A Systematic Visualisation Framework for Radio-Imaging Pipelines
- Authors: Andati, Lexy Acherwa Livoyi
- Date: 2021-04
- Subjects: Radio interferometers , Radio astronomy -- Data processing , Radio astronomy -- Data processing -- Software , Jupyter
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177338 , vital:42812
- Description: Pipelines for calibration and imaging of radio interferometric data produce many intermediate images and other data products (gain tables, etc.) These often contain valuable information about the quality of the data and the calibration, and can provide the user with valuable insights, if only visualised in the right way. However, the deluge of data that we’re experiencing with modern instruments means that most of these products are never looked at, and only the final images and data products are examined. Furthermore, the variety of imaging algorithms currently available, and the range of their options, means that very different results can be produced from the same set of original data. Proper understanding of this requires a systematic comparison that can be carried out both by individual users locally, and by the community globally. We address both problems by developing a systematic visualisation framework based around Jupyter notebooks, enriched with interactive plots based on the Bokeh and Datashader visualisation libraries. , Thesis (MSc) -- Faculty of Science, Department of Physics and Electronics, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Andati, Lexy Acherwa Livoyi
- Date: 2021-04
- Subjects: Radio interferometers , Radio astronomy -- Data processing , Radio astronomy -- Data processing -- Software , Jupyter
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177338 , vital:42812
- Description: Pipelines for calibration and imaging of radio interferometric data produce many intermediate images and other data products (gain tables, etc.) These often contain valuable information about the quality of the data and the calibration, and can provide the user with valuable insights, if only visualised in the right way. However, the deluge of data that we’re experiencing with modern instruments means that most of these products are never looked at, and only the final images and data products are examined. Furthermore, the variety of imaging algorithms currently available, and the range of their options, means that very different results can be produced from the same set of original data. Proper understanding of this requires a systematic comparison that can be carried out both by individual users locally, and by the community globally. We address both problems by developing a systematic visualisation framework based around Jupyter notebooks, enriched with interactive plots based on the Bokeh and Datashader visualisation libraries. , Thesis (MSc) -- Faculty of Science, Department of Physics and Electronics, 2021
- Full Text:
- Date Issued: 2021-04
A study of four-dimensional oscillator groups and the associated left-invariant control affine systems
- Authors: Biggs, Rory
- Date: 2012
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/164941 , vital:41186
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Department of Mathematics, 2012
- Full Text:
- Date Issued: 2012
- Authors: Biggs, Rory
- Date: 2012
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/164941 , vital:41186
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Department of Mathematics, 2012
- Full Text:
- Date Issued: 2012
The physical activity levels and preferences of South African breast cancer survivors : a pilot study
- Authors: Campbell, Belinda Claire
- Date: 2021-04
- Subjects: Breast -- Cancer , Cancer -- Patients -- South Africa , Cancer -- Patients -- Rehabilitation , Exercise -- Health aspects , Godin leisure-time activity questionnaire (GLTPAQ) , International Physical Activity Questionnaire (IPAQ)
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177748 , vital:42855
- Description: Introduction: Breast cancer is currently the most commonly diagnosed cancer in South African women. Physical activity has proven to have preventative, treatment and management benefits for breast cancer and other cancers and exercise has been found as both viable and safe during cancer treatment and recovery. However, there is limited research on breast cancer and the levels and preferences of physical activity and sedentary behaviour in a South African context. Therefore, the purpose of this study was to identify levels of physical activity and sedentary behaviour of South African breast cancer survivors and to investigate the physical activity advice and participation preferences of these participants. Methods: A cross-sectional research design was implemented to identify the physical activity, sedentary behaviour levels and exercise preferences of 48 South African breast cancer survivors (age range 45 years). An online survey comprising demographic and anthropometric questions, the Godin leisure-time activity questionnaire (GLTPAQ), the International Physical Activity Questionnaire (IPAQ) and an exercise preference questionnaire was presented to participating breast cancer survivors in order to i) identify the levels of physical activity and sedentary behaviour engaged in, ii) obtain demographic and anthropometric information and iii) identify exercise preferences. A linear mixed model regression was used to examine potential associations between demographic and anthropometric variables and physical activity levels. Chi-squared and Pearson’s Product-Moment correlation tests were used to identify relationships between categorical and numerical variables. A correlation matrix was generated to further explore any correlations. Statistical significance for all measures was set at p<0.05. Results: The mean age of the group was 49 ± 9.87 years. The most common time since diagnosis was <5 years ago and the most common stage of breast cancer was stage I. The mean BMI was 27.87 ± 5.53kg/m2. The most common treatment combination was surgery with either chemotherapy or radiation. According to the leisure score index (LSI) the majority of the group (56%) was active and according to IPAQ data 60% were meeting physical activity guidelines. The highest physical activity levels were seen in the average weekly minutes of moderate-intensity activity, and there was a strong, non-significant positive correlation (p>0.05, R2 = 0.95) between moderate-intensity physical activity and total physical activity levels. High levels of weekly sedentary behaviour and sitting time (302.60 ± 169.96 minutes) were reported. A weak, non-significant, positive correlation was found between total sedentary time and BMI (p>0.05, R2 = 0.1). A weak, non-significant, negative correlation was found between age and sedentary time (p>0.05, R2 = 0.002). More participants below 50 years were insufficiently active compared to above the age of 50 years. 1.7 to 2.6 years since diagnosis saw the greatest number of insufficiently active survivors and the category over 2.6 years since diagnosis saw the most active survivors. Most breast cancer survivors (71.10% & 82.05%) indicated being interested in and feeling capable of participating in an exercise programme (p>0.05, R2 = 0.72). The favoured preference for receiving physical activity advice was face-to-face with an exercise specialist at a cancer centre before treatment. Participation preferences included starting a programme immediately after treatment, in a home-based setting with one or two other people, where walking and a moderate exercise intensity were the preferred exercise type and level of intensity. Data collection occurred both immediately prior to (42% of participants) and during (56% of participants) the South African Covid-19 lockdown, so the results should be seen in light of this context. Conclusion: The current study is one of the first to explore physical activity rates and preferences of South African breast cancer survivors. As a group and individually these survivors were meeting public physical activity guidelines and engaging in the recommended weekly minutes. The high sitting time coupled with the high overweight and obesity levels highlight the need for positive behavioural changes including improved levels of physical activity and reduced sedentary behaviour. These changes need involvement from the numerous levels of society that affect health. Broad physical activity guidelines need to be developed not only to improve physical activity levels in breast cancer survivors but to work as a preventative measure by facilitating physical activity promotion in the general population. The findings of this study demonstrate that this group of South African breast cancer survivors is open to physical activity advice, to programmes and to improving physical activity levels. , Thesis (MSc) -- Faculty of Science, Human Kinetics and Ergonomics, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Campbell, Belinda Claire
- Date: 2021-04
- Subjects: Breast -- Cancer , Cancer -- Patients -- South Africa , Cancer -- Patients -- Rehabilitation , Exercise -- Health aspects , Godin leisure-time activity questionnaire (GLTPAQ) , International Physical Activity Questionnaire (IPAQ)
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177748 , vital:42855
- Description: Introduction: Breast cancer is currently the most commonly diagnosed cancer in South African women. Physical activity has proven to have preventative, treatment and management benefits for breast cancer and other cancers and exercise has been found as both viable and safe during cancer treatment and recovery. However, there is limited research on breast cancer and the levels and preferences of physical activity and sedentary behaviour in a South African context. Therefore, the purpose of this study was to identify levels of physical activity and sedentary behaviour of South African breast cancer survivors and to investigate the physical activity advice and participation preferences of these participants. Methods: A cross-sectional research design was implemented to identify the physical activity, sedentary behaviour levels and exercise preferences of 48 South African breast cancer survivors (age range 45 years). An online survey comprising demographic and anthropometric questions, the Godin leisure-time activity questionnaire (GLTPAQ), the International Physical Activity Questionnaire (IPAQ) and an exercise preference questionnaire was presented to participating breast cancer survivors in order to i) identify the levels of physical activity and sedentary behaviour engaged in, ii) obtain demographic and anthropometric information and iii) identify exercise preferences. A linear mixed model regression was used to examine potential associations between demographic and anthropometric variables and physical activity levels. Chi-squared and Pearson’s Product-Moment correlation tests were used to identify relationships between categorical and numerical variables. A correlation matrix was generated to further explore any correlations. Statistical significance for all measures was set at p<0.05. Results: The mean age of the group was 49 ± 9.87 years. The most common time since diagnosis was <5 years ago and the most common stage of breast cancer was stage I. The mean BMI was 27.87 ± 5.53kg/m2. The most common treatment combination was surgery with either chemotherapy or radiation. According to the leisure score index (LSI) the majority of the group (56%) was active and according to IPAQ data 60% were meeting physical activity guidelines. The highest physical activity levels were seen in the average weekly minutes of moderate-intensity activity, and there was a strong, non-significant positive correlation (p>0.05, R2 = 0.95) between moderate-intensity physical activity and total physical activity levels. High levels of weekly sedentary behaviour and sitting time (302.60 ± 169.96 minutes) were reported. A weak, non-significant, positive correlation was found between total sedentary time and BMI (p>0.05, R2 = 0.1). A weak, non-significant, negative correlation was found between age and sedentary time (p>0.05, R2 = 0.002). More participants below 50 years were insufficiently active compared to above the age of 50 years. 