A characterization of landslide occurrence in the Kigezi Highlands of South Western Uganda
- Authors: Nseka, Denis
- Date: 2018
- Subjects: Landslides -- Uganda , Land degradation -- Uganda Earth movements
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/33791 , vital:33029
- Description: The frequency and magnitude of landslide occurrence in the Kigezi highlands of South Western Uganda has increased, but the key underpinnings of the occurrences are yet to be understood. The overall aim of this study was to characterize the parameters underpinning landslide occurrence in the Kigezi highlands. This information is important for predicting or identifying actual and potential landslide sites. This should inform policy, particularly in terms of developing early warning systems to landslide hazards in these highlands. The present study analysed the area’s topography, soil properties as well as land use and cover changes underpinning the spatialtemporal distribution of landslide occurrence in the region. The present study focussed on selected topographic parameters including slope gradient, profile curvature, Topographic Wetness Index (TWI), Stream Power Index (SPI), and Topographic Position Index (TPI). These factors were parameterized in the field and GIS environment using a 10 m Digital Elevation Model. Sixty five landslide features were surveyed and mapped. Soil properties were characterised in relation to slope position. Onsite soil property analysis was conducted within the landslide scars, auger holes and full profile representative sites. Furthermore, soil infiltration and strength tests, as well as clay mineralogy analyses were also conducted. An analysis of the spatial-temporal land use and cover changes was undertaken using satellite imagery spanning the period between 1985 and 2015. Landslides were noted to concentrate along topographic hollows in the landscape. The occurrence is dominant where slope gradient is between 25˚ and 35˚, profile curvature between 0.1 and 5, TWI between 8 and 18, SPI >10 and TPI between -1 and 1. Landslides are less pronounced on slope zones where slope gradient is <15˚ and >45˚, profile curvature <0, TWI <8 and >18, SPI <10 and TPI >1. Deep soil profiles ranging between 2.5 and 7 meters are a major characteristic of the study area. Soils are characterized by clay pans at a depth ranging between 0.75 and 3 meters within the profiles. The study area is dominated by clay texture, except for the uppermost surface horizons, which are loamy sand. All surface horizons analysed had the percentage of sand, silt and clay ranging from 33 to 55%, 22 to 40% and 10 to 30% respectively. In the deeper horizons, sand was observed to reduce drastically to less than 23%, while clay increased to greater than 50%. The clay content is very high in the deeper horizons exceeding 35%. By implication, such soils with a very high clay content and plasticity index are considered as Vertisols, with a profound influence in the occurrence of landslides. The top soil predominantly contains more quartz, while subsurface horizons have considerable amounts of illite/muscovite as the dominant clay minerals, ranging from 43% to 47 %. The liquid limit, plasticity index, computed weighted plasticity index (PIw), expansiveness (ɛex) and dispersion ranging from 50, 22, 17, 10 and 23 to 66, 44,34,54 and 64, respectively also have strong implications for landslide occurrence. Landslides are not normally experienced during or immediately after extreme rainfall events but occur later in the rainfall season. By implication, this time lag in landslide occurrence and rainfall distribution, is due to the initial infiltration through quartz dominated upper soil layers, before illite/muscovite clays in the lower soil horizons get saturated. Whereas forest cover reduced from 40 % in 1985 to 8% in 2015, cultivated land and settlements increased from 16% and 11% to 52% and 25% respectively during the same period. The distribution of cultivated land decreased in lower slope sections within gradient group < 15˚ by 59%. It however increased in upper sections within gradient cluster 25˚ to 35˚ by over 85% during the study period. There is a shift of cultivated land to the steeper sensitive upper slope elements associated with landslides in the study area. More than 50% of the landslides are occurring on cultivated land, 20% on settlements while less than 15 % and 10% are occurring on grassland and forests with degraded areas respectively. Landslides in Kigezi highlands are triggered by a complex interaction of multiple- factors, including dynamic triggers and ground condition variables. Topographic hollows are convergence zones within the landscape where all the parameters interact to cause landslides. Topographic hollows are therefore potential and actual landslide sites in the study area. Characterized by deep soil horizons with high clay content dominated by illite/muscovite minerals in the sub soils and profile concave forms with moderately steep slopes, topographic hollows are the most vulnerable slope elements to landslide occurrence. The spatial temporal patterns of landslide occurrence in the study area has changed due to increased cultivation of steep middle and upper slopes. Characterized by deep soil horizons with high clay content dominated by illite/muscovite minerals in the sub soils and profile concave forms with moderately steep slopes, topographic hollows are the most vulnerable slope elements to landslide occurrence. The spatial-temporal patterns of landslide occurrence in the study area has changed due to increased cultivation of steep middle and upper slopes. A close spatial and temporal correlation between land use/cover changes and landslide occurrence is discernible. The understanding of these topographical, pedological and land use/cover parameters and their influence on landslide occurrence is important in land management. It is now possible to identify and predict actual and potential landslide zones, and also demarcate safer zones for community activities. The information generated about the area’s topographic, pedological and land cover characteristics should help in vulnerability mitigation and enhance community resilience to landslide hazards in this fragile highland ecosystem. This can be done through designating zones for community activities while avoiding potential landslide zones. It is also recommended that, tree cover restoration be done in the highlands and the farmers encouraged to re-establish terrace farming while avoiding cultivation of sensitive steep middle and upper slope sections.
- Full Text:
- Date Issued: 2018
- Authors: Nseka, Denis
- Date: 2018
- Subjects: Landslides -- Uganda , Land degradation -- Uganda Earth movements
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/33791 , vital:33029
- Description: The frequency and magnitude of landslide occurrence in the Kigezi highlands of South Western Uganda has increased, but the key underpinnings of the occurrences are yet to be understood. The overall aim of this study was to characterize the parameters underpinning landslide occurrence in the Kigezi highlands. This information is important for predicting or identifying actual and potential landslide sites. This should inform policy, particularly in terms of developing early warning systems to landslide hazards in these highlands. The present study analysed the area’s topography, soil properties as well as land use and cover changes underpinning the spatialtemporal distribution of landslide occurrence in the region. The present study focussed on selected topographic parameters including slope gradient, profile curvature, Topographic Wetness Index (TWI), Stream Power Index (SPI), and Topographic Position Index (TPI). These factors were parameterized in the field and GIS environment using a 10 m Digital Elevation Model. Sixty five landslide features were surveyed and mapped. Soil properties were characterised in relation to slope position. Onsite soil property analysis was conducted within the landslide scars, auger holes and full profile representative sites. Furthermore, soil infiltration and strength tests, as well as clay mineralogy analyses were also conducted. An analysis of the spatial-temporal land use and cover changes was undertaken using satellite imagery spanning the period between 1985 and 2015. Landslides were noted to concentrate along topographic hollows in the landscape. The occurrence is dominant where slope gradient is between 25˚ and 35˚, profile curvature between 0.1 and 5, TWI between 8 and 18, SPI >10 and TPI between -1 and 1. Landslides are less pronounced on slope zones where slope gradient is <15˚ and >45˚, profile curvature <0, TWI <8 and >18, SPI <10 and TPI >1. Deep soil profiles ranging between 2.5 and 7 meters are a major characteristic of the study area. Soils are characterized by clay pans at a depth ranging between 0.75 and 3 meters within the profiles. The study area is dominated by clay texture, except for the uppermost surface horizons, which are loamy sand. All surface horizons analysed had the percentage of sand, silt and clay ranging from 33 to 55%, 22 to 40% and 10 to 30% respectively. In the deeper horizons, sand was observed to reduce drastically to less than 23%, while clay increased to greater than 50%. The clay content is very high in the deeper horizons exceeding 35%. By implication, such soils with a very high clay content and plasticity index are considered as Vertisols, with a profound influence in the occurrence of landslides. The top soil predominantly contains more quartz, while subsurface horizons have considerable amounts of illite/muscovite as the dominant clay minerals, ranging from 43% to 47 %. The liquid limit, plasticity index, computed weighted plasticity index (PIw), expansiveness (ɛex) and dispersion ranging from 50, 22, 17, 10 and 23 to 66, 44,34,54 and 64, respectively also have strong implications for landslide occurrence. Landslides are not normally experienced during or immediately after extreme rainfall events but occur later in the rainfall season. By implication, this time lag in landslide occurrence and rainfall distribution, is due to the initial infiltration through quartz dominated upper soil layers, before illite/muscovite clays in the lower soil horizons get saturated. Whereas forest cover reduced from 40 % in 1985 to 8% in 2015, cultivated land and settlements increased from 16% and 11% to 52% and 25% respectively during the same period. The distribution of cultivated land decreased in lower slope sections within gradient group < 15˚ by 59%. It however increased in upper sections within gradient cluster 25˚ to 35˚ by over 85% during the study period. There is a shift of cultivated land to the steeper sensitive upper slope elements associated with landslides in the study area. More than 50% of the landslides are occurring on cultivated land, 20% on settlements while less than 15 % and 10% are occurring on grassland and forests with degraded areas respectively. Landslides in Kigezi highlands are triggered by a complex interaction of multiple- factors, including dynamic triggers and ground condition variables. Topographic hollows are convergence zones within the landscape where all the parameters interact to cause landslides. Topographic hollows are therefore potential and actual landslide sites in the study area. Characterized by deep soil horizons with high clay content dominated by illite/muscovite minerals in the sub soils and profile concave forms with moderately steep slopes, topographic hollows are the most vulnerable slope elements to landslide occurrence. The spatial temporal patterns of landslide occurrence in the study area has changed due to increased cultivation of steep middle and upper slopes. Characterized by deep soil horizons with high clay content dominated by illite/muscovite minerals in the sub soils and profile concave forms with moderately steep slopes, topographic hollows are the most vulnerable slope elements to landslide occurrence. The spatial-temporal patterns of landslide occurrence in the study area has changed due to increased cultivation of steep middle and upper slopes. A close spatial and temporal correlation between land use/cover changes and landslide occurrence is discernible. The understanding of these topographical, pedological and land use/cover parameters and their influence on landslide occurrence is important in land management. It is now possible to identify and predict actual and potential landslide zones, and also demarcate safer zones for community activities. The information generated about the area’s topographic, pedological and land cover characteristics should help in vulnerability mitigation and enhance community resilience to landslide hazards in this fragile highland ecosystem. This can be done through designating zones for community activities while avoiding potential landslide zones. It is also recommended that, tree cover restoration be done in the highlands and the farmers encouraged to re-establish terrace farming while avoiding cultivation of sensitive steep middle and upper slope sections.
