regimes. An increase in population growth was recorded over the years at both Mngazana and Nahoon Estuary. Nutrients, (ammonium, nitrates + nitrites and soluble reactive phosphorus) varied amongst sites and were related to seasonality. Nitrogen in both estuaries was available in the form of ammonium (NH4) and its concentration was generally higher (1.3-76.2 pm) than other forms of nitrogen (0.07-6.3 µm). Soluble reactive phosphorus (SRP) was higher during the wet seasons in both estuaries. An increase in porewater salinity since 2007 (41.3 practical salinity unit (PSU)) was measured at Mngazana and this is a result of freshwater abstraction and low rainfall. A. marina saplings and adults grew significantly faster at Nahoon Estuary (the distributional limit) (11.1 ± 1.1 cm year-¹) compared to Mngazana Estuary (5.3 ± 1.8 cm year-¹). Different mangrove species and forests respond differently to environmental factors and changes in mangrove distribution is expected in South Africa but changes are expected to happen slowly and opportunistically.
- Full Text:
- Date Issued: 2017
Scanning probe force microscopy of III-V semiconductor structures
- Authors: Kameni Boumenou, Christian
- Date: 2017
- Subjects: Scanning probe microscopy -- South Africa Semiconductors -- Optical properties
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/13992 , vital:27380
- Description: In this dissertation, cross-sectional potential imaging of GaAs-based homoepitaxial, heteroepitaxial and quantum well structures, all grown by atmospheric pressure Metal-organic Vapor Phase Epitaxy (MOVPE) is investigated. Kelvin probe force microscopy (KPFM), using amplitude modulation (AM) and frequency modulation (FM) modes in air and at room temperature, is used for the potential imaging. Studies performed on n-type GaAs homoepitaxial structures have shown two different potential profiles, related to the difference in electron density between the semi-insulating (SI) substrate and the epilayers. It is shown that the contact potential difference (CPD) between the tip and sample is higher on the semi-insulating substrate side than on the n-type epilayer side. This change in CPD across the interface has been explained by means of energy band diagrams indicating the relative Fermi level positions. In addition, it has also been found that the CPD across the interface increases with electron density. This result is in qualitative agreement with theory. In addition, as known from literature, even under ambient conditions FM mode KPFM provides better lateral resolution and more realistic CPD values than AM mode KPFM. Compared to the case of AM mode analysis, where the experimental CPD values were on average of the theoretical values, the CPD values from FM mode analysis are on average of the theoretical ones. Furthermore, by using FM mode, the transition across the interface is sharper and the surface potential flattens/saturates as expected when scanning sufficiently far away from the junction. The non-neutral space charge region of the sample with an electron density of for example, is as measured by FM-KPFM, whereas for AM-KPFM, the width is even more than and the potential profiles do not saturate. For the p-type GaAs homoepitaxial structures, FM mode measurements from a sample with a dopant density of are presented. As in the case of n-type GaAs,a similar potential profile showing two main domains has been obtained. However, unlike the case of type GaAs where the potential measured on the epilayer side is higher than that on the substrate side, the potential on the epilayer side of the junction is lower in this case due to the fact that the Fermi level of p-type GaAs is below that of the substrate.
- Full Text:
- Date Issued: 2017
- Authors: Kameni Boumenou, Christian
- Date: 2017
- Subjects: Scanning probe microscopy -- South Africa Semiconductors -- Optical properties
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/13992 , vital:27380
- Description: In this dissertation, cross-sectional potential imaging of GaAs-based homoepitaxial, heteroepitaxial and quantum well structures, all grown by atmospheric pressure Metal-organic Vapor Phase Epitaxy (MOVPE) is investigated. Kelvin probe force microscopy (KPFM), using amplitude modulation (AM) and frequency modulation (FM) modes in air and at room temperature, is used for the potential imaging. Studies performed on n-type GaAs homoepitaxial structures have shown two different potential profiles, related to the difference in electron density between the semi-insulating (SI) substrate and the epilayers. It is shown that the contact potential difference (CPD) between the tip and sample is higher on the semi-insulating substrate side than on the n-type epilayer side. This change in CPD across the interface has been explained by means of energy band diagrams indicating the relative Fermi level positions. In addition, it has also been found that the CPD across the interface increases with electron density. This result is in qualitative agreement with theory. In addition, as known from literature, even under ambient conditions FM mode KPFM provides better lateral resolution and more realistic CPD values than AM mode KPFM. Compared to the case of AM mode analysis, where the experimental CPD values were on average of the theoretical values, the CPD values from FM mode analysis are on average of the theoretical ones. Furthermore, by using FM mode, the transition across the interface is sharper and the surface potential flattens/saturates as expected when scanning sufficiently far away from the junction. The non-neutral space charge region of the sample with an electron density of for example, is as measured by FM-KPFM, whereas for AM-KPFM, the width is even more than and the potential profiles do not saturate. For the p-type GaAs homoepitaxial structures, FM mode measurements from a sample with a dopant density of are presented. As in the case of n-type GaAs,a similar potential profile showing two main domains has been obtained. However, unlike the case of type GaAs where the potential measured on the epilayer side is higher than that on the substrate side, the potential on the epilayer side of the junction is lower in this case due to the fact that the Fermi level of p-type GaAs is below that of the substrate.
- Full Text:
- Date Issued: 2017
Screening of shark liver extracts for potential antimicrobial properties against selected pathogenic bacterial strains
- Authors: Mrwetyana, Thandolwethu
- Date: 2017
- Subjects: Fishes -- Diseases Pathogenic bacteria Antibiotics
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/12982 , vital:39413
- Description: The growing problem of antimicrobial resistance prevents the effective treatment of bacterial infections. Traditional antibiotics such as penicillin have been rendered ineffective against most microbial pathogens. This has led to an increased need for the development of new and improved drugs. The marine environment contains a great array of organisms with unique biological properties, but still remains one of our most underutilized biological resources. The aim of this study was to screen different shark liver extracts for antimicrobial properties. After optimizing the extraction methods, the liver extracts (oil and aminosterol) of three different shark species, namely the Dogfish (Squalus acanthias), the Catshark (Scyliorhinus capensis) and the Hammerhead (Sphyrna zygaena) shark, were screened for antimicrobial properties using the Kirby-Bauer disc diffusion method against selected bacterial pathogens (Helicobacter pylori, Escherichia coli, Pseudomonas aeruginosa, Staphylococcus aureus and Bacillus cereus), after which the MIC was determined using the modified broth micro-dilution described by Vollekova et al. (2001). The most active extract was fractionated using thin layer chromatography, and TLC-direct bioautography was used to determine the antimicrobial properties of the fractionated compounds. The Folch et al and the Shinnar et al methods yielded the highest extract volumes for oil and aminosterol consecutively, and the catshark and dogfish aminosterol extract showed greater levels of bioactivity against all selected bacterial pathogens, with S. aureus showing highest susceptibility levels to both extracts. A total of 22 compounds were observed in the developed plates with two compounds (Rf 0.53 and 0.79) showing antimicrobial activity. Certain shark liver extracts possess antimicrobial properties that have the potential to be used in the development of new antimicrobial drugs.
- Full Text:
- Date Issued: 2017
- Authors: Mrwetyana, Thandolwethu
- Date: 2017
- Subjects: Fishes -- Diseases Pathogenic bacteria Antibiotics
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/12982 , vital:39413
- Description: The growing problem of antimicrobial resistance prevents the effective treatment of bacterial infections. Traditional antibiotics such as penicillin have been rendered ineffective against most microbial pathogens. This has led to an increased need for the development of new and improved drugs. The marine environment contains a great array of organisms with unique biological properties, but still remains one of our most underutilized biological resources. The aim of this study was to screen different shark liver extracts for antimicrobial properties. After optimizing the extraction methods, the liver extracts (oil and aminosterol) of three different shark species, namely the Dogfish (Squalus acanthias), the Catshark (Scyliorhinus capensis) and the Hammerhead (Sphyrna zygaena) shark, were screened for antimicrobial properties using the Kirby-Bauer disc diffusion method against selected bacterial pathogens (Helicobacter pylori, Escherichia coli, Pseudomonas aeruginosa, Staphylococcus aureus and Bacillus cereus), after which the MIC was determined using the modified broth micro-dilution described by Vollekova et al. (2001). The most active extract was fractionated using thin layer chromatography, and TLC-direct bioautography was used to determine the antimicrobial properties of the fractionated compounds. The Folch et al and the Shinnar et al methods yielded the highest extract volumes for oil and aminosterol consecutively, and the catshark and dogfish aminosterol extract showed greater levels of bioactivity against all selected bacterial pathogens, with S. aureus showing highest susceptibility levels to both extracts. A total of 22 compounds were observed in the developed plates with two compounds (Rf 0.53 and 0.79) showing antimicrobial activity. Certain shark liver extracts possess antimicrobial properties that have the potential to be used in the development of new antimicrobial drugs.