1.7 to 2.6 years since diagnosis saw the greatest number of insufficiently active survivors and the category over 2.6 years since diagnosis saw the most active survivors. Most breast cancer survivors (71.10% & 82.05%) indicated being interested in and feeling capable of participating in an exercise programme (p>0.05, R2 = 0.72). The favoured preference for receiving physical activity advice was face-to-face with an exercise specialist at a cancer centre before treatment. Participation preferences included starting a programme immediately after treatment, in a home-based setting with one or two other people, where walking and a moderate exercise intensity were the preferred exercise type and level of intensity. Data collection occurred both immediately prior to (42% of participants) and during (56% of participants) the South African Covid-19 lockdown, so the results should be seen in light of this context. Conclusion: The current study is one of the first to explore physical activity rates and preferences of South African breast cancer survivors. As a group and individually these survivors were meeting public physical activity guidelines and engaging in the recommended weekly minutes. The high sitting time coupled with the high overweight and obesity levels highlight the need for positive behavioural changes including improved levels of physical activity and reduced sedentary behaviour. These changes need involvement from the numerous levels of society that affect health. Broad physical activity guidelines need to be developed not only to improve physical activity levels in breast cancer survivors but to work as a preventative measure by facilitating physical activity promotion in the general population. The findings of this study demonstrate that this group of South African breast cancer survivors is open to physical activity advice, to programmes and to improving physical activity levels. , Thesis (MSc) -- Faculty of Science, Human Kinetics and Ergonomics, 2021
- Full Text:
- Date Issued: 2021-04
An exploratory investigation into an Integrated Vulnerability and Patch Management Framework
- Authors: Carstens, Duane
- Date: 2021-04
- Subjects: Computer security , Computer security -- Management , Computer networks -- Security measures , Patch Management , Integrated Vulnerability
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177940 , vital:42892
- Description: In the rapidly changing world of cybersecurity, the constant increase of vulnerabilities continues to be a prevalent issue for many organisations. Malicious actors are aware that most organisations cannot timeously patch known vulnerabilities and are ill-prepared to protect against newly created vulnerabilities where a signature or an available patch has not yet been created. Consequently, information security personnel face ongoing challenges to mitigate these risks. In this research, the problem of remediation in a world of increasing vulnerabilities is considered. The current paradigm of vulnerability and patch management is reviewed using a pragmatic approach to all associated variables of these services / practices and, as a result, what is working and what is not working in terms of remediation is understood. In addition to the analysis, a taxonomy is created to provide a graphical representation of all associated variables to vulnerability and patch management based on existing literature. Frameworks currently being utilised in the industry to create an effective engagement model between vulnerability and patch management services are considered. The link between quantifying a threat, vulnerability and consequence; what Microsoft has available for patching; and the action plan for resulting vulnerabilities is explored. Furthermore, the processes and means of communication between each of these services are investigated to ensure there is effective remediation of vulnerabilities, ultimately improving the security risk posture of an organisation. In order to effectively measure the security risk posture, progress is measured between each of these services through a single averaged measurement metric. The outcome of the research highlights influencing factors that impact successful vulnerability management, in line with identified themes from the research taxonomy. These influencing factors are however significantly undermined due to resources within the same organisations not having a clear and consistent understanding of their role, organisational capabilities and objectives for effective vulnerability and patch management within their organisations. , Thesis (MSc) -- Faculty of Science, Computer Science, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Carstens, Duane
- Date: 2021-04
- Subjects: Computer security , Computer security -- Management , Computer networks -- Security measures , Patch Management , Integrated Vulnerability
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177940 , vital:42892
- Description: In the rapidly changing world of cybersecurity, the constant increase of vulnerabilities continues to be a prevalent issue for many organisations. Malicious actors are aware that most organisations cannot timeously patch known vulnerabilities and are ill-prepared to protect against newly created vulnerabilities where a signature or an available patch has not yet been created. Consequently, information security personnel face ongoing challenges to mitigate these risks. In this research, the problem of remediation in a world of increasing vulnerabilities is considered. The current paradigm of vulnerability and patch management is reviewed using a pragmatic approach to all associated variables of these services / practices and, as a result, what is working and what is not working in terms of remediation is understood. In addition to the analysis, a taxonomy is created to provide a graphical representation of all associated variables to vulnerability and patch management based on existing literature. Frameworks currently being utilised in the industry to create an effective engagement model between vulnerability and patch management services are considered. The link between quantifying a threat, vulnerability and consequence; what Microsoft has available for patching; and the action plan for resulting vulnerabilities is explored. Furthermore, the processes and means of communication between each of these services are investigated to ensure there is effective remediation of vulnerabilities, ultimately improving the security risk posture of an organisation. In order to effectively measure the security risk posture, progress is measured between each of these services through a single averaged measurement metric. The outcome of the research highlights influencing factors that impact successful vulnerability management, in line with identified themes from the research taxonomy. These influencing factors are however significantly undermined due to resources within the same organisations not having a clear and consistent understanding of their role, organisational capabilities and objectives for effective vulnerability and patch management within their organisations. , Thesis (MSc) -- Faculty of Science, Computer Science, 2021
- Full Text:
- Date Issued: 2021-04
Observations of cosmic re-ionisation with the Hydrogen Epoch of Reionization Array: simulations of closure phase spectra
- Authors: Charles, Ntsikelelo
- Date: 2021-04
- Subjects: Epoch of reionization , Space interferometry , Astronomy -- Observations , Closure phase spectra
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/174470 , vital:42480
- Description: The 21 cm transition from neutral Hydrogen promises to be the best observational probe of the Epoch of Reionisation. It has driven the construction of the new generation of low frequency radio interferometric arrays, including the Hydrogen Epoch of Reionization Array (HERA). The main difficulty in measuring the 21 cm signal is the presence of bright foregrounds that require very accurate interferometric calibration. Thyagarajan et al. (2018) proposed the use of closure phase quantities as a means to detect the 21 cm signal, which has the advantage of being independent (to first order) from calibration errors and therefore, bypasses the need for accurate calibration. Closure phases are, however, affected by so-called direction dependent effects, e.g. the fact that the dishes - or antennas - of an interferometric array are not identical to each other and , therefore, yield different antenna primary beam responses. In this thesis, we investigate the impact of direction dependent effects on closure quantities and simulate the impact that primary antenna beams affected by mutual coupling have on the foreground closure phase and its power spectrum i.e. the power spectrum of the bispectrum phase (Thyagarajan et al., 2020). Our simulations show that primary beams affected by mutual coupling lead to an overall leakage of foreground power in the so-called EoR window, i.e. power from smooth-spectrum foregrounds is confined to low k modes. We quantified this effect and found that the leakage is up to ~ 8 orders magnitude higher than the case of an ideal beam at kǁ > 0:5 h Mpc-1. We also found that the foreground leakage is worse when edge antennas are included, as they have a more different primary beam compared to antennas at the centre of the array. The leakage magnitude is worse when bright foregrounds appear in the antenna sidelobes, as expected. Our simulations provide a useful framework to interpret observations and assess which power spectrum region is expected to be most contaminated by foreground power leakage.