- Full Text:
- Date Issued: 2018
A framework to measure human behaviour whilst reading
- Salehzadeh, Seyed Amirsaleh, Greyling, Jean
- Authors: Salehzadeh, Seyed Amirsaleh , Greyling, Jean
- Date: 2019
- Subjects: Computational intelligence , Machine learning Artificial intelligence Neural networks (Computer science)
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/43578 , vital:36921
- Description: The brain is the most complex object in the known universe that gives a sense of being to humans and characterises human behaviour. Building models of brain functions is perhaps the most fascinating scientific challenge in the 21st century. Reading is a significant cognitive process in the human brain that plays a critical role in the vital process of learning and in performing some daily activities. The study of human behaviour during reading has been an area of interest for researchers in different fields of science. This thesis is based upon providing a novel framework, called ARSAT (Assisting Researchers in the Selection of Appropriate Technologies), that measures the behaviour of humans when reading text. The ARSAT framework aims at assisting researchers in the selection and application of appropriate technologies to measure the behaviour of a person who is reading text. The ARSAT framework will assist to researchers who investigate the reading process and find it difficult to select appropriate theories, metrics, data collection methods and data analytics techniques. The ARSAT framework enhances the ability of its users to select appropriate metrics indicating the effective factors on the characterisation of different aspects of human behaviour during the reading process. As will be shown in this research study, human behaviour is characterised by a complicated interplay of action, cognition and emotion. The ARSAT framework also facilitates selecting appropriate sensory technologies that can be used to monitor and collect data for the metrics. Moreover, this research study will introduce BehaveNet, a novel Deep Learning modelling approach, which can be used for training Deep Learning models of human behaviour from the sensory data collected. In this thesis, a comprehensive literature study is presented that was conducted to acquire adequate knowledge for designing the ARSAT framework. In order to identify the contributing factors that affect the reading process, an overview of some existing theories of the reading process is provided. Furthermore, a number of sensory technologies and techniques that can be applied to monitoring the changes in the metrics indicating the factors are also demonstrated. Only, the technologies that are commercially available on the market are recommended by the ARSAT framework. A variety of Machine Learning techniques were also investigated when designing the BehaveNet. The BehaveNet takes advantage of the complementarity of Convolutional Neural Networks, Long Short-Term Memory networks and Deep Neural Networks. The design of a Human Behaviour Monitoring System (HBMS), by utilising the ARSAT framework for recognising three attention-seeking activities of humans, is also presented in this research study. Reading printed text, as well as speaking out loudly and watching a programme on TV were proposed as activities that a person unintentionally may shift his/her attention from reading into distractions. Between sensory devices recommended by the ARSAT framework, the Muse headband which is an Electroencephalography (EEG) and head motion-sensing wearable device, was selected to track the forehead EEG and a person’s head movements. The EEG and 3-axes accelerometer data were recorded from eight participants when they read printed text, as well as the time they performed two other activities. An imbalanced dataset consisting over 1.2 million rows of noisy data was created and used to build a model of the activities (60% training and 20% validating data) and evaluating the model (20% of the data). The efficiency of the framework is demonstrated by comparing the performance of the models built by utilising the BehaveNet, with the models built by utilising a number of competing Deep Learning models for raw EEG and accelerometer data, that have attained state-of-the-art performance. The classification results are evaluated by some metrics including the classification accuracy, F1 score, confusion matrix, Receiver Operating Characteristic curve, and Area under Curve (AUC) score. By considering the results, the BehaveNet contributed to the body of knowledge as an approach for measuring human behaviour by using sensory devices. In comparison with the performance of the other models, the models built by utilising the BehaveNet, attained better performance when classifying data of two EEG channels (Accuracy = 95%; AUC=0.99; F1 = 0.95), data of a single EEG channel (Accuracy = 85%; AUC=0.96; F1 = 0.83), accelerometer data (Accuracy = 81%; AUC = 0.9; F1 = 0.76) and all of the data in the dataset (Accuracy = 97%; AUC = 0.99; F1 = 0.96). The dataset and the source code of this project are also published on the Internet to help the science community. The Muse headband is also shown to be an economical and standard wearable device that can be successfully used in behavioural research.
- Full Text:
- Date Issued: 2019
- Authors: Salehzadeh, Seyed Amirsaleh , Greyling, Jean
- Date: 2019
- Subjects: Computational intelligence , Machine learning Artificial intelligence Neural networks (Computer science)
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/43578 , vital:36921
- Description: The brain is the most complex object in the known universe that gives a sense of being to humans and characterises human behaviour. Building models of brain functions is perhaps the most fascinating scientific challenge in the 21st century. Reading is a significant cognitive process in the human brain that plays a critical role in the vital process of learning and in performing some daily activities. The study of human behaviour during reading has been an area of interest for researchers in different fields of science. This thesis is based upon providing a novel framework, called ARSAT (Assisting Researchers in the Selection of Appropriate Technologies), that measures the behaviour of humans when reading text. The ARSAT framework aims at assisting researchers in the selection and application of appropriate technologies to measure the behaviour of a person who is reading text. The ARSAT framework will assist to researchers who investigate the reading process and find it difficult to select appropriate theories, metrics, data collection methods and data analytics techniques. The ARSAT framework enhances the ability of its users to select appropriate metrics indicating the effective factors on the characterisation of different aspects of human behaviour during the reading process. As will be shown in this research study, human behaviour is characterised by a complicated interplay of action, cognition and emotion. The ARSAT framework also facilitates selecting appropriate sensory technologies that can be used to monitor and collect data for the metrics. Moreover, this research study will introduce BehaveNet, a novel Deep Learning modelling approach, which can be used for training Deep Learning models of human behaviour from the sensory data collected. In this thesis, a comprehensive literature study is presented that was conducted to acquire adequate knowledge for designing the ARSAT framework. In order to identify the contributing factors that affect the reading process, an overview of some existing theories of the reading process is provided. Furthermore, a number of sensory technologies and techniques that can be applied to monitoring the changes in the metrics indicating the factors are also demonstrated. Only, the technologies that are commercially available on the market are recommended by the ARSAT framework. A variety of Machine Learning techniques were also investigated when designing the BehaveNet. The BehaveNet takes advantage of the complementarity of Convolutional Neural Networks, Long Short-Term Memory networks and Deep Neural Networks. The design of a Human Behaviour Monitoring System (HBMS), by utilising the ARSAT framework for recognising three attention-seeking activities of humans, is also presented in this research study. Reading printed text, as well as speaking out loudly and watching a programme on TV were proposed as activities that a person unintentionally may shift his/her attention from reading into distractions. Between sensory devices recommended by the ARSAT framework, the Muse headband which is an Electroencephalography (EEG) and head motion-sensing wearable device, was selected to track the forehead EEG and a person’s head movements. The EEG and 3-axes accelerometer data were recorded from eight participants when they read printed text, as well as the time they performed two other activities. An imbalanced dataset consisting over 1.2 million rows of noisy data was created and used to build a model of the activities (60% training and 20% validating data) and evaluating the model (20% of the data). The efficiency of the framework is demonstrated by comparing the performance of the models built by utilising the BehaveNet, with the models built by utilising a number of competing Deep Learning models for raw EEG and accelerometer data, that have attained state-of-the-art performance. The classification results are evaluated by some metrics including the classification accuracy, F1 score, confusion matrix, Receiver Operating Characteristic curve, and Area under Curve (AUC) score. By considering the results, the BehaveNet contributed to the body of knowledge as an approach for measuring human behaviour by using sensory devices. In comparison with the performance of the other models, the models built by utilising the BehaveNet, attained better performance when classifying data of two EEG channels (Accuracy = 95%; AUC=0.99; F1 = 0.95), data of a single EEG channel (Accuracy = 85%; AUC=0.96; F1 = 0.83), accelerometer data (Accuracy = 81%; AUC = 0.9; F1 = 0.76) and all of the data in the dataset (Accuracy = 97%; AUC = 0.99; F1 = 0.96). The dataset and the source code of this project are also published on the Internet to help the science community. The Muse headband is also shown to be an economical and standard wearable device that can be successfully used in behavioural research.