- Full Text:
- Date Issued: 2017
Seasonal physiological and behavioural responses of a small bird in a hot, arid habitat
- Authors: Pattinson, Nicholas Bruce
- Date: 2017
- Subjects: Birds -- Behavior Birds -- Physiology , Birds -- Ecophysiology
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/19728 , vital:28948
- Description: The role that climate plays in the ecology of organisms is perhaps the most pronounced where the earth’s environments are most extreme. In arid-zones, organisms have to deal with large seasonal shifts and/or extremes in temperature and/or moisture levels. As a result, arid-zone species are sensitive to climatic changes. I assessed the physiological and behavioural adjustments of an arid-zone endemic passerine, the rufous-eared warbler (Malcorus pectoralis), to seasonal changes in the Karoo semi-desert of South Africa. Respirometry measurements in the field showed that the warblers’ basal metabolic rate was lower and set point body temperature (Tb) was higher in summer compared to winter. At high air temperatures (Ta) evaporative water loss (EWL) rate was significantly lower in summer compared to winter, while Tb showed a clear pattern of heterothermy that was similar in both seasons. Compared to winter, the warblers in summer were able to remain calm, and tolerate higher Ta’s, before their Tb’s increased to potentially detrimental levels. Behavioural observations showed that free-living warblers exhibited significant temperature-dependence in their behaviour; they increased panting behaviour, and reduced activity levels, time spent preening, and foraging effort at high Ta’s in summer. The warblers also displayed a considerable decrease in foraging success, and a shift in microsite use, at high Ta’s in summer. I hypothesise that the flexible responses the rufous-eared warblers show are aimed at increasing their heat tolerance in summer, and help them balance their energy and water demands in an arid environment that exhibits wide seasonality in Ta, in addition to high summer Ta. My findings emphasise the importance of identifying, as well as understanding, the associated costs of physiological and behavioural responses to environmental variables. This information is valuable in terms of predicting biologically meaningful responses (and hence, vulnerability) of arid-zone avian communities to climactic shifts.
- Full Text:
- Date Issued: 2017
- Authors: Pattinson, Nicholas Bruce
- Date: 2017
- Subjects: Birds -- Behavior Birds -- Physiology , Birds -- Ecophysiology
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/19728 , vital:28948
- Description: The role that climate plays in the ecology of organisms is perhaps the most pronounced where the earth’s environments are most extreme. In arid-zones, organisms have to deal with large seasonal shifts and/or extremes in temperature and/or moisture levels. As a result, arid-zone species are sensitive to climatic changes. I assessed the physiological and behavioural adjustments of an arid-zone endemic passerine, the rufous-eared warbler (Malcorus pectoralis), to seasonal changes in the Karoo semi-desert of South Africa. Respirometry measurements in the field showed that the warblers’ basal metabolic rate was lower and set point body temperature (Tb) was higher in summer compared to winter. At high air temperatures (Ta) evaporative water loss (EWL) rate was significantly lower in summer compared to winter, while Tb showed a clear pattern of heterothermy that was similar in both seasons. Compared to winter, the warblers in summer were able to remain calm, and tolerate higher Ta’s, before their Tb’s increased to potentially detrimental levels. Behavioural observations showed that free-living warblers exhibited significant temperature-dependence in their behaviour; they increased panting behaviour, and reduced activity levels, time spent preening, and foraging effort at high Ta’s in summer. The warblers also displayed a considerable decrease in foraging success, and a shift in microsite use, at high Ta’s in summer. I hypothesise that the flexible responses the rufous-eared warblers show are aimed at increasing their heat tolerance in summer, and help them balance their energy and water demands in an arid environment that exhibits wide seasonality in Ta, in addition to high summer Ta. My findings emphasise the importance of identifying, as well as understanding, the associated costs of physiological and behavioural responses to environmental variables. This information is valuable in terms of predicting biologically meaningful responses (and hence, vulnerability) of arid-zone avian communities to climactic shifts.
- Full Text:
- Date Issued: 2017
Seed ecology and growth comparisons of native (Virgilia divaricata) and invasive alien (Acacia mearnsii and A. melanoxylon) plants: implications for conservation
- Authors: Goets, Stefan Albert
- Date: 2017
- Subjects: Seeds -- Ecology Plants -- Reproduction , Vegetation dynamics
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/15248 , vital:28191
- Description: The abundance of invasive alien plants, with their numerous associated negative effects, has resulted in challenging and costly management requirements in South Africa. Management of invasives is further complicated when species have rapid inherent growth rates, atmospheric nitrogen fixing capabilities and large, persistent seed banks. Management strategies other than the usual mechanical, chemical, and biological (and combinations thereof) methods may be more effective. An alternative strategy is ’habitat management’, whereby management may be aimed at favouring native species. If the native species could compete favourably with, and possibly exclude, the invasive species, which is more likely when the species are ecologically similar, management may be more effective. This study investigated the competitive performance of two invasive species, Acacia mearnsii De Wild. and Acacia melanoxylon R.Br., and an indigenous ecological analogue, Virgilia divaricata Adamson, on the southern Cape Coast of South Africa. Both acacias are included among the five worst invasive species in the native forest and fynbos shrubland ecosystems. Performance was compared among the three species in terms of germination success (responses to five stimuli, namely chipping, hot water exposure, dry heat pulse, smoke, and control, incubated at 12 or 20°C), soil-stored seed bank densities and viability at different soil depths, and individual growth performance in seedling and sapling stages (and the effect of inter-specific competition on the latter). Virgilia divaricata performed comparably to the acacias in most aspects. Responses to germination stimuli at both temperature regimes were comparable among species, with chipping and hot water exposure resulting in the highest germination success. Acacia melanoxylon displayed poorer germination response under the cool temperature regime than the warm regime. Of the three species, A. mearnsii (7 596 seeds m-2) had the highest seed bank density, followed by V. divaricata (938 seeds m-2) and A. melanoxylon (274 seeds m-2). Seed viability was high (87-91%) in all three species. Neither seed density nor seed viability differed significantly between soil depths, and there were no clear differences in this aspect between species. In terms of growth during the seedling stage, V. divaricata outperformed A. mearnsii. In the sapling stage, growth was comparable between the three species and was not affected by the extent of competition from neighbouring saplings. Overall, the findings of this study suggest that the success of A. mearnsii as an invader is primarily attributable to its large seed banks. However, the good performance of V. divaricata seedlings and no apparent negative effect of competition on sapling growth from A. mearnsii and A. melanoxylon suggest that it may be used in the management of the acacias along with other management strategies. Due to the similarity observed between the three species, any management operation (such as fire) that would benefit V. divaricata recruitment would benefit the acacias equally (except for potentially reduced germination of A. melanoxylon in cooler seasons). Management should thus attempt to prevent the germination of Acacia seeds. Alternatively, dense localised Acacia seed banks may be reduced by repeat burning. On a small scale, areas where V. divaricata would occur naturally (or which are completely compromised ecologically) can be seeded with pre-treated (chipped or hot water exposure) V. divaricata seeds. If V. divaricata is given enough time to establish dense stands, subsequent germination and growth of the acacias should be suppressed and simultaneously promote forest re-establishment. To further decrease Acacia success, biocontrol (seed-boring weevils, flower-galling midges, and rust fungus) should be widely disseminated.