- Full Text:
- Date Issued: 2021-04
- Authors: Charles, Ntsikelelo
- Date: 2021-04
- Subjects: Epoch of reionization , Space interferometry , Astronomy -- Observations , Closure phase spectra
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/174470 , vital:42480
- Description: The 21 cm transition from neutral Hydrogen promises to be the best observational probe of the Epoch of Reionisation. It has driven the construction of the new generation of low frequency radio interferometric arrays, including the Hydrogen Epoch of Reionization Array (HERA). The main difficulty in measuring the 21 cm signal is the presence of bright foregrounds that require very accurate interferometric calibration. Thyagarajan et al. (2018) proposed the use of closure phase quantities as a means to detect the 21 cm signal, which has the advantage of being independent (to first order) from calibration errors and therefore, bypasses the need for accurate calibration. Closure phases are, however, affected by so-called direction dependent effects, e.g. the fact that the dishes - or antennas - of an interferometric array are not identical to each other and , therefore, yield different antenna primary beam responses. In this thesis, we investigate the impact of direction dependent effects on closure quantities and simulate the impact that primary antenna beams affected by mutual coupling have on the foreground closure phase and its power spectrum i.e. the power spectrum of the bispectrum phase (Thyagarajan et al., 2020). Our simulations show that primary beams affected by mutual coupling lead to an overall leakage of foreground power in the so-called EoR window, i.e. power from smooth-spectrum foregrounds is confined to low k modes. We quantified this effect and found that the leakage is up to ~ 8 orders magnitude higher than the case of an ideal beam at kǁ > 0:5 h Mpc-1. We also found that the foreground leakage is worse when edge antennas are included, as they have a more different primary beam compared to antennas at the centre of the array. The leakage magnitude is worse when bright foregrounds appear in the antenna sidelobes, as expected. Our simulations provide a useful framework to interpret observations and assess which power spectrum region is expected to be most contaminated by foreground power leakage.
- Full Text:
- Date Issued: 2021-04
An investigation into the application of Distributed Endpoint Processing to 3D Immersive Audio Rendering
- Authors: Devonport, Robin Sean
- Date: 2020
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/163258 , vital:41022
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Computer Science, 2020.
- Full Text:
- Date Issued: 2020
- Authors: Devonport, Robin Sean
- Date: 2020
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/163258 , vital:41022
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Computer Science, 2020.
- Full Text:
- Date Issued: 2020
Development and characterisation of ciprofloxacin hydrochloride solid lipid nanoparticles for ocular delivery
- Authors: Dhege, Clarence
- Date: 2021-04
- Subjects: To be added
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/178446 , vital:42940
- Description: Access restricted until April 2023. , Thesis (MSc) -- Faculty of Pharmacy, Pharmacy, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Dhege, Clarence
- Date: 2021-04
- Subjects: To be added
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/178446 , vital:42940
- Description: Access restricted until April 2023. , Thesis (MSc) -- Faculty of Pharmacy, Pharmacy, 2021
- Full Text:
- Date Issued: 2021-04
Constraining the role of carbonate assimilation on spinel stability in oxide ores of the Flatreef, Bushveld Complex, South Africa
- Authors: Dyan, Siyasanga
- Date: 2021-04
- Subjects: Oxide minerals -- South Africa -- Bushveld Complex , Transvaal Supergroup (South Africa) , Magmas -- South Africa -- Bushveld Complex , Petrogenesis -- South Africa -- Bushveld Complex , Spinel group – South Africa -- South Africa -- Bushveld Complex , Dolomite -- South Africa -- Bushveld Complex
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/174578 , vital:42490
- Description: The northern limb of the Bushveld Complex shows significant evidence for footwall rock- magma interaction, as a result of the emplacement of magmas onto the Transvaal Supergroup sediments. The Platreef of the northern limb is known to have involved extensive contamination of the magma. The lateral extension of the Platreef, the Flatreef, is less contaminated and comprises PGE-mineralization and thick chromitite layers. This enables successful stratigraphic correlation to the Upper Critical Zone of the eastern and western limbs of the Bushveld Complex. This study aims at addressing the influence of dolomitic floor rock contamination on the formation of spinels of the Flatreef and how they may differ to their occurrences in the Bushveld Complex elsewhere. Three main drill cores (UMT-345, UMT-335, and UMT-094) from the deep drilling program by Ivanhoe Mine, north of Turfspruit, were logged and sampled. The drill cores contained rocks contaminated by dolomite in varying degrees, depending on the proportion of carbonate xenoliths present. A total of sixty-two samples were obtained from the UG-2- equivalent chromitite seam, down into the hybrid contaminated units (Footwall Assimilation Zone; FAZ). Petrographic examination of the drill cores revealed that the feldspathic pyroxenite and chromitite layers are the most pristine lithologies in the Flatreef. The chromitite layers occur as a semi-massive to massive ores. The FAZ rocks are mainly dominated by the abundance of Al-rich Cr-spinels (Mg#30-80), clinopyroxenes with a high Ca-Tschermak component (up to 35 mol.%), olivines (Fo72-84), and plagioclase (An31-78). Geochemical characteristics of the feldspathic pyroxenite and chromitite seams include low CaO/Al2O3 and Ca/SiO2 ratios, the low abundance of REE and HFSE. In contrast, the FAZ samples display high CaO/Al2O3 and CaO/SiO2 ratios, suggesting mobilization of CaO-rich fluids derived from the associated dolomite xenoliths. Observations from lithostratigraphic element profiles indicate spikes in CaO within FAZ units relative to the feldspathic pyroxene, indicating a secondary source of CaO linked to proximity to carbonate xenoliths intersected in the core. The assimilation-fractional crystallization model performed with the Upper Critical Zone parental melt and dolomite produced assemblages dominated by spinel, olivine, clinopyroxene, and plagioclase, relating to those of the most contaminated rocks of footwall assimilation zones. The model also showed that large quantities of CO2 were produced during assimilation. High amounts of CO2-fluids mobilized in the melt would have interacted with the melt and increased the overall oxidation conditions. Oxygen fugacity (ƒO2) values were constrained from the spinels in the FAZ and chromites in chromitite seams. Spinels within the most contaminated rocks of the FAZ recorded relatively high ƒO2 values ranging between NNO-0.2 and NNO+1.8 (relative to the Nickel-Nickel-Oxide buffer. High ƒO2 values in spinels from the FAZ suggest that the melt interacted with greater amounts of oxidative CO2-fluids during decarbonation reactions. Such high redox conditions could have triggered the saturation and crystallization of spinels. Comparison of mineral compositions and ƒO2 of UG-2 chromites from the Flatreef with UG-2 from the eastern limb, western limb, chromitites from the Platreef and Uitkomst Complex reveal that Flatreef chromites are of most similar to those of the Platreef Uitkosmt Complex. The northern limb and Uitkomst Complex chromites have high ƒO2 values (NNO+0.3 to NNO+1.2), indicating their apparent link to the Malmani dolomite. Interaction of magma with the Malmani dolomite would have produced high quantities of CO2, triggering an increase in oxidizing conditions. Such an effect is most prominent in the Flatreef chromitites that are in contact with the FAZ. The chromites are characterised by high ƒO2 (NNO+1.2) and distinct compositions (low Cr2O3, high Fe3+/Fetotal, and TiO2). Thus, it is proposed that carbonate assimilation in the Flatreef triggered the precipitation of these distinctive chromites proximal to FAZ, due to liberation of substantial amounts of CO2-rich fluids with a highly oxidative capacity. Carbonate assimilation in layered intrusions can be used as a monitor potential precipitation of chromites. , Thesis (MSc)--Rhodes University, Faculty of Science, Department of Geology, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Dyan, Siyasanga
- Date: 2021-04
- Subjects: Oxide minerals -- South Africa -- Bushveld Complex , Transvaal Supergroup (South Africa) , Magmas -- South Africa -- Bushveld Complex , Petrogenesis -- South Africa -- Bushveld Complex , Spinel group – South Africa -- South Africa -- Bushveld Complex , Dolomite -- South Africa -- Bushveld Complex
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/174578 , vital:42490