- Full Text:
- Date Issued: 2019
A method for the evaluation of similarity measures on graphs and network-structured data
- Authors: Naude, Kevin Alexander
- Date: 2014
- Subjects: Graph theory , Network analysis (Planning)
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: vital:10494
- Description: Measures of similarity play a subtle but important role in a large number of disciplines. For example, a researcher in bioinformatics may devise a new computed measure of similarity between biological structures, and use its scores to infer bio-logical association. Other academics may use related approaches in structured text search, or for object recognition in computer vision. These are diverse and practical applications of similarity. A critical question is this: to what extent can a given similarity measure be trusted? This is a difficult problem, at the heart of which lies the broader issue: what exactly constitutes good similarity judgement? This research presents the view that similarity measures have properties of judgement that are intrinsic to their formulation, and that such properties are measurable. The problem of comparing similarity measures is one of identifying ground-truths for similarity. The approach taken in this work is to examine the relative ordering of graph pairs, when compared with respect to a common reference graph. Ground- truth outcomes are obtained from a novel theory: the theory of irreducible change in graphs. This theory supports stronger claims than those made for edit distances. Whereas edit distances are sensitive to a configuration of costs, irreducible change under the new theory is independent of such parameters. Ground-truth data is obtained by isolating test cases for which a common outcome is assured for all possible least measures of change that can be formulated within a chosen change descriptor space. By isolating these specific cases, and excluding others, the research introduces a framework for evaluating similarity measures on mathematically defensible grounds. The evaluation method is demonstrated in a series of case studies which evaluate the similarity performance of known graph similarity measures. The findings of these experiments provide the first general characterisation of common similarity measures over a wide range of graph properties. The similarity computed from the maximum common induced subgraph (Dice-MCIS) is shown to provide good general similarity judgement. However, it is shown that Blondel's similarity measure can exceed the judgement sensitivity of Dice-MCIS, provided the graphs have both sufficient attribute label diversity, and edge density. The final contribution is the introduction of a new similarity measure for graphs, which is shown to have statistically greater judgement sensitivity than all other measures examined. All of these findings are made possible through the theory of irreducible change in graphs. The research provides the first mathematical basis for reasoning about the quality of similarity judgments. This enables researchers to analyse similarity measures directly, making similarity measures first class objects of scientific inquiry.
- Full Text:
- Date Issued: 2014
- Authors: Naude, Kevin Alexander
- Date: 2014
- Subjects: Graph theory , Network analysis (Planning)
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: vital:10494
- Description: Measures of similarity play a subtle but important role in a large number of disciplines. For example, a researcher in bioinformatics may devise a new computed measure of similarity between biological structures, and use its scores to infer bio-logical association. Other academics may use related approaches in structured text search, or for object recognition in computer vision. These are diverse and practical applications of similarity. A critical question is this: to what extent can a given similarity measure be trusted? This is a difficult problem, at the heart of which lies the broader issue: what exactly constitutes good similarity judgement? This research presents the view that similarity measures have properties of judgement that are intrinsic to their formulation, and that such properties are measurable. The problem of comparing similarity measures is one of identifying ground-truths for similarity. The approach taken in this work is to examine the relative ordering of graph pairs, when compared with respect to a common reference graph. Ground- truth outcomes are obtained from a novel theory: the theory of irreducible change in graphs. This theory supports stronger claims than those made for edit distances. Whereas edit distances are sensitive to a configuration of costs, irreducible change under the new theory is independent of such parameters. Ground-truth data is obtained by isolating test cases for which a common outcome is assured for all possible least measures of change that can be formulated within a chosen change descriptor space. By isolating these specific cases, and excluding others, the research introduces a framework for evaluating similarity measures on mathematically defensible grounds. The evaluation method is demonstrated in a series of case studies which evaluate the similarity performance of known graph similarity measures. The findings of these experiments provide the first general characterisation of common similarity measures over a wide range of graph properties. The similarity computed from the maximum common induced subgraph (Dice-MCIS) is shown to provide good general similarity judgement. However, it is shown that Blondel's similarity measure can exceed the judgement sensitivity of Dice-MCIS, provided the graphs have both sufficient attribute label diversity, and edge density. The final contribution is the introduction of a new similarity measure for graphs, which is shown to have statistically greater judgement sensitivity than all other measures examined. All of these findings are made possible through the theory of irreducible change in graphs. The research provides the first mathematical basis for reasoning about the quality of similarity judgments. This enables researchers to analyse similarity measures directly, making similarity measures first class objects of scientific inquiry.
- Full Text:
- Date Issued: 2014
A multi-factor model for range estimation in electric vehicles
- Authors: Smuts, Martin Bradley
- Date: 2019
- Subjects: Electric vehicles , Hybrid electric vehicles Energy consumption Machine learning Information technology -- Management
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/43589 , vital:36926
- Description: Electric vehicles (EVs) are well-known for their challenges related to trip planning and energy consumption estimation. Range anxiety is currently a barrier to the adoption of EVs. One of the issues influencing range anxiety is the inaccuracy of the remaining driving range (RDR) estimate in on-board displays. RDR displays are important as they can help drivers with trip planning. The RDR is a parameter that changes under environmental and behavioural conditions. Several factors (for example, weather, and traffic) can influence the energy consumption of an EV that are not considered during the RDR estimation in traditional on-board computers or third-party applications, such as navigation or mapping applications. The need for accurate RDR estimation is growing, since this can reduce the range anxiety of drivers. One way of overcoming range anxiety is to provide trip planning applications that provide accurate estimations of the RDR, based on various factors, and which adapt to the users’ driving behaviour. Existing models used for estimating the RDR are often simplified, and do not consider all the factors that can influence it. Collecting data for each factor also presents several challenges. Powerful computing resources are required to collect, transform, and analyse the disparate datasets that are required for each factor. The aim of this research was to design a Multi-factor Model for range estimation in EVs. Five main factors that influence the energy consumption of EVs were identified from literature, namely, Route and Terrain, Driving Behaviour, Weather and Environment, Vehicle Modelling, and Battery Modelling. These factors were used throughout this research to guide the data collection and analysis processes. A Multi-factor Model was proposed based on four main components that collect, process, analyse, and visualise data from available data sources to produce estimates relating to trip planning. A proof-of-concept RDR system was developed and evaluated in field experiments, to demonstrate that the Multi-factor Model addresses the main aim of this research. The experiments were performed to collect data for each of the five factors, and to analyse their impact on energy consumption. Several machine learning techniques were used, and evaluated, for accuracy in estimating the energy consumption, from which the RDR can be derived, for a specified trip. A case study was conducted with an electric mobility programme (uYilo) in Port Elizabeth, South Africa (SA). The case study was used to investigate whether the available resources at uYilo were sufficient to provide data for each of the five factors. Several challenges were noted during the data collection. These were shortages of software applications, a lack of quality data, technical interoperability and data access between the data collection instruments and systems. Data access was a problem in some cases, since proprietary systems restrict access to external developers. The theoretical contribution of this research is a list of factors that influence RDR and a classification of machine learning techniques that can be used to estimate the RDR. The practical contributions of this research include a database of EV trips, proof-of-concept RDR estimation system, and a deployed machine learning model that can be accessed by researchers and EV practitioners. Four research papers were published and presented at local and international conferences. In addition, one conference paper was published in an accredited journal: NextComp 2017 (Appendix C), Conference Paper, Pointe aux Piments (Mauritius); SATNAC 2017 (Appendix F), Conference Paper, Barcelona (Spain); GITMA 2018 (Appendix B), Conference Paper, Mexico City (Mexico); SATNAC 2018 (Appendix G), Conference Paper, George (South Africa), and IFIP World Computer Congress 2018 (Appendix E), Journal Article.
- Full Text:
- Date Issued: 2019
- Authors: Smuts, Martin Bradley
- Date: 2019
- Subjects: Electric vehicles , Hybrid electric vehicles Energy consumption Machine learning Information technology -- Management
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/43589 , vital:36926
- Description: Electric vehicles (EVs) are well-known for their challenges related to trip planning and energy consumption estimation. Range anxiety is currently a barrier to the adoption of EVs. One of the issues influencing range anxiety is the inaccuracy of the remaining driving range (RDR) estimate in on-board displays. RDR displays are important as they can help drivers with trip planning. The RDR is a parameter that changes under environmental and behavioural conditions. Several factors (for example, weather, and traffic) can influence the energy consumption of an EV that are not considered during the RDR estimation in traditional on-board computers or third-party applications, such as navigation or mapping applications. The need for accurate RDR estimation is growing, since this can reduce the range anxiety of drivers. One way of overcoming range anxiety is to provide trip planning applications that provide accurate estimations of the RDR, based on various factors, and which adapt to the users’ driving behaviour. Existing models used for estimating the RDR are often simplified, and do not consider all the factors that can influence it. Collecting data for each factor also presents several challenges. Powerful computing resources are required to collect, transform, and analyse the disparate datasets that are required for each factor. The aim of this research was to design a Multi-factor Model for range estimation in EVs. Five main factors that influence the energy consumption of EVs were identified from literature, namely, Route and Terrain, Driving Behaviour, Weather and Environment, Vehicle Modelling, and Battery Modelling. These factors were used throughout this research to guide the data collection and analysis processes. A Multi-factor Model was proposed based on four main components that collect, process, analyse, and visualise data from available data sources to produce estimates relating to trip planning. A proof-of-concept RDR system was developed and evaluated in field experiments, to demonstrate that the Multi-factor Model addresses the main aim of this research. The experiments were performed to collect data for each of the five factors, and to analyse their impact on energy consumption. Several machine learning techniques were used, and evaluated, for accuracy in estimating the energy consumption, from which the RDR can be derived, for a specified trip. A case study was conducted with an electric mobility programme (uYilo) in Port Elizabeth, South Africa (SA). The case study was used to investigate whether the available resources at uYilo were sufficient to provide data for each of the five factors. Several challenges were noted during the data collection. These were shortages of software applications, a lack of quality data, technical interoperability and data access between the data collection instruments and systems. Data access was a problem in some cases, since proprietary systems restrict access to external developers. The theoretical contribution of this research is a list of factors that influence RDR and a classification of machine learning techniques that can be used to estimate the RDR. The practical contributions of this research include a database of EV trips, proof-of-concept RDR estimation system, and a deployed machine learning model that can be accessed by researchers and EV practitioners. Four research papers were published and presented at local and international conferences. In addition, one conference paper was published in an accredited journal: NextComp 2017 (Appendix C), Conference Paper, Pointe aux Piments (Mauritius); SATNAC 2017 (Appendix F), Conference Paper, Barcelona (Spain); GITMA 2018 (Appendix B), Conference Paper, Mexico City (Mexico); SATNAC 2018 (Appendix G), Conference Paper, George (South Africa), and IFIP World Computer Congress 2018 (Appendix E), Journal Article.