- Full Text:
- Date Issued: 2017
- Authors: Goets, Stefan Albert
- Date: 2017
- Subjects: Seeds -- Ecology Plants -- Reproduction , Vegetation dynamics
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/15248 , vital:28191
- Description: The abundance of invasive alien plants, with their numerous associated negative effects, has resulted in challenging and costly management requirements in South Africa. Management of invasives is further complicated when species have rapid inherent growth rates, atmospheric nitrogen fixing capabilities and large, persistent seed banks. Management strategies other than the usual mechanical, chemical, and biological (and combinations thereof) methods may be more effective. An alternative strategy is ’habitat management’, whereby management may be aimed at favouring native species. If the native species could compete favourably with, and possibly exclude, the invasive species, which is more likely when the species are ecologically similar, management may be more effective. This study investigated the competitive performance of two invasive species, Acacia mearnsii De Wild. and Acacia melanoxylon R.Br., and an indigenous ecological analogue, Virgilia divaricata Adamson, on the southern Cape Coast of South Africa. Both acacias are included among the five worst invasive species in the native forest and fynbos shrubland ecosystems. Performance was compared among the three species in terms of germination success (responses to five stimuli, namely chipping, hot water exposure, dry heat pulse, smoke, and control, incubated at 12 or 20°C), soil-stored seed bank densities and viability at different soil depths, and individual growth performance in seedling and sapling stages (and the effect of inter-specific competition on the latter). Virgilia divaricata performed comparably to the acacias in most aspects. Responses to germination stimuli at both temperature regimes were comparable among species, with chipping and hot water exposure resulting in the highest germination success. Acacia melanoxylon displayed poorer germination response under the cool temperature regime than the warm regime. Of the three species, A. mearnsii (7 596 seeds m-2) had the highest seed bank density, followed by V. divaricata (938 seeds m-2) and A. melanoxylon (274 seeds m-2). Seed viability was high (87-91%) in all three species. Neither seed density nor seed viability differed significantly between soil depths, and there were no clear differences in this aspect between species. In terms of growth during the seedling stage, V. divaricata outperformed A. mearnsii. In the sapling stage, growth was comparable between the three species and was not affected by the extent of competition from neighbouring saplings. Overall, the findings of this study suggest that the success of A. mearnsii as an invader is primarily attributable to its large seed banks. However, the good performance of V. divaricata seedlings and no apparent negative effect of competition on sapling growth from A. mearnsii and A. melanoxylon suggest that it may be used in the management of the acacias along with other management strategies. Due to the similarity observed between the three species, any management operation (such as fire) that would benefit V. divaricata recruitment would benefit the acacias equally (except for potentially reduced germination of A. melanoxylon in cooler seasons). Management should thus attempt to prevent the germination of Acacia seeds. Alternatively, dense localised Acacia seed banks may be reduced by repeat burning. On a small scale, areas where V. divaricata would occur naturally (or which are completely compromised ecologically) can be seeded with pre-treated (chipped or hot water exposure) V. divaricata seeds. If V. divaricata is given enough time to establish dense stands, subsequent germination and growth of the acacias should be suppressed and simultaneously promote forest re-establishment. To further decrease Acacia success, biocontrol (seed-boring weevils, flower-galling midges, and rust fungus) should be widely disseminated.
- Full Text:
- Date Issued: 2017
Small-scale farmers' participation in planning and implementation of farmer support programmes in Amahlathi Local Municipality, Eastern Cape Province, South Africa
- Authors: Makunga, Phendulwa Zikhona
- Date: 2017
- Subjects: Agricultural development projects , Farms, Small -- South Africa -- Eastern Cape , Agriculture -- Economic aspects -- South Africa
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/6248 , vital:29529
- Description: The democratic government in South Africa has brought about several policies which were initiated for rural development, and one of the government’s strategies was to involve the agricultural sector. Farmer Support Programmes (FSPs) were developed to assist small-scale farmers to become commercial farmers. The study looked at the participation of small scale farmers in the planning and implementation of the FSPs in the Amahlathi Local Municipality. 108 small scale farmers were selected using a non-random purposive probability and twelve farmers’ organisations. Semi-structured questionnaires and semi-structured interviews were used as the data collection tool and method respectively. The data analysis used was a descriptive analysis and a thematic analysis. The results revealed that the farmers have a positive perception towards the support programmes being helpful in their farming needs. The positive perception was especially on the extension and advisory services, dipping and vaccination programme, and the supply and funding of inputs and assets. However, the results revealed that there was no significant difference between gender and the perception of the farmers when a chi square test of association was performed. The results also revealed that the farmers and farmers’ organisations were not involved in the planning of the programmes by the government. It is therefore recommended that for the success of the FSP and for economic growth in the rural areas, the government has to avoid using a top-down approach when developing these programmes, and instead consult the farmers and the farmers’ organisations to know the specific needs of the farmers in their farming practices.
- Full Text:
- Date Issued: 2017
- Authors: Makunga, Phendulwa Zikhona
- Date: 2017
- Subjects: Agricultural development projects , Farms, Small -- South Africa -- Eastern Cape , Agriculture -- Economic aspects -- South Africa
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/6248 , vital:29529
- Description: The democratic government in South Africa has brought about several policies which were initiated for rural development, and one of the government’s strategies was to involve the agricultural sector. Farmer Support Programmes (FSPs) were developed to assist small-scale farmers to become commercial farmers. The study looked at the participation of small scale farmers in the planning and implementation of the FSPs in the Amahlathi Local Municipality. 108 small scale farmers were selected using a non-random purposive probability and twelve farmers’ organisations. Semi-structured questionnaires and semi-structured interviews were used as the data collection tool and method respectively. The data analysis used was a descriptive analysis and a thematic analysis. The results revealed that the farmers have a positive perception towards the support programmes being helpful in their farming needs. The positive perception was especially on the extension and advisory services, dipping and vaccination programme, and the supply and funding of inputs and assets. However, the results revealed that there was no significant difference between gender and the perception of the farmers when a chi square test of association was performed. The results also revealed that the farmers and farmers’ organisations were not involved in the planning of the programmes by the government. It is therefore recommended that for the success of the FSP and for economic growth in the rural areas, the government has to avoid using a top-down approach when developing these programmes, and instead consult the farmers and the farmers’ organisations to know the specific needs of the farmers in their farming practices.
- Full Text:
- Date Issued: 2017
Socio-economic benefits of agricultural projects to surrounding communities: the case of Qamata Irrigation Scheme in the Eastern Cape, South Africa
- Authors: Masela, Zandile
- Date: 2017
- Subjects: Agricultural development projects -- South Africa -- Eastern Cape , Agriculture -- Economic aspects -- South Africa -- Eastern Cape , Irrigation farming -- South Africa -- Eastern Cape
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/4716 , vital:28501
- Description: The Qamata Irrigation Scheme (QIS) is one of the largest irrigation schemes in South Africa. Despite substantial state investment, community members have only derived limited benefits from the scheme, leading the government efforts to revitalize the scheme. Many studies have been conducted about QIS but none of them have analyzed the effects of the QIS on the surrounding communities. This study investigated the socio-economic benefits of QIS to surrounding communities. For the purposes of this study, the units of analysis were the surrounding household members, questionnaires were used to collect data. Probabilistic sampling of random sampling method was used to select the villages; respondents’ were availability selected with sample size of 197 households. Quantitative and qualitative data were collected from the participants. To analyse data, descriptive statistics and multinomial logit regression model were used. The study found out that female-headed households constitute 63.45 percent compared to male-headed households at 36.55 percent. The average age of the households in the villages that are within the radius of 10km is 58 years, while it is 59 years in villages that are beyond the 10km radius. In villages within the radius of 10km, 86.08 percent of respondents are unemployed, 5.70 percent are employed at the scheme and 8.23 percent are self-employed. In villages beyond 10km, 84.62 percent of respondents are unemployed, 5.13 percent are employed at the scheme and 10.26 percent are self-employed. In both villages, 71 percent of respondents reported that that they do not get feed supply from the scheme while 29 percent of respondents reported that they get feed supply from the scheme. From the overall distribution of villages within and beyond the radius of 10km, 80 percent of respondents reported that they do not get job opportunities from the QIS while 20 percent of respondents reported that they get job opportunities from the QIS. The study shows that 53 percent of respondents from villages within the radius of 10km are low-benefitting, 33 percent of respondents are intermediate-benefitting and 14 percent of respondents are high-benefitting from the scheme, while in villages beyond the radius of 10km, 97 percent of respondents are low-benefitting, 3 percent of respondents are intermediate-benefitting and none of the respondents is high-benefitting from the scheme. Furthermore, the study, through the multinomial logit regression model, shows that gender for intermediate benefitting has a negative coefficient (-1.70) and shows a significance of 10 percent On the other hand, gender for high benefitting has a positive coefficient (2.57) and shows a significance of 1 percent. Distance from the scheme has a negative coefficient (-3.08) and shows a significance of 1 percent. Access to farmland has a positive coefficient (2.33) and shows a significance of 10 percent. The study recommends that surrounding communities should own home gardens so that they can grow fresh produce and create job opportunities. The surrounding communities are also encouraged to own more farmlands or produce their own crops so they can also learn from the skills of the scheme.