- Description: The northern limb of the Bushveld Complex shows significant evidence for footwall rock- magma interaction, as a result of the emplacement of magmas onto the Transvaal Supergroup sediments. The Platreef of the northern limb is known to have involved extensive contamination of the magma. The lateral extension of the Platreef, the Flatreef, is less contaminated and comprises PGE-mineralization and thick chromitite layers. This enables successful stratigraphic correlation to the Upper Critical Zone of the eastern and western limbs of the Bushveld Complex. This study aims at addressing the influence of dolomitic floor rock contamination on the formation of spinels of the Flatreef and how they may differ to their occurrences in the Bushveld Complex elsewhere. Three main drill cores (UMT-345, UMT-335, and UMT-094) from the deep drilling program by Ivanhoe Mine, north of Turfspruit, were logged and sampled. The drill cores contained rocks contaminated by dolomite in varying degrees, depending on the proportion of carbonate xenoliths present. A total of sixty-two samples were obtained from the UG-2- equivalent chromitite seam, down into the hybrid contaminated units (Footwall Assimilation Zone; FAZ). Petrographic examination of the drill cores revealed that the feldspathic pyroxenite and chromitite layers are the most pristine lithologies in the Flatreef. The chromitite layers occur as a semi-massive to massive ores. The FAZ rocks are mainly dominated by the abundance of Al-rich Cr-spinels (Mg#30-80), clinopyroxenes with a high Ca-Tschermak component (up to 35 mol.%), olivines (Fo72-84), and plagioclase (An31-78). Geochemical characteristics of the feldspathic pyroxenite and chromitite seams include low CaO/Al2O3 and Ca/SiO2 ratios, the low abundance of REE and HFSE. In contrast, the FAZ samples display high CaO/Al2O3 and CaO/SiO2 ratios, suggesting mobilization of CaO-rich fluids derived from the associated dolomite xenoliths. Observations from lithostratigraphic element profiles indicate spikes in CaO within FAZ units relative to the feldspathic pyroxene, indicating a secondary source of CaO linked to proximity to carbonate xenoliths intersected in the core. The assimilation-fractional crystallization model performed with the Upper Critical Zone parental melt and dolomite produced assemblages dominated by spinel, olivine, clinopyroxene, and plagioclase, relating to those of the most contaminated rocks of footwall assimilation zones. The model also showed that large quantities of CO2 were produced during assimilation. High amounts of CO2-fluids mobilized in the melt would have interacted with the melt and increased the overall oxidation conditions. Oxygen fugacity (ƒO2) values were constrained from the spinels in the FAZ and chromites in chromitite seams. Spinels within the most contaminated rocks of the FAZ recorded relatively high ƒO2 values ranging between NNO-0.2 and NNO+1.8 (relative to the Nickel-Nickel-Oxide buffer. High ƒO2 values in spinels from the FAZ suggest that the melt interacted with greater amounts of oxidative CO2-fluids during decarbonation reactions. Such high redox conditions could have triggered the saturation and crystallization of spinels. Comparison of mineral compositions and ƒO2 of UG-2 chromites from the Flatreef with UG-2 from the eastern limb, western limb, chromitites from the Platreef and Uitkomst Complex reveal that Flatreef chromites are of most similar to those of the Platreef Uitkosmt Complex. The northern limb and Uitkomst Complex chromites have high ƒO2 values (NNO+0.3 to NNO+1.2), indicating their apparent link to the Malmani dolomite. Interaction of magma with the Malmani dolomite would have produced high quantities of CO2, triggering an increase in oxidizing conditions. Such an effect is most prominent in the Flatreef chromitites that are in contact with the FAZ. The chromites are characterised by high ƒO2 (NNO+1.2) and distinct compositions (low Cr2O3, high Fe3+/Fetotal, and TiO2). Thus, it is proposed that carbonate assimilation in the Flatreef triggered the precipitation of these distinctive chromites proximal to FAZ, due to liberation of substantial amounts of CO2-rich fluids with a highly oxidative capacity. Carbonate assimilation in layered intrusions can be used as a monitor potential precipitation of chromites. , Thesis (MSc)--Rhodes University, Faculty of Science, Department of Geology, 2021
- Full Text:
- Date Issued: 2021-04
Development of a low-cost bioprinting system for engineering of Human Tumour Models
- Authors: Fanucci, Sidne
- Date: 2020
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/163295 , vital:41026
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Biotechnology Innovation Centre, 2020.
- Full Text:
- Date Issued: 2020
- Authors: Fanucci, Sidne
- Date: 2020
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/163295 , vital:41026
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Biotechnology Innovation Centre, 2020.
- Full Text:
- Date Issued: 2020
Investigating the relationship between Heat Shock Proteins and HIV Transactivator of Transcription
- Authors: Flax, Lili Marie
- Date: 2020
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/163307 , vital:41027
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Biochemistry and Microbiology, 2020.
- Full Text:
- Date Issued: 2020
- Authors: Flax, Lili Marie
- Date: 2020
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/163307 , vital:41027
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Biochemistry and Microbiology, 2020.
- Full Text:
- Date Issued: 2020
In silico identification of selective novel hits against the active site of wild type mycobacterium tuberculosis pyrazinamidase and its mutants
- Authors: Gowo, Prudence
- Date: 2021-04
- Subjects: Mycobacterium tuberculosis , Pyrazinamide , Multidrug resistance , Antitubercular agents , Molecular dynamics , Hydrogen bonding , Ligand binding (Biochemistry) , Dynamic Residue Network
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/178007 , vital:42898
- Description: The World Health Organization declared Tuberculosis a global health emergency and has set a goal to eradicate it by 2035. However, effective treatment and control of the disease is being hindered by the emerging Multi-Drug Resistant and Extensively Drug Resistant strains on the most effective first line prodrug, Pyrazinamide (PZA). Studies have shown that the main cause of PZA resistance is due to mutations in the pncA gene that codes for the target protein Pyrazinamidase (PZase). Therefore, this study aimed to identify novel drug compounds that bind to the active site of wild type PZase and study the dynamics of these potential anti-TB drugs in the mutant systems of PZase. This approach will aid in identifying drugs that may be repurposed for TB therapy and/or designed to counteract PZA resistance. This was achieved by screening 2089 DrugBank compounds against the whole wild type (WT) PZase protein in molecular docking using AutoDOCK4.2. Compound screening based on docking binding energy, hydrogen bonds, molecular weight and active site proximity identified 47 compounds meeting all the set selection criteria. The stability of these compounds were analysed in Molecular Dynamic (MD) simulations and were further studied in PZase mutant systems of A3P, A134V, A146V, D8G, D49A, D49G, D63G, H51P, H137R, L85R, L116R, Q10P, R140S, T61P, V139M and Y103S. Generally, mutant-ligand systems displayed little deviation from the WT systems. The compound systems remained compact, with less fluctuations and more hydrogen bond interactions throughout the simulation (DB00255, DB00655, DB00672, DB00782, DB00977, DB01196, DB04573, DB06414, DB08981, DB11181, DB11760, DB13867, DB13952). From this research study, potential drugs that may be repurposed for TB therapy were identified. Majority of these drugs are currently used in the treatment of hypertension, menopause disorders and inflammation. To further understand the mutant-ligand dynamic systems, calculations such as Dynamic Residue Network (DRN) may be done. Also, the bioactivity of these drugs on Mycobacterium tuberculosis may be studied in wet laboratory, to understand their clinical impart in vivo experiments. , Thesis (MSc) -- Faculty of Science, Biochemistry and Microbiology, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Gowo, Prudence
- Date: 2021-04
- Subjects: Mycobacterium tuberculosis , Pyrazinamide , Multidrug resistance , Antitubercular agents , Molecular dynamics , Hydrogen bonding , Ligand binding (Biochemistry) , Dynamic Residue Network
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/178007 , vital:42898
- Description: The World Health Organization declared Tuberculosis a global health emergency and has set a goal to eradicate it by 2035. However, effective treatment and control of the disease is being hindered by the emerging Multi-Drug Resistant and Extensively Drug Resistant strains on the most effective first line prodrug, Pyrazinamide (PZA). Studies have shown that the main cause of PZA resistance is due to mutations in the pncA gene that codes for the target protein Pyrazinamidase (PZase). Therefore, this study aimed to identify novel drug compounds that bind to the active site of wild type PZase and study the dynamics of these potential anti-TB drugs in the mutant systems of PZase. This approach will aid in identifying drugs that may be repurposed for TB therapy and/or designed to counteract PZA resistance. This was achieved by screening 2089 DrugBank compounds against the whole wild type (WT) PZase protein in molecular docking using AutoDOCK4.2. Compound screening based on docking binding energy, hydrogen bonds, molecular weight and active site proximity identified 47 compounds meeting all the set selection criteria. The stability of these compounds were analysed in Molecular Dynamic (MD) simulations and were further studied in PZase mutant systems of A3P, A134V, A146V, D8G, D49A, D49G, D63G, H51P, H137R, L85R, L116R, Q10P, R140S, T61P, V139M and Y103S. Generally, mutant-ligand systems displayed little deviation from the WT systems. The compound systems remained compact, with less fluctuations and more hydrogen bond interactions throughout the simulation (DB00255, DB00655, DB00672, DB00782, DB00977, DB01196, DB04573, DB06414, DB08981, DB11181, DB11760, DB13867, DB13952). From this research study, potential drugs that may be repurposed for TB therapy were identified. Majority of these drugs are currently used in the treatment of hypertension, menopause disorders and inflammation. To further understand the mutant-ligand dynamic systems, calculations such as Dynamic Residue Network (DRN) may be done. Also, the bioactivity of these drugs on Mycobacterium tuberculosis may be studied in wet laboratory, to understand their clinical impart in vivo experiments. , Thesis (MSc) -- Faculty of Science, Biochemistry and Microbiology, 2021
- Full Text:
- Date Issued: 2021-04
Analysis of the regulation of HSP90α expression upon differentiation of C2C12 cells
- Authors: Holm, Nathan Christopher
- Date: 2020
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/163318 , vital:41028
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Biochemistry and Microbiology, 2020.