- Full Text:
- Date Issued: 2019
A scheduling model for the charging of electric vehicles in photovoltaic powered smart microgrids
- Authors: Nyumbeka, Dumisani Joshua
- Date: 2020
- Subjects: Electric vehicles , Photovoltaic power generation Photovoltaic power generation -- Developing countries
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49259 , vital:41615
- Description: Electric vehicles (EVs) have emerged as a viable option to advance sustainable mobility, but adoption is still relatively low. This has been largely due to the limited range one can travel on a single charge, leading to range anxiety, longer charge cycles and long wait times at charging stations. One solution to range anxiety is to erect charging stations on major roads and urban centres. There is also a lack of real-time information regarding the state of charging stations and charging ports in existing charging infrastructure. To increase the benefit of using EVs, using renewable energy sources, such as photovoltaics (PV) to power EVs, can further increase the benefit of reduced carbon footprint. The main research objective was to design a Charge Scheduling Model for charging EVs using a PV-powered smart microgrid (SMG). The model addresses the lack of an integrated platform where EV drivers can schedule when and where to charge their EVs. The model also reduces the negative effects of the adoption of EVs, including range anxiety. The Charge Scheduling Model was developed using the Design Science Research (DSR) methodology and was the main artefact of the study. A literature study was conducted of research related to SMGs, renewable energy, EVs and scheduling, to identify shortcomings that currently exist in EV charge scheduling (EVCS), and to identify the requirements of a potential solution. The literature study also identified the hard and soft constraints that are unique to EVCS, and the available energy in the SMG was identified as one of the hard constraints. Therefore, an Energy Forecasting Model for forecasting energy generated in PV-powered SMGs was required before the Charge Scheduling Model could be designed. During the first iteration of the design and development activities of DSR, four models were designed and implemented to evaluate their effectiveness in forecasting the energy generated in PV-powered SMGs. The models were Support Vector Regression (SVR), K-Nearest Neighbour (KNN), Decision Trees, and Multilayer Perceptron. In the second iteration, the Charge Scheduling Model was designed, consisting of a Four Layered Architecture and the Three-Phase Data Flow Process. The Charge Scheduling Model was then used to design the EVCS prototype. The implementation of the EVCS prototype followed the incremental prototyping approach, which was used to verify the effectiveness of the model. An artificial-summative evaluation was used to evaluate the design of the Charge Scheduling Model, whereas iterative formative evaluations were conducted during the development of the EVCS prototype. The theoretical contribution of this study is the Charge Scheduling Model, and the EVCS prototype is the practical contribution. The results from both evaluations, i.e. the Energy Forecasting Model and the Charge Scheduling Model, also make a contribution to the body of knowledge of EVs.
- Full Text:
- Date Issued: 2020
- Authors: Nyumbeka, Dumisani Joshua
- Date: 2020
- Subjects: Electric vehicles , Photovoltaic power generation Photovoltaic power generation -- Developing countries
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49259 , vital:41615
- Description: Electric vehicles (EVs) have emerged as a viable option to advance sustainable mobility, but adoption is still relatively low. This has been largely due to the limited range one can travel on a single charge, leading to range anxiety, longer charge cycles and long wait times at charging stations. One solution to range anxiety is to erect charging stations on major roads and urban centres. There is also a lack of real-time information regarding the state of charging stations and charging ports in existing charging infrastructure. To increase the benefit of using EVs, using renewable energy sources, such as photovoltaics (PV) to power EVs, can further increase the benefit of reduced carbon footprint. The main research objective was to design a Charge Scheduling Model for charging EVs using a PV-powered smart microgrid (SMG). The model addresses the lack of an integrated platform where EV drivers can schedule when and where to charge their EVs. The model also reduces the negative effects of the adoption of EVs, including range anxiety. The Charge Scheduling Model was developed using the Design Science Research (DSR) methodology and was the main artefact of the study. A literature study was conducted of research related to SMGs, renewable energy, EVs and scheduling, to identify shortcomings that currently exist in EV charge scheduling (EVCS), and to identify the requirements of a potential solution. The literature study also identified the hard and soft constraints that are unique to EVCS, and the available energy in the SMG was identified as one of the hard constraints. Therefore, an Energy Forecasting Model for forecasting energy generated in PV-powered SMGs was required before the Charge Scheduling Model could be designed. During the first iteration of the design and development activities of DSR, four models were designed and implemented to evaluate their effectiveness in forecasting the energy generated in PV-powered SMGs. The models were Support Vector Regression (SVR), K-Nearest Neighbour (KNN), Decision Trees, and Multilayer Perceptron. In the second iteration, the Charge Scheduling Model was designed, consisting of a Four Layered Architecture and the Three-Phase Data Flow Process. The Charge Scheduling Model was then used to design the EVCS prototype. The implementation of the EVCS prototype followed the incremental prototyping approach, which was used to verify the effectiveness of the model. An artificial-summative evaluation was used to evaluate the design of the Charge Scheduling Model, whereas iterative formative evaluations were conducted during the development of the EVCS prototype. The theoretical contribution of this study is the Charge Scheduling Model, and the EVCS prototype is the practical contribution. The results from both evaluations, i.e. the Energy Forecasting Model and the Charge Scheduling Model, also make a contribution to the body of knowledge of EVs.
- Full Text:
- Date Issued: 2020
A social media model for public participation in a South African municipality
- Authors: Fashoro, Ifeoluwapo
- Date: 2018
- Subjects: Information technology -- Social aspects -- South Africa , Social media -- South Africa Political participation -- Technological innovations -- South Africa Municipal government -- South Africa -- Citizen participation
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/29851 , vital:30786
- Description: Social media have become the preferred method of communication for individuals, organisations and even governments. These technologies have become ingrained in our everyday lives and have changed the way we communicate, collaborate are informed of recent happenings around the world. Social media websites are reported to be the most popular around the world. In the government sphere, social media is purported as a technology that will revolutionise citizen participation, service delivery and government-citizen interactions. Accordingly, governments around the world are steadily implementing social media in a bid to meet citizens’ demand for immediate and constant access to information, as well as increased opportunities to participate in government. Public participation has become an important focus area for government which could be used to effectively engage citizens and foster citizen trust. The United Nation’s E-government survey reports the presence of 125 countries on social media platforms. Despite the increased use of social media by governments, consensus among researchers is that governments need guidance on how to use social media effectively to achieve the potential benefits proposed by these technologies. Many social media adoptions by governments have been deemed as experimental; no formal action plan was designed, and many government employees are expected to learn social media use on-the-job. The aim of this research was to investigate and propose a social media model for public participation to leverage the opportunities provided by social media and present an effective and structured approach towards public participation. The research was designed as a mixed methods research using a case study based in the Eastern Cape Province of South Africa. The research involved a survey of citizens in the selected municipality based on the Uses and Gratifications Theory, interviews with employees responsible for social media in said municipality and a contents analysis of the existing social media pages of the municipality. The model was developed from the findings of the survey, interviews and existing literature. The implementation of the model was done in the Nelson Mandela Bay Municipality. The municipality appointed a social media champion responsible for obtaining support from top management and politicians within the municipality. Additional staff were added to the social media team and formal social media training was provided to the team. An official social media strategy was drafted and at the time of writing, needed to be approved by top management. The proposed model was operationalised within the Nelson Mandela Bay Municipality. This research makes several contributions to the E-government and social media fields in South Africa. The major contribution is the provision of guidance for South African municipalities to implement and use social media in an effective manner to achieve public participation. The research provided a phased approach to social media implementation that eliminates ad hoc experimentation and ensures the municipality’s social media activities are effective. The development of the model was based on the characteristics of the municipality and its citizens derived from the interviews and survey carried out. There are five phases in the model; Initialisation, Setup, Organisation, Institutionalisation and Maintenance. The model can be thought of as a guideline, and as such municipalities should adapt the implementation of the model to fit their organisational characteristics. The social media model will assist municipalities to determine the resources, tools and tactics to enable them to implement social media effectively, which will result in an improved engagement and participation process with citizens, and thereby foster trust.