- Full Text:
- Date Issued: 2017
- Authors: Masela, Zandile
- Date: 2017
- Subjects: Agricultural development projects -- South Africa -- Eastern Cape , Agriculture -- Economic aspects -- South Africa -- Eastern Cape , Irrigation farming -- South Africa -- Eastern Cape
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/4716 , vital:28501
- Description: The Qamata Irrigation Scheme (QIS) is one of the largest irrigation schemes in South Africa. Despite substantial state investment, community members have only derived limited benefits from the scheme, leading the government efforts to revitalize the scheme. Many studies have been conducted about QIS but none of them have analyzed the effects of the QIS on the surrounding communities. This study investigated the socio-economic benefits of QIS to surrounding communities. For the purposes of this study, the units of analysis were the surrounding household members, questionnaires were used to collect data. Probabilistic sampling of random sampling method was used to select the villages; respondents’ were availability selected with sample size of 197 households. Quantitative and qualitative data were collected from the participants. To analyse data, descriptive statistics and multinomial logit regression model were used. The study found out that female-headed households constitute 63.45 percent compared to male-headed households at 36.55 percent. The average age of the households in the villages that are within the radius of 10km is 58 years, while it is 59 years in villages that are beyond the 10km radius. In villages within the radius of 10km, 86.08 percent of respondents are unemployed, 5.70 percent are employed at the scheme and 8.23 percent are self-employed. In villages beyond 10km, 84.62 percent of respondents are unemployed, 5.13 percent are employed at the scheme and 10.26 percent are self-employed. In both villages, 71 percent of respondents reported that that they do not get feed supply from the scheme while 29 percent of respondents reported that they get feed supply from the scheme. From the overall distribution of villages within and beyond the radius of 10km, 80 percent of respondents reported that they do not get job opportunities from the QIS while 20 percent of respondents reported that they get job opportunities from the QIS. The study shows that 53 percent of respondents from villages within the radius of 10km are low-benefitting, 33 percent of respondents are intermediate-benefitting and 14 percent of respondents are high-benefitting from the scheme, while in villages beyond the radius of 10km, 97 percent of respondents are low-benefitting, 3 percent of respondents are intermediate-benefitting and none of the respondents is high-benefitting from the scheme. Furthermore, the study, through the multinomial logit regression model, shows that gender for intermediate benefitting has a negative coefficient (-1.70) and shows a significance of 10 percent On the other hand, gender for high benefitting has a positive coefficient (2.57) and shows a significance of 1 percent. Distance from the scheme has a negative coefficient (-3.08) and shows a significance of 1 percent. Access to farmland has a positive coefficient (2.33) and shows a significance of 10 percent. The study recommends that surrounding communities should own home gardens so that they can grow fresh produce and create job opportunities. The surrounding communities are also encouraged to own more farmlands or produce their own crops so they can also learn from the skills of the scheme.
- Full Text:
- Date Issued: 2017
Species composition and seasonal population dynamics of free-living and engorged cattle ticks in three agro-ecological zones of the Eastern Cape Province, South Africa
- Authors: Yawa, Mandla
- Date: 2017
- Subjects: Ticks Boophilus microplus
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/9067 , vital:34224
- Description: This study was conducted to determine species composition and seasonal population dynamics of free-living and engorged cattle ticks in three agro-ecological zones (Bedford dry grassland, Kowie thicket and Bisho thornveld) of the Eastern Cape Province, South Africa. The occurrence of ticks on cattle was studied monthly from April 2016 and March 2017. Tick collections were performed on 360 selected cattle in each agro-ecological zones. During tick collections, 10 randomly selected cattle were sampled at each locality and more attention was given to African blue tick and the presence of Asian blue tick. A half body tick collection was performed from cattle and visible ticks were collected by means of fine-forceps after the animals had been restrained. Body regions that were examined includes the ear, head, neck, chest, abdomen, flank, front and hind leg and feet, tail, and peri-anal region. At each locality, six replicate drags of 100 m, approximately 50 m apart, were performed to collect ticks from vegetation. All ticks collected per cattle and from vegetation were stored in labelled sample tubes containing 70percent ethanol, subsequently counted and identified to genus and species level using a standard stereomicroscope. A total of 31425 ticks belonging to ten species were collected during the study. Rhipicephalus (Boophilus) decoloratus, was the most observed tick species (32.50percent), all other ticks like R. evertsi evertsi (18.84percent), R. appendiculatus (17.26percent), A. hebraeum (16.27percent), R. simus (7.69percent) were also commonly collected. Ixodes pilosus (3.84percent), H. rufipes (3.46percent), R. follis (0.08percent) together with Haemaphysalis silacea (0.02percent) were sporadic infestation. Haemaphysalis elliptica (0.04percent) was only found on the vegetation. No H. rufipes was collected in the thicket vegetation. Agro-ecological zones differ significantly (P<0.05) in tick species and distribution. Significantly more R. (B.) decoloratus were collected in thicket during summer compared to thornveld and dry grassland regions (P<0.05). Free-living ticks were widely distributed across different seasons but with of R. (B.) decoloratus larvae were significantly higher (P<0.05) in thornveld region during the spring season. In conclusion, agro-ecological differences and seasonal variations had an influence on ticks abundance and distribution. From this study, it is of interest to note the absence of R. (B.) microplus, whose trend to invade new areas previously colonised by R. (B.) decoloratus has been observed in Africa. In conclusion, agro-ecological differences and seasonal variations had an influence on ticks abundance and distribution. The aforementioned absence of R. (B.) microplus in this study highlights the importance of further research as this tick invades new areas previously colonised by R. (B.) decoloratus in the continent.
- Full Text:
- Date Issued: 2017
- Authors: Yawa, Mandla
- Date: 2017
- Subjects: Ticks Boophilus microplus
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/9067 , vital:34224
- Description: This study was conducted to determine species composition and seasonal population dynamics of free-living and engorged cattle ticks in three agro-ecological zones (Bedford dry grassland, Kowie thicket and Bisho thornveld) of the Eastern Cape Province, South Africa. The occurrence of ticks on cattle was studied monthly from April 2016 and March 2017. Tick collections were performed on 360 selected cattle in each agro-ecological zones. During tick collections, 10 randomly selected cattle were sampled at each locality and more attention was given to African blue tick and the presence of Asian blue tick. A half body tick collection was performed from cattle and visible ticks were collected by means of fine-forceps after the animals had been restrained. Body regions that were examined includes the ear, head, neck, chest, abdomen, flank, front and hind leg and feet, tail, and peri-anal region. At each locality, six replicate drags of 100 m, approximately 50 m apart, were performed to collect ticks from vegetation. All ticks collected per cattle and from vegetation were stored in labelled sample tubes containing 70percent ethanol, subsequently counted and identified to genus and species level using a standard stereomicroscope. A total of 31425 ticks belonging to ten species were collected during the study. Rhipicephalus (Boophilus) decoloratus, was the most observed tick species (32.50percent), all other ticks like R. evertsi evertsi (18.84percent), R. appendiculatus (17.26percent), A. hebraeum (16.27percent), R. simus (7.69percent) were also commonly collected. Ixodes pilosus (3.84percent), H. rufipes (3.46percent), R. follis (0.08percent) together with Haemaphysalis silacea (0.02percent) were sporadic infestation. Haemaphysalis elliptica (0.04percent) was only found on the vegetation. No H. rufipes was collected in the thicket vegetation. Agro-ecological zones differ significantly (P<0.05) in tick species and distribution. Significantly more R. (B.) decoloratus were collected in thicket during summer compared to thornveld and dry grassland regions (P<0.05). Free-living ticks were widely distributed across different seasons but with of R. (B.) decoloratus larvae were significantly higher (P<0.05) in thornveld region during the spring season. In conclusion, agro-ecological differences and seasonal variations had an influence on ticks abundance and distribution. From this study, it is of interest to note the absence of R. (B.) microplus, whose trend to invade new areas previously colonised by R. (B.) decoloratus has been observed in Africa. In conclusion, agro-ecological differences and seasonal variations had an influence on ticks abundance and distribution. The aforementioned absence of R. (B.) microplus in this study highlights the importance of further research as this tick invades new areas previously colonised by R. (B.) decoloratus in the continent.
- Full Text:
- Date Issued: 2017
Spectroscopic and electrochemical characterization of thio binuclear phthalocyanine complexes
- Authors: Makinde, Zainab Olusola
- Date: 2017
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/59287 , vital:27541
- Description: Expected release date-April 2019
- Full Text:
- Date Issued: 2017
- Authors: Makinde, Zainab Olusola
- Date: 2017
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/59287 , vital:27541
- Description: Expected release date-April 2019
- Full Text:
- Date Issued: 2017
Spectroscopic and nonlinear optical characterisation of alpha substituted binuclear phthalocyanines
- Authors: Ngubeni, Grace Nomthandazo
- Date: 2017
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/5038 , vital:20757
- Full Text:
- Date Issued: 2017
- Authors: Ngubeni, Grace Nomthandazo
- Date: 2017
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/5038 , vital:20757
- Full Text:
- Date Issued: 2017
Statistical methods for the detection of non-technical losses: a case study for the Nelson Mandela Bay Municipality
- Authors: Pazi, Sisa
- Date: 2017
- Subjects: Nonparametric statistics Mathematical statistics , Statistics
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/19706 , vital:28939
- Description: Electricity is one of the most stolen commodities in the world. Electricity theft can be defined as the criminal act of stealing electrical power. Several types of electricity theft exist, including illegal connections and bypassing and tampering with energy meters. The negative financial impacts, due to lost revenue, of electricity theft are far reaching and affect both developing and developed countries. . Here in South Africa, Eskom loses over R2 Billion annually due to electricity theft. Data mining and nonparametric statistical methods have been used to detect fraudulent usage of electricity by assessing abnormalities and abrupt changes in kilowatt hour (kWh) consumption patterns. Identifying effective measures to detect fraudulent electricity usage is an active area of research in the electrical domain. In this study, Support Vector Machines (SVM), Naïve Bayes (NB) and k-Nearest Neighbour (KNN) algorithms were used to design and propose an electricity fraud detection model. Using the Nelson Mandela Bay Municipality as a case study, three classifiers were built with SVM, NB and KNN algorithms. The performance of these classifiers were evaluated and compared.