- Full Text:
- Date Issued: 2020
- Authors: Holm, Nathan Christopher
- Date: 2020
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/163318 , vital:41028
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Biochemistry and Microbiology, 2020.
- Full Text:
- Date Issued: 2020
Selection for improved virulence of Cryptophlebia peltastica nucleopolyhedrovirus (CrpeNPV) to False Codling Moth, Thaumatotibia leucotreta, by serial passage through a heterologous host
- Authors: Iita, Petrus Paulus
- Date: 2021-04
- Subjects: Cryptophlebia leucotreta -- Biological control , Biological pest control agents , Citrus -- Diseases and pests , Baculoviruses , Cryptophlebia peltastica nucleopolyhedrovirus (CrpeNPV)
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/178180 , vital:42918
- Description: The false codling moth (FCM), Thaumatotibia leucotreta (Meyrick) (Lepidoptera: Tortricidae) is endemic to southern Africa, and strongly associated with citrus. As South African citrus production is mainly for export to foreign markets, the market access risk due to the phytosanitary status of this pest is considerable and its control is therefore imperative. Various control measures as part of a rigorous integrated pest management (IPM) programme targeted against T. leucotreta have been effective at suppressing the pest in citrus, but there is still a growing need for continued improvement of the programme and augmentation of the available control options. Of these control options, biological control, particularly the use of Cryptophlebia leucotreta granulovirus (CrleGV-SA), is a key component of IPM in citrus orchards and it has been very successful at reducing T. leucotreta populations in the field for almost two decades. There is however, a growing need for more baculovirus variants with an improved virulence against T. leucotreta for a more efficient pest management system. The newly identified insect virus, Cryptophlebia peltastica nucleopolyhedrovirus (CrpeNPV) offers a unique opportunity for an additional biopesticide in IPM for control of T. leucotreta in the field. This study aimed to conduct serial passaging of CrpeNPV through a heterologous host, T. leucotreta, in order to determine the potential for improved virulence or speed of kill against it. In order to select for a variant of CrpeNPV with improved virulence against T. leucotreta, a high dose (LC90) of the virus OBs was used to perform 12 serial passages through T. leucotreta larvae in surface-dose bioassays. Whole genome sequencing and analysis of the passaged virus, along with restriction endonuclease profiling in silico was performed to determine if the genetic identity of the virus had changed during serial passage, in relation to the original virus. These analyses indicated that the dominant genotype of CrpeNPV was maintained following 12 serial passages through the heterologous host. The biological activity of the passaged virus, along with the original virus was evaluated against neonate T. leucotreta in surface-dose bioassays and compared. Results from dose-response bioassays showed that the virulence of CrpeNPV did not improve after 12 serial passages. The LC50 values of the passaged virus and the original virus were estimated at 1.96 × 104 and 1.58 × 104 OBs/ml, respectively, whereas the LC90 values were estimated at 3.46 × 104 OBs/ml for the passaged virus and 3.68 × 104 for the original virus. Similarly, the results from time-response bioassays showed that the speed of kill of CrpeNPV did not improve after 12 serial passages. The LT50 values of the passaged virus and the original virus were 88.44 hours (3 days and 16 hours) and 83.74 hours (3 days and 12 hours), respectively, whereas the LT90 values were 115 hours (4 days 19 hours) for the passaged virus and 102 hours (4 days 6 hours) for the original virus. The virulence and speed of kill of the passaged virus decreased significantly, in relation to the original virus. When the full genome of the passaged virus was sequenced and analysed, only a few SNPs were detected in the viral genome, in comparison to the original virus. No detectable difference in REN digestion patterns were observed following REN analysis of gDNA of the passaged virus with several restriction enzymes in silico. The results for this study suggest that CrpeNPV may already be optimally suited to the heterologous host as it persists under these conditions without significant changes to the genome. These results have positive implications for the genetic integrity of CrpeNPV as a potential biocontrol agent in the field. This study is the first to report the virulence selection of CrpeNPV by serial passage through a heterologous host, and also the first to record bioassay data in terms of dose response (or lethal concentration) against T. leucotreta second instars. The data obtained have added to the knowledge about interactions between CrpeNPV and its heterologous host, and may be fundamental to continued investigation into the effect of serial passage on pathogenicity and genetic diversity of CrpeNPV. , Thesis (MSc) -- Faculty of Science, Biochemistry and Microbiology, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Iita, Petrus Paulus
- Date: 2021-04
- Subjects: Cryptophlebia leucotreta -- Biological control , Biological pest control agents , Citrus -- Diseases and pests , Baculoviruses , Cryptophlebia peltastica nucleopolyhedrovirus (CrpeNPV)
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/178180 , vital:42918
- Description: The false codling moth (FCM), Thaumatotibia leucotreta (Meyrick) (Lepidoptera: Tortricidae) is endemic to southern Africa, and strongly associated with citrus. As South African citrus production is mainly for export to foreign markets, the market access risk due to the phytosanitary status of this pest is considerable and its control is therefore imperative. Various control measures as part of a rigorous integrated pest management (IPM) programme targeted against T. leucotreta have been effective at suppressing the pest in citrus, but there is still a growing need for continued improvement of the programme and augmentation of the available control options. Of these control options, biological control, particularly the use of Cryptophlebia leucotreta granulovirus (CrleGV-SA), is a key component of IPM in citrus orchards and it has been very successful at reducing T. leucotreta populations in the field for almost two decades. There is however, a growing need for more baculovirus variants with an improved virulence against T. leucotreta for a more efficient pest management system. The newly identified insect virus, Cryptophlebia peltastica nucleopolyhedrovirus (CrpeNPV) offers a unique opportunity for an additional biopesticide in IPM for control of T. leucotreta in the field. This study aimed to conduct serial passaging of CrpeNPV through a heterologous host, T. leucotreta, in order to determine the potential for improved virulence or speed of kill against it. In order to select for a variant of CrpeNPV with improved virulence against T. leucotreta, a high dose (LC90) of the virus OBs was used to perform 12 serial passages through T. leucotreta larvae in surface-dose bioassays. Whole genome sequencing and analysis of the passaged virus, along with restriction endonuclease profiling in silico was performed to determine if the genetic identity of the virus had changed during serial passage, in relation to the original virus. These analyses indicated that the dominant genotype of CrpeNPV was maintained following 12 serial passages through the heterologous host. The biological activity of the passaged virus, along with the original virus was evaluated against neonate T. leucotreta in surface-dose bioassays and compared. Results from dose-response bioassays showed that the virulence of CrpeNPV did not improve after 12 serial passages. The LC50 values of the passaged virus and the original virus were estimated at 1.96 × 104 and 1.58 × 104 OBs/ml, respectively, whereas the LC90 values were estimated at 3.46 × 104 OBs/ml for the passaged virus and 3.68 × 104 for the original virus. Similarly, the results from time-response bioassays showed that the speed of kill of CrpeNPV did not improve after 12 serial passages. The LT50 values of the passaged virus and the original virus were 88.44 hours (3 days and 16 hours) and 83.74 hours (3 days and 12 hours), respectively, whereas the LT90 values were 115 hours (4 days 19 hours) for the passaged virus and 102 hours (4 days 6 hours) for the original virus. The virulence and speed of kill of the passaged virus decreased significantly, in relation to the original virus. When the full genome of the passaged virus was sequenced and analysed, only a few SNPs were detected in the viral genome, in comparison to the original virus. No detectable difference in REN digestion patterns were observed following REN analysis of gDNA of the passaged virus with several restriction enzymes in silico. The results for this study suggest that CrpeNPV may already be optimally suited to the heterologous host as it persists under these conditions without significant changes to the genome. These results have positive implications for the genetic integrity of CrpeNPV as a potential biocontrol agent in the field. This study is the first to report the virulence selection of CrpeNPV by serial passage through a heterologous host, and also the first to record bioassay data in terms of dose response (or lethal concentration) against T. leucotreta second instars. The data obtained have added to the knowledge about interactions between CrpeNPV and its heterologous host, and may be fundamental to continued investigation into the effect of serial passage on pathogenicity and genetic diversity of CrpeNPV. , Thesis (MSc) -- Faculty of Science, Biochemistry and Microbiology, 2021
- Full Text:
- Date Issued: 2021-04
Physical activity, physical fitness, sedentary behaviour and screen time profiles of primary school children in a school within the Makana Municipality, Eastern Cape, South Africa
- Authors: Kade, Andréa Gaby
- Date: 2021-04