- Full Text:
- Date Issued: 2018
- Authors: Fashoro, Ifeoluwapo
- Date: 2018
- Subjects: Information technology -- Social aspects -- South Africa , Social media -- South Africa Political participation -- Technological innovations -- South Africa Municipal government -- South Africa -- Citizen participation
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/29851 , vital:30786
- Description: Social media have become the preferred method of communication for individuals, organisations and even governments. These technologies have become ingrained in our everyday lives and have changed the way we communicate, collaborate are informed of recent happenings around the world. Social media websites are reported to be the most popular around the world. In the government sphere, social media is purported as a technology that will revolutionise citizen participation, service delivery and government-citizen interactions. Accordingly, governments around the world are steadily implementing social media in a bid to meet citizens’ demand for immediate and constant access to information, as well as increased opportunities to participate in government. Public participation has become an important focus area for government which could be used to effectively engage citizens and foster citizen trust. The United Nation’s E-government survey reports the presence of 125 countries on social media platforms. Despite the increased use of social media by governments, consensus among researchers is that governments need guidance on how to use social media effectively to achieve the potential benefits proposed by these technologies. Many social media adoptions by governments have been deemed as experimental; no formal action plan was designed, and many government employees are expected to learn social media use on-the-job. The aim of this research was to investigate and propose a social media model for public participation to leverage the opportunities provided by social media and present an effective and structured approach towards public participation. The research was designed as a mixed methods research using a case study based in the Eastern Cape Province of South Africa. The research involved a survey of citizens in the selected municipality based on the Uses and Gratifications Theory, interviews with employees responsible for social media in said municipality and a contents analysis of the existing social media pages of the municipality. The model was developed from the findings of the survey, interviews and existing literature. The implementation of the model was done in the Nelson Mandela Bay Municipality. The municipality appointed a social media champion responsible for obtaining support from top management and politicians within the municipality. Additional staff were added to the social media team and formal social media training was provided to the team. An official social media strategy was drafted and at the time of writing, needed to be approved by top management. The proposed model was operationalised within the Nelson Mandela Bay Municipality. This research makes several contributions to the E-government and social media fields in South Africa. The major contribution is the provision of guidance for South African municipalities to implement and use social media in an effective manner to achieve public participation. The research provided a phased approach to social media implementation that eliminates ad hoc experimentation and ensures the municipality’s social media activities are effective. The development of the model was based on the characteristics of the municipality and its citizens derived from the interviews and survey carried out. There are five phases in the model; Initialisation, Setup, Organisation, Institutionalisation and Maintenance. The model can be thought of as a guideline, and as such municipalities should adapt the implementation of the model to fit their organisational characteristics. The social media model will assist municipalities to determine the resources, tools and tactics to enable them to implement social media effectively, which will result in an improved engagement and participation process with citizens, and thereby foster trust.
- Full Text:
- Date Issued: 2018
A status assessment of mangrove forests in South Africa and the utilization of mangroves at Mngazana Estuary
- Authors: Rajkaran, Anusha
- Date: 2011
- Subjects: Mangrove forests -- Management , Forests and forestry -- Harvesting , Mangrove forests -- South Africa -- Mngazana Estuary , Mangrove ecology -- South Africa -- Mngazana Estuary , Mangrove conservation
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: vital:10604 , http://hdl.handle.net/10948/1547 , Mangrove forests -- Management , Forests and forestry -- Harvesting , Mangrove forests -- South Africa -- Mngazana Estuary , Mangrove ecology -- South Africa -- Mngazana Estuary , Mangrove conservation
- Description: In South Africa mangrove forests are located in estuaries from Kosi Bay in KwaZulu-Natal (KZN) to Nahoon Estuary in the Eastern Cape. The aims of this study were to determine the present state of mangroves in KwaZulu-Natal, by assessing the current population structure, the changes in cover over time and associated anthropogenic pressures. A second objective of this study was to determine the effect of harvesting on the population structure and sediment characteristics in the Mngazana mangrove forest. To determine if harvesting was sustainable at Mngazana Estuary; the growth and mortality rates and associated growth conditions were measured. Finally by using population modelling sustainable harvesting limits were determined by predicting the change in population structure over time. The study focussed on the KwaZulu-Natal province as a fairly recent study addressed mangrove distribution and status in the Eastern Cape Province. A historical assessment of all mangroves forests in KwaZulu-Natal (KZN) revealed that the potential threats to mangroves in South Africa include; wood harvesting, altered water flow patterns coupled with salinity changes, prolonged closed-mouth conditions and subsequent changes to the intertidal habitat. As a result mangroves were completely lost from eleven estuaries in KZN between 1982 and 1999 and a further two estuaries by 2006. Mangroves only occurred in those estuaries where the mouth was open for more than 56 percent of the time with the exception of St Lucia, where the mouth has been closed for longer but the mangrove communities have persisted because the roots of the trees were not submerged. All mangrove forests in KZN were regenerating in terms of population structure as they had reverse J-shaped population curves as well as high adult: seedling ratios. Kosi Bay and Mhlathuze Estuary were two of the larger forests that showed signs of harvesting (presence of tree or branch stumps), but the greatest threat to smaller estuaries seems to be altered water flow patterns due to freshwater abstraction in the catchments and the change of land use from natural vegetation to sugar-cane plantations. These threats affect the hydrology of estuaries and the sediment characteristics (particle size, redox, pH, salinity, temperature) of the mangrove forests. The environmental conditions under which the mangrove forests currently exist were determined for five species. Lumnitzera racemosa and Ceriops tagal exhibited a narrow range of conditions as these species are only found at Kosi Bay, while Avicennia marina, Bruguiera gymnorrhiza and Rhizophora mucronata were found to exist under a wider range of conditions. The growth rate and response to environmental conditions of the three dominant species were important to determine as these species are impacted by harvesting. Mangrove growth rates were measured at Mngazana Estuary in the Eastern Cape, the third largest mangrove forest in South Africa. Areas of this estuary where mangroves harvesting has occurred, show significant differences in sediment characteristics as well as changes in population structure in harvested compared to non harvested sites. The growth rate (in terms of height) of Avicennia marina individuals increased from seedlings (0.31 cm month-1) to adults (1.2 cm month-1), while the growth of Bruguiera gymnorrhiza stabilised from a height of 150 cm at 0.65 cm month-1. The growth of Rhizophora mucronata peaked at 0.72 cm month-1 (height 151-250 cm) and then decreased to 0.4 cm month-1 for taller individuals. Increases in diameter at breast height (DBH) ranged between 0.7 and 2.3 mm month-1 for all species. Some environmental variables were found to be important drivers of growth and mortality of individuals less then 150 cm. A decrease in sediment pH significantly increased the mortality of Avicennia marina seedlings (0-50 cm) (r = - 0.71, p<0.05) and significantly decreased the growth of Rhizophora mucronata and Bruguiera gymnorrhiza seedlings (r = -0.8, r = 0.52 – p < 0.05 respectively). At Mngazana Estuary, mortality of this species showed a positive correlation with sediment moisture content indicating that this species prefers drier conditions. The density of Rhizophora mucronata was significantly correlated to porewater temperature in Northern KZN as was the growth of adult (>300 cm) Rhizophora trees at Mngazana Estuary. Mortality of Avicennia marina individuals (51-150 cm) was related to tree density indicating intraspecific competition and self thinning. Selective harvesting of particular size classes of Rhizophora mucronata was recorded when comparing length of harvested poles (~301 cm) and the size class distribution of individuals. Taking into account the differences in growth rate for each size class for this species it will take approximately 13 years to attain a height of 390 cm which is the height at which trees are selected for harvesting at this estuary. This is 2.6 times slower than those individuals growing in Kenya. The feasibility of harvesting is dependent on the growth rate of younger size classes to replace harvested trees as well as the rate of natural recruitment feeding into the population. Different harvesting intensity scenarios tested within a matrix model framework showed that limits should be set at 5 percent trees ha-1 year-1 to maintain seedling density at > 5 000 ha-1 for R. mucronata. However harvesting of Bruguiera gymnorrhiza should be stopped due to the low density of this species at Mngazana Estuary. Harvesting of the tallest trees of Avicennia marina can be maintained at levels less than 10 percent ha-1 year-1. Effective management of mangrove forests in South African is important to maintain the current state, function and diversity of these ecosystems. Management recommendations should begin with determining the freshwater requirements of the estuaries to maintain the mouth dynamics and biotic communities and deter the harvesting of (whole) adult trees particularly those species that do not coppice. Further management is needed to ensure that forests are cleared of pollutants (plastic and industrial), and any further developments near the mangroves should be minimized.