- Full Text:
- Date Issued: 2017
- Authors: Pazi, Sisa
- Date: 2017
- Subjects: Nonparametric statistics Mathematical statistics , Statistics
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/19706 , vital:28939
- Description: Electricity is one of the most stolen commodities in the world. Electricity theft can be defined as the criminal act of stealing electrical power. Several types of electricity theft exist, including illegal connections and bypassing and tampering with energy meters. The negative financial impacts, due to lost revenue, of electricity theft are far reaching and affect both developing and developed countries. . Here in South Africa, Eskom loses over R2 Billion annually due to electricity theft. Data mining and nonparametric statistical methods have been used to detect fraudulent usage of electricity by assessing abnormalities and abrupt changes in kilowatt hour (kWh) consumption patterns. Identifying effective measures to detect fraudulent electricity usage is an active area of research in the electrical domain. In this study, Support Vector Machines (SVM), Naïve Bayes (NB) and k-Nearest Neighbour (KNN) algorithms were used to design and propose an electricity fraud detection model. Using the Nelson Mandela Bay Municipality as a case study, three classifiers were built with SVM, NB and KNN algorithms. The performance of these classifiers were evaluated and compared.
- Full Text:
- Date Issued: 2017
Statistical modelling applied to perceptions of fraud
- Authors: Mnci, Mihlali
- Date: 2017
- Subjects: Mathematical statistics Statistics , Mathematical models Bank fraud Banks and banking -- Security measures
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/41073 , vital:36289
- Description: This study aims to investigate and identify attitudes, behaviours and perceptions harboured by bank cardholders and merchants, which are associated with a higher susceptibility towards experiencing bank card fraud. Primary data was obtained from bank cardholders and merchants, from various business categories, in both the Nelson Mandela Bay Metropolitan Municipality and the City of Johannesburg Metropolitan Municipality. Following the use of parametric Multinomial Logistic Regression (MLR) and nonparametric conditional density estimation to analyse the data, the results are compared and relevant covariates/perceptions are determined from the more accurate of the two techniques. The results of the analysed survey data serve as a tool, highlighting areas which require further education and awareness on the part of merchants and bank clients.
- Full Text:
- Date Issued: 2017
- Authors: Mnci, Mihlali
- Date: 2017
- Subjects: Mathematical statistics Statistics , Mathematical models Bank fraud Banks and banking -- Security measures
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/41073 , vital:36289
- Description: This study aims to investigate and identify attitudes, behaviours and perceptions harboured by bank cardholders and merchants, which are associated with a higher susceptibility towards experiencing bank card fraud. Primary data was obtained from bank cardholders and merchants, from various business categories, in both the Nelson Mandela Bay Metropolitan Municipality and the City of Johannesburg Metropolitan Municipality. Following the use of parametric Multinomial Logistic Regression (MLR) and nonparametric conditional density estimation to analyse the data, the results are compared and relevant covariates/perceptions are determined from the more accurate of the two techniques. The results of the analysed survey data serve as a tool, highlighting areas which require further education and awareness on the part of merchants and bank clients.
- Full Text:
- Date Issued: 2017
Statistical modelling applied to perceptions of fraud
- Authors: Mnci, Mihlali
- Date: 2017
- Subjects: Mathematical statistics Statistics
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/41064 , vital:36288
- Description: This study aims to investigate and identify attitudes, behaviours and perceptions harboured by bank cardholders and merchants, which are associated with a higher susceptibility towards experiencing bank card fraud. Primary data was obtained from bank cardholders and merchants, from various business categories, in both the Nelson Mandela Bay Metropolitan Municipality and the City of Johannesburg Metropolitan Municipality. Following the use of parametric Multinomial Logistic Regression (MLR) and nonparametric conditional density estimation to analyse the data, the results are compared and relevant covariates/perceptions are determined from the more accurate of the two techniques. The results of the analysed survey data serve as a tool, highlighting areas which require further education and awareness on the part of merchants and bank clients.
- Full Text:
- Date Issued: 2017
- Authors: Mnci, Mihlali
- Date: 2017
- Subjects: Mathematical statistics Statistics
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/41064 , vital:36288
- Description: This study aims to investigate and identify attitudes, behaviours and perceptions harboured by bank cardholders and merchants, which are associated with a higher susceptibility towards experiencing bank card fraud. Primary data was obtained from bank cardholders and merchants, from various business categories, in both the Nelson Mandela Bay Metropolitan Municipality and the City of Johannesburg Metropolitan Municipality. Following the use of parametric Multinomial Logistic Regression (MLR) and nonparametric conditional density estimation to analyse the data, the results are compared and relevant covariates/perceptions are determined from the more accurate of the two techniques. The results of the analysed survey data serve as a tool, highlighting areas which require further education and awareness on the part of merchants and bank clients.
- Full Text:
- Date Issued: 2017
Stem cutting propagation protocol for rose-scented geranium (Pelargonium graveolens)
- Authors: Matafeni, Ntombekhaya
- Date: 2017
- Subjects: Plant propagation Pelargoniums Plant cuttings
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/9832 , vital:35060
- Description: Rose-scented geranium (Pelargonium graveolens), is a high value essential oil plant that is used in the perfumery, cosmetic, aromatherapy and food flavouring industries. The increasing demand for this plant, due to its economic importance necessitates the development of an efficient propagation protocol for quality seedling and its maximum production. The present study therefore, sought to develop effective stem cutting propagation protocol which could facilitate multiplication of rose-scented geranium stem cuttings. Three separate experiments were undertaken to determine factors influencing effective propagation of rose-scented geranium. These factors were: rooting media, rooting hormone, cutting length and wound healing period on rooting and development of rose-scented geranium stem cuttings. The cuttings were assessed based on root number, length and fresh mass, plant height, leaf number, and stem circumference. In terms of root measurements, the growing media were washed out from the root system of plantlets, their roots were separated from stem before data was recorded which comprised of root number, length and root fresh mass. Root holding ability (RHA) on rooting medium was determined by visual observation and rated on a 1-5 scale where 1 = very loose, not acceptable; 2 = loose, not acceptable; 3 = medium, marginally acceptable; 4 = tight, acceptable; 5 = very tight, acceptable. The experiments were carried out at Essential Amatole Nursery, at the University of Fort Hare Research Farm, Alice Campus (located at 320 47ʹ3ʺS, 260 50ʹ43ʺ E, with an altitude of 519 m.a.s.l). All the experiments were carried out under mist conditions on bottom-heated beds in a greenhouse (with polycarbonate roofing of about 40percent shading effect) for the first three weeks after sticking the cuttings to the growing medium to facilitate root induction in relatively high temperature and relative humidity. Thereafter, the plantlets were grown in a shade house with 70percent light penetration until the termination of the experiment. To optimize the technology for the propagation of this plant the present experiment was designed with the objective to determine the efficient growing medium and proper rooting hormone for successful rooting and development of quality seedlings of rose-scented geranium. The experiment was set up in a complete randomized design (CRD) and was replicated three times with two factors 7×4, seven different growing media i.e. (1) Mixture growing medium which serves as control (pine bark 8 bags + sand 2 bags + lime 4kg + coconut 10 blocks + talborne 6.25 kg + bone meal 2 kg); (2) River sand only; (3) Pine bark; (4) Hygrotex (commercial rooting media); (5) Pine bark + river sand ( at1:1 ratio on volume basis); (6) Pine bark + hygrotex (at 1:1, ratio on volume basis), and; (7) Pine bark + river sand + hygrotex ( at 1:1:1 ratio on volume basis) and four different IBA hormone levels (auxins, types of IBA) applied as treatment were (1) Dynaroot (1 – 1g/kg), (2) Dynaroot (2- 3g/kg), (3) Dynaroot (3-8g/kg) and (4) Control (untreated with hormone). Hygrotex was identified as the best growth media for quicker regeneration giving the highest root number, length and fresh mass. While, hygrotex + pine bark (v/v 1:1) was efficient in producing more leaves, stem circumference and other aerial parameters. Dynaroot 3 was identified as the best rooting enhancer with maximum root number, length, fresh weight and plant height. Both Dynaroot 3 and Dynaroot 2 did not have major differences on giving highest leaf number. Control (untreated with hormone) was consistent in giving the greatest stem circumference than any other treatment. To maximize stem circumference, a combination of control (untreated with hormone) and hygrotex + pine bark (v/v 1:1) was identified as the best treatment. Based on the investigation for maximum production and quality seedlings of rose-scented geranium, hygrotex and Dynaroot 3 were identified as the best combination for successful rooting. The ideal cutting stem length, rooting hormone and growing medium for quality seedlings of rose-scented geranium were also investigated. The experimental lay