- Subjects: Sedentary behavior in children -- South Africa -- Makana Municipality , Physical fitness for children -- South Africa -- Makana Municipality , Exercise -- Physiological aspects , Exercise -- Health aspects , Diabetes -- Risk factors , Heart -- Diseases -- Risk factors
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177282 , vital:42806
- Description: There is a lack of data on the physical activity, physical fitness and sedentary behaviour of children in South Africa. Furthermore chronic diseases such as type II diabetes and coronary heart disease have been linked to childhood inactivity, and improving cardiorespiratory fitness and increasing levels of physical activity has been shown to be beneficial in reducing the risk of such diseases. In South Africa more broadly there is a lack of information on levels of physical activity and sedentary behaviour as well as physical fitness measures particularly in children. Objective: The purpose of this study was to enhance the existing body of knowledge on this, by measuring the prevalence of physical inactivity, sedentary behaviour and screen time of primary school children in a private school from the Makana Municipal region in the Eastern Cape Province of South Africa, where the evidence is most sparse. A secondary aim was to assess levels of physical fitness in this cohort, as well as to compare across grades and sexes. Method: After ethical approval was granted, stature and body mass measurements were taken and body mass index was computed for primary school children (Grade one to seven) from a private school in the Makana Municipality. Sitting stature was measured in order to determine each child’s peak height velocity and maturity offset. Five different physical fitness tests were conducted on the children and blood pressure and heart rate values were measured at rest. Physical activity and screen time questionnaires were completed by the children’s parents for a seven day period. Results: Females were found to mature faster than males. In addition females were more physically active (Females= 916 min/week; Males= 669 min/week) while also accumulating more sedentary time (Females= 1241 min/week; Males= 970 min/week) as compared to males, although no significant differences were found between males and females for these variables. The sample participated in more than 60 minutes of moderate-to-vigorous physical activity and less than two hours of screen time daily, which is in accordance with guidelines. No differences were found between grades and sexes for accumulated screen time. Strength increased significantly with grade and age, and there were also statistical differences between the sexes for all three strength measures with males being stronger than females. Females were more flexible than males and no statistical differences were found between sexes for the shuttle run test. Blood pressure correlated positively with mass, as did all the strength measures as well as maturity offset. No correlations were found between screen time and all other variables. A negative relationship was recorded between screen time and physical activity, although not significant. For females a strong positive correlation was found between sedentary behaviour and physical activity. Conclusion: The study was successful in adding to the body of knowledge regarding the prevalence of physical inactivity, sedentary behaviour and screen time within school children from the Makana Municipality in the Eastern Cape Province of South Africa. The sample was considered physically active as they accumulated on average more than 60 minutes of moderate-to-vigorous physical activity daily (Males= 96 min/day; Females 130 min/day), which is in accordance with guidelines recommended by the World Health Organization (World Health Organization, 2018). The sample accumulated more sedentary behaviour than physical activity, although not significant. Screen time was below regulations of two hours daily, indicating this population participated in more non screen related sedentary behaviour. More research is needed into the risks presented with different forms of sedentary behaviour. Physical fitness increased with increasing grade and age and males were considerably more fit. The current study did not present any concern with regards to the effects of increased physical activity and fitness levels within school aged children. More research into the current levels of physical activity, physical fitness and sedentary behaviour of school aged children in South Africa in general, and in the Eastern Cape Province, is needed. , Thesis (MSc) -- Faculty of Science, Human Kinetics and Ergonomics, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Kade, Andréa Gaby
- Date: 2021-04
- Subjects: Sedentary behavior in children -- South Africa -- Makana Municipality , Physical fitness for children -- South Africa -- Makana Municipality , Exercise -- Physiological aspects , Exercise -- Health aspects , Diabetes -- Risk factors , Heart -- Diseases -- Risk factors
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177282 , vital:42806
- Description: There is a lack of data on the physical activity, physical fitness and sedentary behaviour of children in South Africa. Furthermore chronic diseases such as type II diabetes and coronary heart disease have been linked to childhood inactivity, and improving cardiorespiratory fitness and increasing levels of physical activity has been shown to be beneficial in reducing the risk of such diseases. In South Africa more broadly there is a lack of information on levels of physical activity and sedentary behaviour as well as physical fitness measures particularly in children. Objective: The purpose of this study was to enhance the existing body of knowledge on this, by measuring the prevalence of physical inactivity, sedentary behaviour and screen time of primary school children in a private school from the Makana Municipal region in the Eastern Cape Province of South Africa, where the evidence is most sparse. A secondary aim was to assess levels of physical fitness in this cohort, as well as to compare across grades and sexes. Method: After ethical approval was granted, stature and body mass measurements were taken and body mass index was computed for primary school children (Grade one to seven) from a private school in the Makana Municipality. Sitting stature was measured in order to determine each child’s peak height velocity and maturity offset. Five different physical fitness tests were conducted on the children and blood pressure and heart rate values were measured at rest. Physical activity and screen time questionnaires were completed by the children’s parents for a seven day period. Results: Females were found to mature faster than males. In addition females were more physically active (Females= 916 min/week; Males= 669 min/week) while also accumulating more sedentary time (Females= 1241 min/week; Males= 970 min/week) as compared to males, although no significant differences were found between males and females for these variables. The sample participated in more than 60 minutes of moderate-to-vigorous physical activity and less than two hours of screen time daily, which is in accordance with guidelines. No differences were found between grades and sexes for accumulated screen time. Strength increased significantly with grade and age, and there were also statistical differences between the sexes for all three strength measures with males being stronger than females. Females were more flexible than males and no statistical differences were found between sexes for the shuttle run test. Blood pressure correlated positively with mass, as did all the strength measures as well as maturity offset. No correlations were found between screen time and all other variables. A negative relationship was recorded between screen time and physical activity, although not significant. For females a strong positive correlation was found between sedentary behaviour and physical activity. Conclusion: The study was successful in adding to the body of knowledge regarding the prevalence of physical inactivity, sedentary behaviour and screen time within school children from the Makana Municipality in the Eastern Cape Province of South Africa. The sample was considered physically active as they accumulated on average more than 60 minutes of moderate-to-vigorous physical activity daily (Males= 96 min/day; Females 130 min/day), which is in accordance with guidelines recommended by the World Health Organization (World Health Organization, 2018). The sample accumulated more sedentary behaviour than physical activity, although not significant. Screen time was below regulations of two hours daily, indicating this population participated in more non screen related sedentary behaviour. More research is needed into the risks presented with different forms of sedentary behaviour. Physical fitness increased with increasing grade and age and males were considerably more fit. The current study did not present any concern with regards to the effects of increased physical activity and fitness levels within school aged children. More research into the current levels of physical activity, physical fitness and sedentary behaviour of school aged children in South Africa in general, and in the Eastern Cape Province, is needed. , Thesis (MSc) -- Faculty of Science, Human Kinetics and Ergonomics, 2021
- Full Text:
- Date Issued: 2021-04
Exploration of challenges in bringing traditional medicine into SA’s healthcare system, using medicinal plants for treatment of waterborne diarrhoeal diseases as a case study
- Authors: Keche, Priscilla
- Date: 2019
- Subjects: Traditional medicine -- South Africa , Waterborne infection -- South Africa , Diarrhea -- South Africa , Healers -- South Africa , Medical care -- Quality control , Medicinal plants -- South Africa , Diarrhea in children -- South Africa , World Health Organization
- Language: English
- Type: thesis , text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/118035 , vital:34588
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Biotechnology Innovation Centre (RUBIC), 2019.