- Full Text:
- Date Issued: 2011
- Authors: Rajkaran, Anusha
- Date: 2011
- Subjects: Mangrove forests -- Management , Forests and forestry -- Harvesting , Mangrove forests -- South Africa -- Mngazana Estuary , Mangrove ecology -- South Africa -- Mngazana Estuary , Mangrove conservation
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: vital:10604 , http://hdl.handle.net/10948/1547 , Mangrove forests -- Management , Forests and forestry -- Harvesting , Mangrove forests -- South Africa -- Mngazana Estuary , Mangrove ecology -- South Africa -- Mngazana Estuary , Mangrove conservation
- Description: In South Africa mangrove forests are located in estuaries from Kosi Bay in KwaZulu-Natal (KZN) to Nahoon Estuary in the Eastern Cape. The aims of this study were to determine the present state of mangroves in KwaZulu-Natal, by assessing the current population structure, the changes in cover over time and associated anthropogenic pressures. A second objective of this study was to determine the effect of harvesting on the population structure and sediment characteristics in the Mngazana mangrove forest. To determine if harvesting was sustainable at Mngazana Estuary; the growth and mortality rates and associated growth conditions were measured. Finally by using population modelling sustainable harvesting limits were determined by predicting the change in population structure over time. The study focussed on the KwaZulu-Natal province as a fairly recent study addressed mangrove distribution and status in the Eastern Cape Province. A historical assessment of all mangroves forests in KwaZulu-Natal (KZN) revealed that the potential threats to mangroves in South Africa include; wood harvesting, altered water flow patterns coupled with salinity changes, prolonged closed-mouth conditions and subsequent changes to the intertidal habitat. As a result mangroves were completely lost from eleven estuaries in KZN between 1982 and 1999 and a further two estuaries by 2006. Mangroves only occurred in those estuaries where the mouth was open for more than 56 percent of the time with the exception of St Lucia, where the mouth has been closed for longer but the mangrove communities have persisted because the roots of the trees were not submerged. All mangrove forests in KZN were regenerating in terms of population structure as they had reverse J-shaped population curves as well as high adult: seedling ratios. Kosi Bay and Mhlathuze Estuary were two of the larger forests that showed signs of harvesting (presence of tree or branch stumps), but the greatest threat to smaller estuaries seems to be altered water flow patterns due to freshwater abstraction in the catchments and the change of land use from natural vegetation to sugar-cane plantations. These threats affect the hydrology of estuaries and the sediment characteristics (particle size, redox, pH, salinity, temperature) of the mangrove forests. The environmental conditions under which the mangrove forests currently exist were determined for five species. Lumnitzera racemosa and Ceriops tagal exhibited a narrow range of conditions as these species are only found at Kosi Bay, while Avicennia marina, Bruguiera gymnorrhiza and Rhizophora mucronata were found to exist under a wider range of conditions. The growth rate and response to environmental conditions of the three dominant species were important to determine as these species are impacted by harvesting. Mangrove growth rates were measured at Mngazana Estuary in the Eastern Cape, the third largest mangrove forest in South Africa. Areas of this estuary where mangroves harvesting has occurred, show significant differences in sediment characteristics as well as changes in population structure in harvested compared to non harvested sites. The growth rate (in terms of height) of Avicennia marina individuals increased from seedlings (0.31 cm month-1) to adults (1.2 cm month-1), while the growth of Bruguiera gymnorrhiza stabilised from a height of 150 cm at 0.65 cm month-1. The growth of Rhizophora mucronata peaked at 0.72 cm month-1 (height 151-250 cm) and then decreased to 0.4 cm month-1 for taller individuals. Increases in diameter at breast height (DBH) ranged between 0.7 and 2.3 mm month-1 for all species. Some environmental variables were found to be important drivers of growth and mortality of individuals less then 150 cm. A decrease in sediment pH significantly increased the mortality of Avicennia marina seedlings (0-50 cm) (r = - 0.71, p<0.05) and significantly decreased the growth of Rhizophora mucronata and Bruguiera gymnorrhiza seedlings (r = -0.8, r = 0.52 – p < 0.05 respectively). At Mngazana Estuary, mortality of this species showed a positive correlation with sediment moisture content indicating that this species prefers drier conditions. The density of Rhizophora mucronata was significantly correlated to porewater temperature in Northern KZN as was the growth of adult (>300 cm) Rhizophora trees at Mngazana Estuary. Mortality of Avicennia marina individuals (51-150 cm) was related to tree density indicating intraspecific competition and self thinning. Selective harvesting of particular size classes of Rhizophora mucronata was recorded when comparing length of harvested poles (~301 cm) and the size class distribution of individuals. Taking into account the differences in growth rate for each size class for this species it will take approximately 13 years to attain a height of 390 cm which is the height at which trees are selected for harvesting at this estuary. This is 2.6 times slower than those individuals growing in Kenya. The feasibility of harvesting is dependent on the growth rate of younger size classes to replace harvested trees as well as the rate of natural recruitment feeding into the population. Different harvesting intensity scenarios tested within a matrix model framework showed that limits should be set at 5 percent trees ha-1 year-1 to maintain seedling density at > 5 000 ha-1 for R. mucronata. However harvesting of Bruguiera gymnorrhiza should be stopped due to the low density of this species at Mngazana Estuary. Harvesting of the tallest trees of Avicennia marina can be maintained at levels less than 10 percent ha-1 year-1. Effective management of mangrove forests in South African is important to maintain the current state, function and diversity of these ecosystems. Management recommendations should begin with determining the freshwater requirements of the estuaries to maintain the mouth dynamics and biotic communities and deter the harvesting of (whole) adult trees particularly those species that do not coppice. Further management is needed to ensure that forests are cleared of pollutants (plastic and industrial), and any further developments near the mangroves should be minimized.
- Full Text:
- Date Issued: 2011
A technical and economic evaluation of a passive underground mine-water purification system (PUMPS): a geothermally powered geo-engineering system designed for in-situ bio-remediation of acid mine water
- Ntholi, Thakane Thato Prudence
- Authors: Ntholi, Thakane Thato Prudence
- Date: 2017
- Subjects: Water -- Purification -- South Africa Water -- Purification -- Biological treatment , Mine water -- South Africa -- Evaluation Acid mine drainage -- South Africa Environmental geochemistry -- South Africa
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/19586 , vital:28900
- Description: PUMPS mimics natural geothermal vents as a conceptual model designed for the remediation of acid mine water (AMW) in voids of abandoned gold mines of the Witwatersrand Basin in South Africa. In this system, a reaction chamber containing Desulfotomaculum kuznetsovii sulfate reducing bacteria will be set at the bottom of a 3-4 km deep mine that will be flooded. A geothermal system with at least one (1) doublet will be drilled from the bottom of the mine to the depth of 8km, where the temperatures are sufficient for geothermal energy harvesting. AMW, used as a geothermal fluid, will be pumped down the injection well and circulate through hot rock. The hot water is then used to generate electricity and then channelled into the reaction chamber to undergo bio-remediation. Following treatment, the water flows back into the mine voids where it will improve the quality of untreated AMW through dilution. Eventually, the mine will be flooded with clean water that can be stored underground and/or pumped up to surface for social and ecosystem services. Following an introduction and proof of concept for the PUMPS, the research builds further on the technical and economic evaluation of the PUMPS in order to assert its viability and sustainability. The technical viability includes testing the ability for Desulfotomaculum kuznetsovii to survive in high pressure condition; quantifying the amount of energy that can be drawn from the geothermal reservoir; determining the placement and scheme of the geothermal wells; and, finally, developing a robust economic model of the system. Experiments show that Desulfotomaculum Kuznetsovii can tolerate high pressure conditions in of at least 100bar at their ideal sulfate reducing temperature of 63°C. Geochemical modelling shows that AMW can be used effectively as a geothermal fluid for PUMPS. To achieve highest efficiency and minimal fluid loss, the geothermal wells should be placed along the SSE-NNW direction, based on the known stress field across the Witwatersrand Basin. With a flow rate of 30l/s the energy drawn from the geothermal reservoir is sufficient to drive PUMPS and the surplus energy is determined by the volume of AMW treated per day. All results indicate that the PUMPS is technically and economically viable. The economic model shows that the value and viability of the PUMPS is best reflected with a comprehensive inclusion of potential revenue (for example from chemical solution mining of deep seated gold) and financial/environmental incentives.
- Full Text:
- Date Issued: 2017
- Authors: Ntholi, Thakane Thato Prudence
- Date: 2017
- Subjects: Water -- Purification -- South Africa Water -- Purification -- Biological treatment , Mine water -- South Africa -- Evaluation Acid mine drainage -- South Africa Environmental geochemistry -- South Africa
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/19586 , vital:28900
- Description: PUMPS mimics natural geothermal vents as a conceptual model designed for the remediation of acid mine water (AMW) in voids of abandoned gold mines of the Witwatersrand Basin in South Africa. In this system, a reaction chamber containing Desulfotomaculum kuznetsovii sulfate reducing bacteria will be set at the bottom of a 3-4 km deep mine that will be flooded. A geothermal system with at least one (1) doublet will be drilled from the bottom of the mine to the depth of 8km, where the temperatures are sufficient for geothermal energy harvesting. AMW, used as a geothermal fluid, will be pumped down the injection well and circulate through hot rock. The hot water is then used to generate electricity and then channelled into the reaction chamber to undergo bio-remediation. Following treatment, the water flows back into the mine voids where it will improve the quality of untreated AMW through dilution. Eventually, the mine will be flooded with clean water that can be stored underground and/or pumped up to surface for social and ecosystem services. Following an introduction and proof of concept for the PUMPS, the research builds further on the technical and economic evaluation of the PUMPS in order to assert its viability and sustainability. The technical viability includes testing the ability for Desulfotomaculum kuznetsovii to survive in high pressure condition; quantifying the amount of energy that can be drawn from the geothermal reservoir; determining the placement and scheme of the geothermal wells; and, finally, developing a robust economic model of the system. Experiments show that Desulfotomaculum Kuznetsovii can tolerate high pressure conditions in of at least 100bar at their ideal sulfate reducing temperature of 63°C. Geochemical modelling shows that AMW can be used effectively as a geothermal fluid for PUMPS. To achieve highest efficiency and minimal fluid loss, the geothermal wells should be placed along the SSE-NNW direction, based on the known stress field across the Witwatersrand Basin. With a flow rate of 30l/s the energy drawn from the geothermal reservoir is sufficient to drive PUMPS and the surplus energy is determined by the volume of AMW treated per day. All results indicate that the PUMPS is technically and economically viable. The economic model shows that the value and viability of the PUMPS is best reflected with a comprehensive inclusion of potential revenue (for example from chemical solution mining of deep seated gold) and financial/environmental incentives.