out was in randomized complete design (RCD) with a 4 × 4 × 2 factorial treatment combination. Treatments used were, four different cutting lengths viz. 10, 12, 14 and 16 cm long; four different concentrations of IBA rooting hormone (Dynaroot 1, 2, 3 (powder form) and distilled water (control) and two types of growing medium (hygrotex and hygrotex + pine bark v/v 1:1) were used. Stem cuttings of 14 and 16 cm length gave the highest root number of 34, 38 and 35.13, and root length of 3.40 and 3.51cm respectively, with no significance. Cutting length of 10 cm favoured stem circumference (3.1 cm) as compared to other treatments. Whereas, cuttings treated with Dynaroot 3 showed a better root number (33.46 roots), root length (3.54 cm), root fresh mass (0.59 mg), leaf number of (11.08) as well as highest root holding ability (5). However, they showed no significance difference with Dynaroot 2 treated cuttings. In addition, cuttings treated with Control favoured shoot number (3.79) and stem circumference (3.05). Visually, hygrotex was observed to be better substrate though it was not significantly different from hygrotex + pine bark (1:1 v/v) on propagation of rose-scented geranium stem cuttings. Therefore, it is recommended that rose-scented geranium should be propagated through the combination of 14 cm cuttings length and treated with Dynaroot 2 IBA rooting hormone. Both hygrotex and hygrotex + pine bark (1:1 v/v) are the best growing media for root formation and growth of rose-scented geranium, though hygrotex alone is more economical. Wound healing period (WHP) of stem cutting was evaluated using 4 × 4 factorial, cuttings were separated into four groups during the healing duration (intervals of 24 hrs: days 0, 1, 2 and 3). These four groups were further subdivided into four subgroups of rooting hormone viz. Dynaroot 1, 2, 3 of indole-3-butyric acid and control (water). Experiment was laid out in a randomised complete block design (RCBD) with three replicates. The results obtained from the study revealed that rose-scented geranium rooted easily when planted on Day 2 of the wound healing period such that root holding ability was at its highest. While, Day 0 cuttings showed good response for stem circumference and shoot number. The study recommends that rose-scented geranium be propagated using cuttings that have enough time to heal the wound that is, Day 2 cuttings. Dynaroot 3 (IBA hormone concentration) showed good response to rooting and other arial parameters except for stem circumference which was favoured by application of control. Based on the results of the study, it can be concluded that propagation of rose-scented geranium requires a wound healing period of about three days in room temperature and application of IBA hormone before sucking cuttings in growing medium. Instead, of Dynaroot 3 or 2, Dynaroot 1 can also be used because, it is less economical and they all have a similar effect on cuttings that have been healing for three days.
- Full Text:
- Date Issued: 2017
- Authors: Matafeni, Ntombekhaya
- Date: 2017
- Subjects: Plant propagation Pelargoniums Plant cuttings
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/9832 , vital:35060
- Description: Rose-scented geranium (Pelargonium graveolens), is a high value essential oil plant that is used in the perfumery, cosmetic, aromatherapy and food flavouring industries. The increasing demand for this plant, due to its economic importance necessitates the development of an efficient propagation protocol for quality seedling and its maximum production. The present study therefore, sought to develop effective stem cutting propagation protocol which could facilitate multiplication of rose-scented geranium stem cuttings. Three separate experiments were undertaken to determine factors influencing effective propagation of rose-scented geranium. These factors were: rooting media, rooting hormone, cutting length and wound healing period on rooting and development of rose-scented geranium stem cuttings. The cuttings were assessed based on root number, length and fresh mass, plant height, leaf number, and stem circumference. In terms of root measurements, the growing media were washed out from the root system of plantlets, their roots were separated from stem before data was recorded which comprised of root number, length and root fresh mass. Root holding ability (RHA) on rooting medium was determined by visual observation and rated on a 1-5 scale where 1 = very loose, not acceptable; 2 = loose, not acceptable; 3 = medium, marginally acceptable; 4 = tight, acceptable; 5 = very tight, acceptable. The experiments were carried out at Essential Amatole Nursery, at the University of Fort Hare Research Farm, Alice Campus (located at 320 47ʹ3ʺS, 260 50ʹ43ʺ E, with an altitude of 519 m.a.s.l). All the experiments were carried out under mist conditions on bottom-heated beds in a greenhouse (with polycarbonate roofing of about 40percent shading effect) for the first three weeks after sticking the cuttings to the growing medium to facilitate root induction in relatively high temperature and relative humidity. Thereafter, the plantlets were grown in a shade house with 70percent light penetration until the termination of the experiment. To optimize the technology for the propagation of this plant the present experiment was designed with the objective to determine the efficient growing medium and proper rooting hormone for successful rooting and development of quality seedlings of rose-scented geranium. The experiment was set up in a complete randomized design (CRD) and was replicated three times with two factors 7×4, seven different growing media i.e. (1) Mixture growing medium which serves as control (pine bark 8 bags + sand 2 bags + lime 4kg + coconut 10 blocks + talborne 6.25 kg + bone meal 2 kg); (2) River sand only; (3) Pine bark; (4) Hygrotex (commercial rooting media); (5) Pine bark + river sand ( at1:1 ratio on volume basis); (6) Pine bark + hygrotex (at 1:1, ratio on volume basis), and; (7) Pine bark + river sand + hygrotex ( at 1:1:1 ratio on volume basis) and four different IBA hormone levels (auxins, types of IBA) applied as treatment were (1) Dynaroot (1 – 1g/kg), (2) Dynaroot (2- 3g/kg), (3) Dynaroot (3-8g/kg) and (4) Control (untreated with hormone). Hygrotex was identified as the best growth media for quicker regeneration giving the highest root number, length and fresh mass. While, hygrotex + pine bark (v/v 1:1) was efficient in producing more leaves, stem circumference and other aerial parameters. Dynaroot 3 was identified as the best rooting enhancer with maximum root number, length, fresh weight and plant height. Both Dynaroot 3 and Dynaroot 2 did not have major differences on giving highest leaf number. Control (untreated with hormone) was consistent in giving the greatest stem circumference than any other treatment. To maximize stem circumference, a combination of control (untreated with hormone) and hygrotex + pine bark (v/v 1:1) was identified as the best treatment. Based on the investigation for maximum production and quality seedlings of rose-scented geranium, hygrotex and Dynaroot 3 were identified as the best combination for successful rooting. The ideal cutting stem length, rooting hormone and growing medium for quality seedlings of rose-scented geranium were also investigated. The experimental lay out was in randomized complete design (RCD) with a 4 × 4 × 2 factorial treatment combination. Treatments used were, four different cutting lengths viz. 10, 12, 14 and 16 cm long; four different concentrations of IBA rooting hormone (Dynaroot 1, 2, 3 (powder form) and distilled water (control) and two types of growing medium (hygrotex and hygrotex + pine bark v/v 1:1) were used. Stem cuttings of 14 and 16 cm length gave the highest root number of 34, 38 and 35.13, and root length of 3.40 and 3.51cm respectively, with no significance. Cutting length of 10 cm favoured stem circumference (3.1 cm) as compared to other treatments. Whereas, cuttings treated with Dynaroot 3 showed a better root number (33.46 roots), root length (3.54 cm), root fresh mass (0.59 mg), leaf number of (11.08) as well as highest root holding ability (5). However, they showed no significance difference with Dynaroot 2 treated cuttings. In addition, cuttings treated with Control favoured shoot number (3.79) and stem circumference (3.05). Visually, hygrotex was observed to be better substrate though it was not significantly different from hygrotex + pine bark (1:1 v/v) on propagation of rose-scented geranium stem cuttings. Therefore, it is recommended that rose-scented geranium should be propagated through the combination of 14 cm cuttings length and treated with Dynaroot 2 IBA rooting hormone. Both hygrotex and hygrotex + pine bark (1:1 v/v) are the best growing media for root formation and growth of rose-scented geranium, though hygrotex alone is more economical. Wound healing period (WHP) of stem cutting was evaluated using 4 × 4 factorial, cuttings were separated into four groups during the healing duration (intervals of 24 hrs: days 0, 1, 2 and 3). These four groups were further subdivided into four subgroups of rooting hormone viz. Dynaroot 1, 2, 3 of indole-3-butyric acid and control (water). Experiment was laid out in a randomised complete block design (RCBD) with three replicates. The results obtained from the study revealed that rose-scented geranium rooted easily when planted on Day 2 of the wound healing period such that root holding ability was at its highest. While, Day 0 cuttings showed good response for stem circumference and shoot number. The study recommends that rose-scented geranium be propagated using cuttings that have enough time to heal the wound that is, Day 2 cuttings. Dynaroot 3 (IBA hormone concentration) showed good response to rooting and other arial parameters except for stem circumference which was favoured by application of control. Based on the results of the study, it can be concluded that propagation of rose-scented geranium requires a wound healing period of about three days in room temperature and application of IBA hormone before sucking cuttings in growing medium. Instead, of Dynaroot 3 or 2, Dynaroot 1 can also be used because, it is less economical and they all have a similar effect on cuttings that have been healing for three days.