- Full Text:
- Date Issued: 2019
- Authors: Keche, Priscilla
- Date: 2019
- Subjects: Traditional medicine -- South Africa , Waterborne infection -- South Africa , Diarrhea -- South Africa , Healers -- South Africa , Medical care -- Quality control , Medicinal plants -- South Africa , Diarrhea in children -- South Africa , World Health Organization
- Language: English
- Type: thesis , text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/118035 , vital:34588
- Description: Thesis (MSc)--Rhodes University, Faculty of Science, Biotechnology Innovation Centre (RUBIC), 2019.
- Full Text:
- Date Issued: 2019
An investigation into the current state of web based cryptominers and cryptojacking
- Authors: Len, Robert
- Date: 2021-04
- Subjects: Cryptocurrencies , Malware (Computer software) , Computer networks -- Security measures , Computer networks -- Monitoring , Cryptomining , Coinhive , Cryptojacking
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/178248 , vital:42924
- Description: The aim of this research was to conduct a review of the current state and extent of surreptitious crypto mining software and its prevalence as a means for income generation. Income is generated through the use of a viewer's browser to execute custom JavaScript code to mine cryptocurrencies such as Monero and Bitcoin. The research aimed to measure the prevalence of illicit mining scripts being utilised for “in-browser" cryptojacking while further analysing the ecosystems that support the cryptomining environment. The extent of the research covers aspects such as the content (or type) of the sites hosting malicious “in-browser" cryptomining software as well as the occurrences of currencies utilised in the cryptographic mining and the analysis of cryptographic mining code samples. This research aims to compare the results of previous work with the current state of affairs since the closure of Coinhive in March 2018. Coinhive were at the time the market leader in such web based mining services. Beyond the analysis of the prevalence of cryptomining on the web today, research into the methodologies and techniques used to detect and counteract cryptomining are also conducted. This includes the most recent developments in malicious JavaScript de-obfuscation as well as cryptomining signature creation and detection. Methodologies for heuristic JavaScript behaviour identification and subsequent identification of potential malicious out-liars are also included within the research of the countermeasure analysis. The research revealed that although no longer functional, Coinhive remained as the most prevalent script being used for “in-browser" cryptomining services. While remaining the most prevalent, there was however a significant decline in overall occurrences compared to when coinhive.com was operational. Analysis of the ecosystem hosting \in-browser" mining websites was found to be distributed both geographically as well as in terms of domain categorisations. , Thesis (MSc) -- Faculty of Science, Computer Science, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Len, Robert
- Date: 2021-04
- Subjects: Cryptocurrencies , Malware (Computer software) , Computer networks -- Security measures , Computer networks -- Monitoring , Cryptomining , Coinhive , Cryptojacking
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/178248 , vital:42924
- Description: The aim of this research was to conduct a review of the current state and extent of surreptitious crypto mining software and its prevalence as a means for income generation. Income is generated through the use of a viewer's browser to execute custom JavaScript code to mine cryptocurrencies such as Monero and Bitcoin. The research aimed to measure the prevalence of illicit mining scripts being utilised for “in-browser" cryptojacking while further analysing the ecosystems that support the cryptomining environment. The extent of the research covers aspects such as the content (or type) of the sites hosting malicious “in-browser" cryptomining software as well as the occurrences of currencies utilised in the cryptographic mining and the analysis of cryptographic mining code samples. This research aims to compare the results of previous work with the current state of affairs since the closure of Coinhive in March 2018. Coinhive were at the time the market leader in such web based mining services. Beyond the analysis of the prevalence of cryptomining on the web today, research into the methodologies and techniques used to detect and counteract cryptomining are also conducted. This includes the most recent developments in malicious JavaScript de-obfuscation as well as cryptomining signature creation and detection. Methodologies for heuristic JavaScript behaviour identification and subsequent identification of potential malicious out-liars are also included within the research of the countermeasure analysis. The research revealed that although no longer functional, Coinhive remained as the most prevalent script being used for “in-browser" cryptomining services. While remaining the most prevalent, there was however a significant decline in overall occurrences compared to when coinhive.com was operational. Analysis of the ecosystem hosting \in-browser" mining websites was found to be distributed both geographically as well as in terms of domain categorisations. , Thesis (MSc) -- Faculty of Science, Computer Science, 2021
- Full Text:
- Date Issued: 2021-04
Night-time gravity waves detected with multi-frequency airglow imager
- Authors: Machubeng, Karabo Pebane
- Date: 2021-04
- Subjects: Gravity waves , Airglow , Gravity waves -- Seasonal variations , All Sky Imager
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/178341 , vital:42931
- Description: This thesis shows the statistics of atmospheric gravity waves (AGWs) observed in the OI emission 557.7 nm at _97 km altitude using an all-sky imager based in Sutherland, South Africa (32.37_ S, 20.81_ E) in the year 2017. The wavelengths were determined using the propagation vector method, velocity was determined using the cross correlation of 1D FFT and the period was determined using the equation that relates wavelength and velocity. It was found that the horizontal wavelength in summer was almost evenly distributed between 10 and 40 km and for autumn, winter and spring were mostly between 10 and 30 km. The favoured speeds were between 40 and 50 m/s in autumn, as well as 30 and 50 m/s in summer, but the AGWs in winter had a bimodal speed distribution of 20 - 40 and 50 - 70 m/s. The majority of periods observed in all seasons were less than 20 minutes with a dominant peak of 5 - 10 minutes in autumn and spring. There was no favoured propagation direction for spring, but AGWs favoured a southeastward propagation in summer, and a southward propagation in autumn and winter. , Thesis (MSc) -- Faculty of Science, Physics and Electronics, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Machubeng, Karabo Pebane
- Date: 2021-04
- Subjects: Gravity waves , Airglow , Gravity waves -- Seasonal variations , All Sky Imager
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/178341 , vital:42931
- Description: This thesis shows the statistics of atmospheric gravity waves (AGWs) observed in the OI emission 557.7 nm at _97 km altitude using an all-sky imager based in Sutherland, South Africa (32.37_ S, 20.81_ E) in the year 2017. The wavelengths were determined using the propagation vector method, velocity was determined using the cross correlation of 1D FFT and the period was determined using the equation that relates wavelength and velocity. It was found that the horizontal wavelength in summer was almost evenly distributed between 10 and 40 km and for autumn, winter and spring were mostly between 10 and 30 km. The favoured speeds were between 40 and 50 m/s in autumn, as well as 30 and 50 m/s in summer, but the AGWs in winter had a bimodal speed distribution of 20 - 40 and 50 - 70 m/s. The majority of periods observed in all seasons were less than 20 minutes with a dominant peak of 5 - 10 minutes in autumn and spring. There was no favoured propagation direction for spring, but AGWs favoured a southeastward propagation in summer, and a southward propagation in autumn and winter. , Thesis (MSc) -- Faculty of Science, Physics and Electronics, 2021
- Full Text:
- Date Issued: 2021-04
Photodynamic antimicrobial chemotherapy against Staphylococcus aureus and Escherichia coli sensitized using indium (III) cationic porphyrins linked to core-shell magnetic nanoparticles
- Authors: Makola, Lekgowa Collen
- Date: 2021-04
- Subjects: Photochemotherapy , Photosensitizing compounds , Staphylococcus aureus , Escherichia coli , Indium , Porphyrins , Magnetic nanoparticles , Quaternize
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177225 , vital:42801
- Description: Photodynamic antimicrobial chemotherapy (PACT) is a well-known antimicrobial therapy technique used against multi-drug resistant pathogens. In this study, the syntheses, characterization, photophysicochemical properties, and the applications of symmetrically and asymmetrically substituted cationic indium (III) porphyrins linked to silver/copper ferrite core-shell (Ag/CuFe2O4) magnetic nanoparticles (MNPs) as potential photosensitizers for PACT are reported. The synthesized complexes include axially modified porphyrins quaternized through an axial ligand. All the asymmetrically substituted porphyrins were linked to the NPs via an ester bond and the symmetrically substituted porphyrins were linked (peripherally and /or axially) via self-assembly (Ag-S and/or Ag-N). The impact of axial modification, peripheral substituents, conjugation to the NPs, the number of positive charges, and the chain length of the alkyl halides quaternizing agents on PACT efficacy and photophysicochemical properties of porphyrins were studied. High singlet oxygen quantum yields and antimicrobial log reductions were observed. Lipophilicity and hydrophilicity of the porphyrins were also studies, where the complexes quaternized with methyl iodide showed relatively high hydrophilicity character. Upon in vitro PACT studies, the quaternized complexes were observed to have 0% viable colony, signifying their effectiveness. Moreover, the highest log reductions of 9.27 were observed against S. aureus and 9.58 were observed against E. coli. The findings from this work delineate that singlet oxygen generation alone is not a distinct factor on the PACT efficacy of the porphyrin complexes, since some of the complexes have practically the same singlet oxygen quantum but different PACT activity. However, other contributing factors including water solubility play a significant role. , Thesis (MSc) -- Faculty of Science, Department of Chemistry, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Makola, Lekgowa Collen