- Full Text:
- Date Issued: 2017
A trait-based approach to identify indicators for measuring rocky reef ecosystem condition in South Africa
- Authors: Smit, Kaylee
- Date: 2020
- Subjects: Environmental management -- Evaluation , Environmental monitoring -- Methodology Marine ecology -- South Africa
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49292 , vital:41618
- Description: An important yet challenging task for effective ecosystem-based management of marine ecosystems is the reliable measurement and monitoring of changes in ecosystem condition. In South Africa, the National Biodiversity Assessment (NBA) has relied on cumulative pressure mapping, based on the calculation of cumulative impact scores, as a proxy for measures of marine ecosystem condition. While this method is practical for broad scale assessments where ecological data are lacking, there is a need to groundtruth this approach at local scales using in-situ data. The aim of this thesis was to identify potential indicators that can be used to measure the ecosystem condition of subtidal rocky reefs on the East coast of South Africa to groundtruth national pressure-based condition assessments. This thesis constituted the first attempt to conduct a comprehensive assessment of rocky reef ecosystem condition to validate national pressure-based assessments in South Africa. Based on a comprehensive literature review, a traits-based approach was selected to ensure that ecosystem structure and function were included in condition measurements. Fish and benthic community data were collected using baited remote underwater stereo-video systems (144 video samples) from the Natal Shelf ecoregion. Sampling spanned a gradient of low to high human pressures, which incorporated an effective Marine Protected Area (to define reference conditions), as well as areas exposed to intermediate levels of human pressures and a highly impacted area offshore of a large metropolitan port city. Structural and functional indicators were compared among localities and suitable functional indicators were aggregated into multimetric indices (MMIs) to provide an integrated measurement of ecosystem condition. Approximately 840 benthic biota and 10 400 fish (representing 176 identified fish species) were counted. Results showed that functional indicators, particularly size-based ones, were more effective at detecting changes in ecosystem condition compared with structural indicators based on taxonomy. Reefs in good ecological condition had a higher biomass of target species and a higher proportion of large predatory fish with more adults, compared with impacted areas. Benthic communities, however, appeared less responsive to cumulative pressures. The MMIs, using fish and benthic community data, were used to compare condition categories with those from the NBA. Results showed that the pressure-based assessments provided a reasonable proxy of broad patterns of rocky reef ecosystem condition. However, fine-scale discrepancies between results from the data-driven approach versus the proxy method suggested that broad-scale proxies might overestimate condition in some areas and underestimate it in others. To build on these results, the applicability of structural and functional indicators and MMIs were tested using an independent stereo-BRUVs dataset from the Agulhas Shelf ecoregion. Findings showed that not all MPAs were in good ecological condition compared with adjacent impacted areas, as was estimated by the NBA. However, there is a need to improve the quality of trait data and to test indicators and indices in other ecoregions, ecosystem types and in response to a broader range of improved pressure data. Furthermore, there is a need to apply innovative research to guide the calculation of thresholds for condition categories to advance condition assessments.
- Full Text:
- Date Issued: 2020
- Authors: Smit, Kaylee
- Date: 2020
- Subjects: Environmental management -- Evaluation , Environmental monitoring -- Methodology Marine ecology -- South Africa
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49292 , vital:41618
- Description: An important yet challenging task for effective ecosystem-based management of marine ecosystems is the reliable measurement and monitoring of changes in ecosystem condition. In South Africa, the National Biodiversity Assessment (NBA) has relied on cumulative pressure mapping, based on the calculation of cumulative impact scores, as a proxy for measures of marine ecosystem condition. While this method is practical for broad scale assessments where ecological data are lacking, there is a need to groundtruth this approach at local scales using in-situ data. The aim of this thesis was to identify potential indicators that can be used to measure the ecosystem condition of subtidal rocky reefs on the East coast of South Africa to groundtruth national pressure-based condition assessments. This thesis constituted the first attempt to conduct a comprehensive assessment of rocky reef ecosystem condition to validate national pressure-based assessments in South Africa. Based on a comprehensive literature review, a traits-based approach was selected to ensure that ecosystem structure and function were included in condition measurements. Fish and benthic community data were collected using baited remote underwater stereo-video systems (144 video samples) from the Natal Shelf ecoregion. Sampling spanned a gradient of low to high human pressures, which incorporated an effective Marine Protected Area (to define reference conditions), as well as areas exposed to intermediate levels of human pressures and a highly impacted area offshore of a large metropolitan port city. Structural and functional indicators were compared among localities and suitable functional indicators were aggregated into multimetric indices (MMIs) to provide an integrated measurement of ecosystem condition. Approximately 840 benthic biota and 10 400 fish (representing 176 identified fish species) were counted. Results showed that functional indicators, particularly size-based ones, were more effective at detecting changes in ecosystem condition compared with structural indicators based on taxonomy. Reefs in good ecological condition had a higher biomass of target species and a higher proportion of large predatory fish with more adults, compared with impacted areas. Benthic communities, however, appeared less responsive to cumulative pressures. The MMIs, using fish and benthic community data, were used to compare condition categories with those from the NBA. Results showed that the pressure-based assessments provided a reasonable proxy of broad patterns of rocky reef ecosystem condition. However, fine-scale discrepancies between results from the data-driven approach versus the proxy method suggested that broad-scale proxies might overestimate condition in some areas and underestimate it in others. To build on these results, the applicability of structural and functional indicators and MMIs were tested using an independent stereo-BRUVs dataset from the Agulhas Shelf ecoregion. Findings showed that not all MPAs were in good ecological condition compared with adjacent impacted areas, as was estimated by the NBA. However, there is a need to improve the quality of trait data and to test indicators and indices in other ecoregions, ecosystem types and in response to a broader range of improved pressure data. Furthermore, there is a need to apply innovative research to guide the calculation of thresholds for condition categories to advance condition assessments.
- Full Text:
- Date Issued: 2020
An investigation of plant conservation strategies employed in Makhanda, South Africa: an educational exploration
- Authors: Cimi, Pumlani Viwe
- Date: 2019
- Subjects: Plant conservation , Rare plants Biodiversity conservation
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/37979 , vital:34276
- Description: The school curriculum in South Africa gives educators the freedom to design and organise learning experiences according to their local circumstances and availability of resources. In that context, this study advocates conservation education through use of plants on school grounds and visits to local herbaria and botanical gardens as part of the school curriculum. Trees growing on street verges in town suburbs are also a resource that could be using for teaching. School learners from three schools representing different areas of Makhanda (Grahamstown) participated in plant-related activities and were surveyed to determine their prior knowledge about plants and plant conservation. Learners answered a series of questions in writing using a funnel sequence and the inverted funnel sequence in questionnaire design. This motivated respondents to co-operate and fully complete a questionnaire. In addition, the non-participant observation technique was used to capture behavioural reactions to the activities in order to supplement the data generated through questionnaires and interviews. This proved to be a purposeful, systematic and a selective way of watching and listening to an interaction phenomenon as it takes place. Interviews and questionnaires revealed that most Makhanda residents (especially in rural and township areas) use traditional medicine and medicinal plants to treat many diseases. They also use plants for cultural activities. Traditional remedies are practised among the rural and township communities because of ease of availability, convenience, and also due to social, psychological and cultural reasons. Medicinal plants have been increasingly recognized for their role not only for health care, but also for improving the economic status. Community members and street vendors were also questioned using semi-structured interviews. Open-ended questions were used successfully to assess the person’s knowledge, attitudes, opinions, beliefs and feelings. This type of interview ensures that a specific question does not lose its purpose. These interviews were used to determine how community members see, interpret and relate to nature. In the interviews, I also assessed the real needs of the local communities because there is a tendency to think that our power, knowledge and resources can give us the right to predict what communities really need without actually asking them. When our imposed initiatives fail, we often accuse these communities of a lack of interest in our issue of interest. Documents on plants and their uses kept in the Selmar Schönland Herbarium were compared with the information given by community members and street vendors. Xhosa plant names and ethnobotanical information given by the community members and street vendors was used to augment existing information on plant use. A further aim of this study was to investigate the potential use of plant resources provided by the street trees and gardens for education. Makhanda streets were sampled and, of the 1 435 plants that were countered from 17 streets, only 15 indigenous species were represented, while 20 alien species were recorded. These trees can be used for lessons on both alien and indigenous plants. Notable differences in tree density and species richness were evident across suburbs with the highest density and richness found in the more affluent suburbs and poor representation of trees in the township. This will affect learner perceptions and viewpoints. The results from the analysed data revealed that use of the school grounds, botanical gardens, the local herbarium and town streets are effective in plant conservation education in schools and communities. These types of resources could be used for environmental education for future generations in South Africa and all over the world.