- Full Text:
- Date Issued: 2017
Stochastic models in finance
- Authors: Mazengera, Hassan
- Date: 2017
- Subjects: Finance -- Mathematical models , C++ (Computer program language) , GARCH model , Lebesgue-Radon-Nikodym theorems , Radon measures , Stochastic models , Stochastic processes , Stochastic processes -- Computer programs , Martingales (Mathematics) , Pricing -- Mathematical models
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/162724 , vital:40976
- Description: Stochastic models for pricing financial securities are developed. First, we consider the Black Scholes model, which is a classic example of a complete market model and finally focus on Lévy driven models. Jumps may render the market incomplete and are induced in a model by inclusion of a Poisson process. Lévy driven models are more realistic in modelling of asset price dynamics than the Black Scholes model. Martingales are central in pricing, especially of derivatives and we give them the desired attention in the context of pricing. There are an increasing number of important pricing models where analytical solutions are not available hence computational methods come in handy, see Broadie and Glasserman (1997). It is also important to note that computational methods are also applicable to models with analytical solutions. We computationally value selected stochastic financial models using C++. Computational methods are also used to value or price complex financial instruments such as path dependent derivatives. This pricing procedure is applied in the computational valuation of a stochastic (revenue based) loan contract. Derivatives with simple pay of functions and models with analytical solutions are considered for illustrative purposes. The Black-Scholes P.D.E is complex to solve analytically and finite difference methods are widely used. Explicit finite difference scheme is considered in this thesis for computational valuation of derivatives that are modelled by the Black-Scholes P.D.E. Stochastic modelling of asset prices is important for the valuation of derivatives: Gaussian, exponential and gamma variates are simulated for the valuation purposes.
- Full Text:
- Date Issued: 2017
- Authors: Mazengera, Hassan
- Date: 2017
- Subjects: Finance -- Mathematical models , C++ (Computer program language) , GARCH model , Lebesgue-Radon-Nikodym theorems , Radon measures , Stochastic models , Stochastic processes , Stochastic processes -- Computer programs , Martingales (Mathematics) , Pricing -- Mathematical models
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/162724 , vital:40976
- Description: Stochastic models for pricing financial securities are developed. First, we consider the Black Scholes model, which is a classic example of a complete market model and finally focus on Lévy driven models. Jumps may render the market incomplete and are induced in a model by inclusion of a Poisson process. Lévy driven models are more realistic in modelling of asset price dynamics than the Black Scholes model. Martingales are central in pricing, especially of derivatives and we give them the desired attention in the context of pricing. There are an increasing number of important pricing models where analytical solutions are not available hence computational methods come in handy, see Broadie and Glasserman (1997). It is also important to note that computational methods are also applicable to models with analytical solutions. We computationally value selected stochastic financial models using C++. Computational methods are also used to value or price complex financial instruments such as path dependent derivatives. This pricing procedure is applied in the computational valuation of a stochastic (revenue based) loan contract. Derivatives with simple pay of functions and models with analytical solutions are considered for illustrative purposes. The Black-Scholes P.D.E is complex to solve analytically and finite difference methods are widely used. Explicit finite difference scheme is considered in this thesis for computational valuation of derivatives that are modelled by the Black-Scholes P.D.E. Stochastic modelling of asset prices is important for the valuation of derivatives: Gaussian, exponential and gamma variates are simulated for the valuation purposes.
- Full Text:
- Date Issued: 2017
Structural analysis of proteases from South African HIV-1 (subtype C) patients undergoing Lopinavir treatment, using comparative modeling, ligand-docking and molecular dynamics
- Authors: Sheik-Amamuddy, Olivier
- Date: 2017
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/4931 , vital:20744
- Description: HIV is regarded as one of the most devastating infectious diseases of the last few decades, and has a high prevalence in South Africa, subtype C being the most common. Palliative measures used to fight HIV involve the use various types of inhibitors, including the use of HIV protease inhibitors. Representatives from this class of inhibitors are gradually losing their efficacy due to development of resistance mutations from HIV-1. In this study, compounds from the South African Natural Compound Database (SANCDB) were screened against HIV-1 protease models generated from protease protein sequences belonging to 11 South African HIV patients before and after treatment with Lopinavir. The effect of Lopinavir on the alteration of drug-binding affinity before and after treatment is investigated by molecular docking of the protease against other FDA-approved drugs and detection of mutation types using the HIVdb tool. A network representation of hydrogen bonding between docked ligands and their receptor proteases has been developed and a profiling method of visualizing receptor-ligand docking energies at the local level is presented. Four potential HIV-1 protease inhibitors were identified from the list of 599 natural compounds on the basis of receptor conformation and binding free energy. Ligand stabilities were monitored by 20ns molecular dynamics runs using the GROMACS software.
- Full Text:
- Date Issued: 2017
- Authors: Sheik-Amamuddy, Olivier
- Date: 2017
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/4931 , vital:20744
- Description: HIV is regarded as one of the most devastating infectious diseases of the last few decades, and has a high prevalence in South Africa, subtype C being the most common. Palliative measures used to fight HIV involve the use various types of inhibitors, including the use of HIV protease inhibitors. Representatives from this class of inhibitors are gradually losing their efficacy due to development of resistance mutations from HIV-1. In this study, compounds from the South African Natural Compound Database (SANCDB) were screened against HIV-1 protease models generated from protease protein sequences belonging to 11 South African HIV patients before and after treatment with Lopinavir. The effect of Lopinavir on the alteration of drug-binding affinity before and after treatment is investigated by molecular docking of the protease against other FDA-approved drugs and detection of mutation types using the HIVdb tool. A network representation of hydrogen bonding between docked ligands and their receptor proteases has been developed and a profiling method of visualizing receptor-ligand docking energies at the local level is presented. Four potential HIV-1 protease inhibitors were identified from the list of 599 natural compounds on the basis of receptor conformation and binding free energy. Ligand stabilities were monitored by 20ns molecular dynamics runs using the GROMACS software.
- Full Text:
- Date Issued: 2017
Synthesis and bioassay of rationally designed DXR inhibitors as potential antimalarial lead compounds
- Authors: Nokalipa, Iviwe Cwaita
- Date: 2017
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/4888 , vital:20740
- Description: Globally, the eradication of malaria has been challenging due to the problem of resistance that past and currently available drugs exhibit. This is exacerbated by the inherent need for anti-malarial drugs to be affordable to the poverty-stricken majority that is primarily affected by this burden. This research has focused on the development of potential inhibitors of 1-deoxy-D- xylulose-5 phosphate reductoisomerase (DXR), an essential enzyme in the mevalonate- independent pathway for the biosynthesis of isoprenoids in Plasmodium falciparum. DXR mediates the isomerisation and reduction of 1-deoxy-D-xylulose-5-phosphate into 2-C- methyl-D-erithrytol 4-phosphate. This enzyme has been determined to be a target for the development of novel antimalarial agents and extensive molecular modelling has been undertaken to develop inhibitors that fit into the DXR active site. The in silico docking data have been used to inform the design and synthesis of various N-benzyl-substituted phosphoramidate ligands that were determined to have potential as novel substrate mimics of fosmidomycin, a known DXR inhibitor. Synthesis of the N-benzyl-substituted phosphoramidate ligands involved a nine-step sequence commencing from diethyl phosphoramidate. In all, some 40 compounds have been prepared, some of them new, and were fully characterized using NMR. Attention has also been given to the mass spectrometric fragmentation patterns exhibited by selected intermediates. Four of the final products were evaluated for in vitro antimalarial activity using a PLDH assay and exhibited IC50 values < 100 µM.