- Date: 2021-04
- Subjects: Photochemotherapy , Photosensitizing compounds , Staphylococcus aureus , Escherichia coli , Indium , Porphyrins , Magnetic nanoparticles , Quaternize
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177225 , vital:42801
- Description: Photodynamic antimicrobial chemotherapy (PACT) is a well-known antimicrobial therapy technique used against multi-drug resistant pathogens. In this study, the syntheses, characterization, photophysicochemical properties, and the applications of symmetrically and asymmetrically substituted cationic indium (III) porphyrins linked to silver/copper ferrite core-shell (Ag/CuFe2O4) magnetic nanoparticles (MNPs) as potential photosensitizers for PACT are reported. The synthesized complexes include axially modified porphyrins quaternized through an axial ligand. All the asymmetrically substituted porphyrins were linked to the NPs via an ester bond and the symmetrically substituted porphyrins were linked (peripherally and /or axially) via self-assembly (Ag-S and/or Ag-N). The impact of axial modification, peripheral substituents, conjugation to the NPs, the number of positive charges, and the chain length of the alkyl halides quaternizing agents on PACT efficacy and photophysicochemical properties of porphyrins were studied. High singlet oxygen quantum yields and antimicrobial log reductions were observed. Lipophilicity and hydrophilicity of the porphyrins were also studies, where the complexes quaternized with methyl iodide showed relatively high hydrophilicity character. Upon in vitro PACT studies, the quaternized complexes were observed to have 0% viable colony, signifying their effectiveness. Moreover, the highest log reductions of 9.27 were observed against S. aureus and 9.58 were observed against E. coli. The findings from this work delineate that singlet oxygen generation alone is not a distinct factor on the PACT efficacy of the porphyrin complexes, since some of the complexes have practically the same singlet oxygen quantum but different PACT activity. However, other contributing factors including water solubility play a significant role. , Thesis (MSc) -- Faculty of Science, Department of Chemistry, 2021
- Full Text:
- Date Issued: 2021-04
Development and assessment of a fixed dose combination of perindopril arginine and indapamide loaded microparticles
- Authors: Mandava, Tavonga Tyomai
- Date: 2020
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/164413 , vital:41116
- Description: Thesis (MSc)--Rhodes University, Faculty of Pharmacy, Pharmaceutics, 2020
- Full Text:
- Date Issued: 2020
- Authors: Mandava, Tavonga Tyomai
- Date: 2020
- Subjects: Uncatalogued
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/164413 , vital:41116
- Description: Thesis (MSc)--Rhodes University, Faculty of Pharmacy, Pharmaceutics, 2020
- Full Text:
- Date Issued: 2020
Does the Transkei population of Haliotis Midae at the eastern edge of its distributional range have a higher thermal tolerance than those in more temperate waters?
- Authors: Mathebula, Surprise
- Date: 2021-04
- Subjects: Haliotis midae -- South Africa -- Indian Coast , Abalones -- South Africa -- Indian Coast , Haliotis midae -- Effect of temperature on -- South Africa -- Indian Coast , Haliotis midae -- Physiology -- South Africa -- Indian Coast , Haliotis midae -- Adaptation -- South Africa -- Indian Coast , Haliotis midae -- Growth -- South Africa -- Indian Coast
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177360 , vital:42814
- Description: The South African perlemoen abalone (Haliotis midae) may be vulnerable to rising temperatures on the East coast of South Africa due to climate change. H. midae is South Africa’s most valuable aquaculture species, and it is thus important to understand its physiological ability to adapt to the expected changes and to identify possible management measures to mitigate the impacts of rising temperatures. This project aimed to understand thermal tolerance and growth rates of offspring from two H. midae populations originating from the warm-temperate Central region (Port Elizabeth) and warmer Eastern edge of the species’ distribution in the Transkei region. To determine the effects of temperature on the physiological performance of the two abalone populations, growth rates, oxygen consumption rates and critical thermal maxima (CTM) were compared. A laboratory growth trial was conducted at three controlled temperatures, visibly, the ‘optimal’ temperature for H. midae growth (18 - 20℃), ‘pejus’ (stressful) temperature (21 - 22℃) and ‘critical’ temperature (23 - 24℃). Oxygen consumption rates were recorded at optimum (20℃), pejus (22℃) and critical (24℃) temperature using a respirometer. In addition, a farm growth trial with simultaneously spawned cohorts of abalone from the two populations was conducted at ambient temperature (19.5 and 20.0℃). The laboratory growth trial revealed no significant differences in growth rate between the two populations at the three temperature treatments (ANOVA, P > 0.05; df = 2). However, mortalities were high and growth rates low, indicating that the rearing conditions were sub-optimal, possibly masking genetic differences. No significant differences were observed in oxygen consumption rates (ANOVA, P = 0.18; df = 2), and CTM (t-Test, P = 0.31; df = 3) between the two populations. The CTM for both populations was between 29 - 30℃. The farm trial yielded no significant differences in growth rate during the Nursery phase (t-Test, P = 0.25; df = 2), however significant differences in growth rate were observed during the grow out phase with the Central region abalone offspring growing faster than the Eastern edge population (t-Test, P = 0.04; df = 4) indicating the possibility of a genetic difference between the two populations. Further experiments will be required to determine whether the differences observed in the growth trial were genetically or environmentally induced. , Thesis (MSc) -- Faculty of Science, Ichthyology and Fisheries Science, 2021
- Full Text:
- Date Issued: 2021-04
- Authors: Mathebula, Surprise
- Date: 2021-04
- Subjects: Haliotis midae -- South Africa -- Indian Coast , Abalones -- South Africa -- Indian Coast , Haliotis midae -- Effect of temperature on -- South Africa -- Indian Coast , Haliotis midae -- Physiology -- South Africa -- Indian Coast , Haliotis midae -- Adaptation -- South Africa -- Indian Coast , Haliotis midae -- Growth -- South Africa -- Indian Coast
- Language: English
- Type: thesis , text , Masters , MSc
- Identifier: http://hdl.handle.net/10962/177360 , vital:42814
- Description: The South African perlemoen abalone (Haliotis midae) may be vulnerable to rising temperatures on the East coast of South Africa due to climate change. H. midae is South Africa’s most valuable aquaculture species, and it is thus important to understand its physiological ability to adapt to the expected changes and to identify possible management measures to mitigate the impacts of rising temperatures. This project aimed to understand thermal tolerance and growth rates of offspring from two H. midae populations originating from the warm-temperate Central region (Port Elizabeth) and warmer Eastern edge of the species’ distribution in the Transkei region. To determine the effects of temperature on the physiological performance of the two abalone populations, growth rates, oxygen consumption rates and critical thermal maxima (CTM) were compared. A laboratory growth trial was conducted at three controlled temperatures, visibly, the ‘optimal’ temperature for H. midae growth (18 - 20℃), ‘pejus’ (stressful) temperature (21 - 22℃) and ‘critical’ temperature (23 - 24℃). Oxygen consumption rates were recorded at optimum (20℃), pejus (22℃) and critical (24℃) temperature using a respirometer. In addition, a farm growth trial with simultaneously spawned cohorts of abalone from the two populations was conducted at ambient temperature (19.5 and 20.0℃). The laboratory growth trial revealed no significant differences in growth rate between the two populations at the three temperature treatments (ANOVA, P > 0.05; df = 2). However, mortalities were high and growth rates low, indicating that the rearing conditions were sub-optimal, possibly masking genetic differences. No significant differences were observed in oxygen consumption rates (ANOVA, P = 0.18; df = 2), and CTM (t-Test, P = 0.31; df = 3) between the two populations. The CTM for both populations was between 29 - 30℃. The farm trial yielded no significant differences in growth rate during the Nursery phase (t-Test, P = 0.25; df = 2), however significant differences in growth rate were observed during the grow out phase with the Central region abalone offspring growing faster than the Eastern edge population (t-Test, P = 0.04; df = 4) indicating the possibility of a genetic difference between the two populations. Further experiments will be required to determine whether the differences observed in the growth trial were genetically or environmentally induced. , Thesis (MSc) -- Faculty of Science, Ichthyology and Fisheries Science, 2021
- Full Text:
- Date Issued: 2021-04