- Full Text:
- Date Issued: 2017
- Authors: Nokalipa, Iviwe Cwaita
- Date: 2017
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/4888 , vital:20740
- Description: Globally, the eradication of malaria has been challenging due to the problem of resistance that past and currently available drugs exhibit. This is exacerbated by the inherent need for anti-malarial drugs to be affordable to the poverty-stricken majority that is primarily affected by this burden. This research has focused on the development of potential inhibitors of 1-deoxy-D- xylulose-5 phosphate reductoisomerase (DXR), an essential enzyme in the mevalonate- independent pathway for the biosynthesis of isoprenoids in Plasmodium falciparum. DXR mediates the isomerisation and reduction of 1-deoxy-D-xylulose-5-phosphate into 2-C- methyl-D-erithrytol 4-phosphate. This enzyme has been determined to be a target for the development of novel antimalarial agents and extensive molecular modelling has been undertaken to develop inhibitors that fit into the DXR active site. The in silico docking data have been used to inform the design and synthesis of various N-benzyl-substituted phosphoramidate ligands that were determined to have potential as novel substrate mimics of fosmidomycin, a known DXR inhibitor. Synthesis of the N-benzyl-substituted phosphoramidate ligands involved a nine-step sequence commencing from diethyl phosphoramidate. In all, some 40 compounds have been prepared, some of them new, and were fully characterized using NMR. Attention has also been given to the mass spectrometric fragmentation patterns exhibited by selected intermediates. Four of the final products were evaluated for in vitro antimalarial activity using a PLDH assay and exhibited IC50 values < 100 µM.
- Full Text:
- Date Issued: 2017
Synthesis and characterization of CdSe quantum dots for solar cell application
- Authors: Makinana, Sinovuyo
- Date: 2017
- Subjects: Quantum dots Quantum dots -- Optical properties Renewable energy sources
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/5994 , vital:29466
- Description: This study shows a detailed report on the morphological, structural and optical properties of CdSe QDs synthesised by the hot injection method. Cadmium acetate dihydrate and Se powder were used as cadmium and selenide precursors, respectively. Various QD sizes were achieved by synthesizing in temperature range of 150ºC, 175ºC, 200ºC, 225ºC, 250ºC, 275ºC and 300ºC, respectively. The as synthesized QDs by the hot injection method were cross-examined for their morphological, structural and optical using HRTEM, FTIR, XRD, RS, and UV-Vis spectroscopy techniques respectively. FTIR analysis has revealed vibrations at 738, 738, 738, 738, 735, 735 and 733 cm-1 for the QDs synthesized at various temperatures of 150, 175, 200, 225, 250, 275, and 300℃, respectively. The presence of the above mentioned peaks confirms the presence of Cd-Se bond in our samples. XRD analysis of CdSe QDs revealed diffraction peaks at 2 angles of 16.66 , 25.20 , 34.77 , 40.9 , 45.39 and 49.1 for 150 17.4 , 25.22 , 34.85 , 41.7 , 44.45 and 47.5 for the QDs synthesized at various temperatures of 175 17.07 , 25.19 , 34.85 , 41.34 , 44.41 and 48.86 for 200 ; 16.34 , 25.20 , 34.76 , 40.6 , 44.74 and 49.48 for 225 ; 17.44 , 25.17 , 34.19 , 41.7 , 44.45 , 49.24 for 250 ; 16.70 , 25.16 , 34.85 , 40.32 , 45.1 and 49.1 7 for 275 ;and 17.35 , 25.18 , 35.13 , 41.63 , 45.7 , 49.48 for 300 . These XRD peaks relate to crystal planes of (100), (002), (102), (220), (103) and (112) which belong to hexagonal Wurtzite CdSe crystal structure. Additionally XRD analysis has revealed a general peak shift to higher 2 values was observed for CdSe QDs. HRTEM analysis showed that the synthesised CdSe QDs have a spherical shape and are monodispersed. Moreover, HRTEM analysis has revealed CdSe QDs modal crystallite size of 1.79 nm, 1.81 nm, 2.06 nm, 2.08 nm, 2.11 nm, 3.10 nm and 3.12 nm for the QDs synthesized at various temperatures of 150ºC, 175ºC, 200ºC, 225ºC, 250ºC, 275ºC and 300ºC, respectively. HRTEM results were in mutual agreement with XRD results. Additionally, the SAED images showed intense electron diffraction rings, which confirmed that the as-synthesised CdSe QDs have a Wurtzite crystal structure. RS analysis showed that CdSe QDs have LO and 2LO vibrational modes which are characteristic peaks for CdSe. The presence of these peaks in Raman spectra further supports our previous observation from XRD analysis and HRTEM analysis that the synthesized CdSe QDs have a Wurtzite crystal structure. The effect of synthesis temperature Raman peak shift, FHWH and peak intensity has been cross examined in this work, Moreover, the effect of increasing temperature on the peak shift, FWHM and peak intensity is discussed in detail below. UV-Vis analysis revealed an absorbance of CdSe QDs in higher wavelengths as temperature was increased. Furthermore, the Yu et al 2003 relation was used to calculate QD size and band gap energy of CdSe QDs. The results showed that QD size increases with increasing synthesis temperature, which is in agreement with HRTEM and XRD results.
- Full Text:
- Date Issued: 2017
- Authors: Makinana, Sinovuyo
- Date: 2017
- Subjects: Quantum dots Quantum dots -- Optical properties Renewable energy sources
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/5994 , vital:29466
- Description: This study shows a detailed report on the morphological, structural and optical properties of CdSe QDs synthesised by the hot injection method. Cadmium acetate dihydrate and Se powder were used as cadmium and selenide precursors, respectively. Various QD sizes were achieved by synthesizing in temperature range of 150ºC, 175ºC, 200ºC, 225ºC, 250ºC, 275ºC and 300ºC, respectively. The as synthesized QDs by the hot injection method were cross-examined for their morphological, structural and optical using HRTEM, FTIR, XRD, RS, and UV-Vis spectroscopy techniques respectively. FTIR analysis has revealed vibrations at 738, 738, 738, 738, 735, 735 and 733 cm-1 for the QDs synthesized at various temperatures of 150, 175, 200, 225, 250, 275, and 300℃, respectively. The presence of the above mentioned peaks confirms the presence of Cd-Se bond in our samples. XRD analysis of CdSe QDs revealed diffraction peaks at 2 angles of 16.66 , 25.20 , 34.77 , 40.9 , 45.39 and 49.1 for 150 17.4 , 25.22 , 34.85 , 41.7 , 44.45 and 47.5 for the QDs synthesized at various temperatures of 175 17.07 , 25.19 , 34.85 , 41.34 , 44.41 and 48.86 for 200 ; 16.34 , 25.20 , 34.76 , 40.6 , 44.74 and 49.48 for 225 ; 17.44 , 25.17 , 34.19 , 41.7 , 44.45 , 49.24 for 250 ; 16.70 , 25.16 , 34.85 , 40.32 , 45.1 and 49.1 7 for 275 ;and 17.35 , 25.18 , 35.13 , 41.63 , 45.7 , 49.48 for 300 . These XRD peaks relate to crystal planes of (100), (002), (102), (220), (103) and (112) which belong to hexagonal Wurtzite CdSe crystal structure. Additionally XRD analysis has revealed a general peak shift to higher 2 values was observed for CdSe QDs. HRTEM analysis showed that the synthesised CdSe QDs have a spherical shape and are monodispersed. Moreover, HRTEM analysis has revealed CdSe QDs modal crystallite size of 1.79 nm, 1.81 nm, 2.06 nm, 2.08 nm, 2.11 nm, 3.10 nm and 3.12 nm for the QDs synthesized at various temperatures of 150ºC, 175ºC, 200ºC, 225ºC, 250ºC, 275ºC and 300ºC, respectively. HRTEM results were in mutual agreement with XRD results. Additionally, the SAED images showed intense electron diffraction rings, which confirmed that the as-synthesised CdSe QDs have a Wurtzite crystal structure. RS analysis showed that CdSe QDs have LO and 2LO vibrational modes which are characteristic peaks for CdSe. The presence of these peaks in Raman spectra further supports our previous observation from XRD analysis and HRTEM analysis that the synthesized CdSe QDs have a Wurtzite crystal structure. The effect of synthesis temperature Raman peak shift, FHWH and peak intensity has been cross examined in this work, Moreover, the effect of increasing temperature on the peak shift, FWHM and peak intensity is discussed in detail below. UV-Vis analysis revealed an absorbance of CdSe QDs in higher wavelengths as temperature was increased. Furthermore, the Yu et al 2003 relation was used to calculate QD size and band gap energy of CdSe QDs. The results showed that QD size increases with increasing synthesis temperature, which is in agreement with HRTEM and XRD results.
- Full Text:
- Date Issued: 2017