- Full Text:
- Date Issued: 2019
- Authors: Cimi, Pumlani Viwe
- Date: 2019
- Subjects: Plant conservation , Rare plants Biodiversity conservation
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/37979 , vital:34276
- Description: The school curriculum in South Africa gives educators the freedom to design and organise learning experiences according to their local circumstances and availability of resources. In that context, this study advocates conservation education through use of plants on school grounds and visits to local herbaria and botanical gardens as part of the school curriculum. Trees growing on street verges in town suburbs are also a resource that could be using for teaching. School learners from three schools representing different areas of Makhanda (Grahamstown) participated in plant-related activities and were surveyed to determine their prior knowledge about plants and plant conservation. Learners answered a series of questions in writing using a funnel sequence and the inverted funnel sequence in questionnaire design. This motivated respondents to co-operate and fully complete a questionnaire. In addition, the non-participant observation technique was used to capture behavioural reactions to the activities in order to supplement the data generated through questionnaires and interviews. This proved to be a purposeful, systematic and a selective way of watching and listening to an interaction phenomenon as it takes place. Interviews and questionnaires revealed that most Makhanda residents (especially in rural and township areas) use traditional medicine and medicinal plants to treat many diseases. They also use plants for cultural activities. Traditional remedies are practised among the rural and township communities because of ease of availability, convenience, and also due to social, psychological and cultural reasons. Medicinal plants have been increasingly recognized for their role not only for health care, but also for improving the economic status. Community members and street vendors were also questioned using semi-structured interviews. Open-ended questions were used successfully to assess the person’s knowledge, attitudes, opinions, beliefs and feelings. This type of interview ensures that a specific question does not lose its purpose. These interviews were used to determine how community members see, interpret and relate to nature. In the interviews, I also assessed the real needs of the local communities because there is a tendency to think that our power, knowledge and resources can give us the right to predict what communities really need without actually asking them. When our imposed initiatives fail, we often accuse these communities of a lack of interest in our issue of interest. Documents on plants and their uses kept in the Selmar Schönland Herbarium were compared with the information given by community members and street vendors. Xhosa plant names and ethnobotanical information given by the community members and street vendors was used to augment existing information on plant use. A further aim of this study was to investigate the potential use of plant resources provided by the street trees and gardens for education. Makhanda streets were sampled and, of the 1 435 plants that were countered from 17 streets, only 15 indigenous species were represented, while 20 alien species were recorded. These trees can be used for lessons on both alien and indigenous plants. Notable differences in tree density and species richness were evident across suburbs with the highest density and richness found in the more affluent suburbs and poor representation of trees in the township. This will affect learner perceptions and viewpoints. The results from the analysed data revealed that use of the school grounds, botanical gardens, the local herbarium and town streets are effective in plant conservation education in schools and communities. These types of resources could be used for environmental education for future generations in South Africa and all over the world.
- Full Text:
- Date Issued: 2019
An investigation of the effect of co-solvents on the hydrothermal liquefaction of microalgae biomass
- Authors: Nongauza, Sinethemba Aubrey
- Date: 2015
- Subjects: Biomass chemicals Microalgae -- Biotechnology , Supercritical fluids Solvents
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/21667 , vital:29731
- Description: The study introduces and demonstrates the viability of the continuous flow reactor (CFR) system for the production of bio-crude oil (BCO) from wet microalgae. Preliminary experiments conducted in the CFR system in hot compressed water (HCW) were successful in converting wet microalgae into liquid BCO. However, the synthesis and aggregation of high boiling point (HBP) components of BCO and the accumulation of char in the tubular piping of CFR system were identified as the limiting factor to the viability of the system. The aggregation of HBP components and the accumulation of char result to system blockage which prevents the continuous flow of the liquefaction product mixture in the CFR system. Inhibiting the reactions leading to the formation of HBP components and char will improve the performance of the CFR system. Therefore, the study seeks to incorporate co-solvents in the liquefaction reaction media in an attempt to inhibit or minimize the prevalence of HBP components of BCO. As such, different co-solvents were screened for their influence on improving the quality of BCO with respect to its boiling point profile (BPP), initial and final boiling point, as well as the amount of char recovered from each experiment. Only one co-solvent was chosen for further exploration in the CFR system. Batch liquefaction reactor’s (BLR) made up of stainless steel were used to carry out the co-solvent screening experiments. These experiments were carried out at a constant temperature (280 °C), pressure (75 bar), and co-solvent concentration (10 wt.%), at varying residence times. Solvent extraction with dichloromethane (DCM) was performed on the liquefaction product mixture to separate the products, viz. BCO, char and water soluble components. The extracted BCO was analysed through simulated distillation (SimDis) to obtain the BPP. The BPP properties of the BCO samples, from different liquefaction media, and the amount of char recovered were highly influenced by the addition of a co-solvent. The final boiling point (FBP) of tetralin, heptane, and n-octanol BCO products were significantly reduced to below 500 °C for all tested residence times except at 20 minutes. The residence time also proved to be influential in the processing of wet microalgae. n-Octanol was selected as the optimal performing co-solvent and was used for the continuous liquefaction of wet microalgae in the CFR system. The CFR system was modified by adding a co-solvent feed line into the continuous system since n-octanol was insoluble in water. The n-octanol pump was set at different flow rates, 0.2, 0.3, and 0.4 g/min, which resulted in a concentration of about 10 wt.% in the reactor feed. The concentration of n-octanol had a significant influence on the BPP of BCO components. The FBP’s were reduced with an increase in n-octanol concentration. The initial boiling point (IBP) of n-octanol BCO was increased to just above 100 °C which was required for the stability of the BCO product. The components of BCO were identified by GCMS. n-Octanol also proved to affect the composition of the BCO with respect to its components. HCW BCO components were significantly different from those identified from n-octanol BCO. A second co-solvent (tetralin) was used to prove whether the difference on the components of BCO was affected by n-octanol. The results proved that indeed the addition of different solvents in liquefaction reaction media favours the formation of different components. The amount of char formed was also reduced when using a co-solvent. A decrease in the oxygen/nitrogen compounds was also observed in the presence of a co-solvent, thus improving BCO properties.
- Full Text:
- Date Issued: 2015
An investigation of the effect of co-solvents on the hydrothermal liquefaction of microalgae biomass
- Authors: Nongauza, Sinethemba Aubrey
- Date: 2015
- Subjects: Biomass chemicals Microalgae -- Biotechnology , Supercritical fluids Solvents
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/21667 , vital:29731
- Description: The study introduces and demonstrates the viability of the continuous flow reactor (CFR) system for the production of bio-crude oil (BCO) from wet microalgae. Preliminary experiments conducted in the CFR system in hot compressed water (HCW) were successful in converting wet microalgae into liquid BCO. However, the synthesis and aggregation of high boiling point (HBP) components of BCO and the accumulation of char in the tubular piping of CFR system were identified as the limiting factor to the viability of the system. The aggregation of HBP components and the accumulation of char result to system blockage which prevents the continuous flow of the liquefaction product mixture in the CFR system. Inhibiting the reactions leading to the formation of HBP components and char will improve the performance of the CFR system. Therefore, the study seeks to incorporate co-solvents in the liquefaction reaction media in an attempt to inhibit or minimize the prevalence of HBP components of BCO. As such, different co-solvents were screened for their influence on improving the quality of BCO with respect to its boiling point profile (BPP), initial and final boiling point, as well as the amount of char recovered from each experiment. Only one co-solvent was chosen for further exploration in the CFR system. Batch liquefaction reactor’s (BLR) made up of stainless steel were used to carry out the co-solvent screening experiments. These experiments were carried out at a constant temperature (280 °C), pressure (75 bar), and co-solvent concentration (10 wt.%), at varying residence times. Solvent extraction with dichloromethane (DCM) was performed on the liquefaction product mixture to separate the products, viz. BCO, char and water soluble components. The extracted BCO was analysed through simulated distillation (SimDis) to obtain the BPP. The BPP properties of the BCO samples, from different liquefaction media, and the amount of char recovered were highly influenced by the addition of a co-solvent. The final boiling point (FBP) of tetralin, heptane, and n-octanol BCO products were significantly reduced to below 500 °C for all tested residence times except at 20 minutes. The residence time also proved to be influential in the processing of wet microalgae. n-Octanol was selected as the optimal performing co-solvent and was used for the continuous liquefaction of wet microalgae in the CFR system. The CFR system was modified by adding a co-solvent feed line into the continuous system since n-octanol was insoluble in water. The n-octanol pump was set at different flow rates, 0.2, 0.3, and 0.4 g/min, which resulted in a concentration of about 10 wt.% in the reactor feed. The concentration of n-octanol had a significant influence on the BPP of BCO components. The FBP’s were reduced with an increase in n-octanol concentration. The initial boiling point (IBP) of n-octanol BCO was increased to just above 100 °C which was required for the stability of the BCO product. The components of BCO were identified by GCMS. n-Octanol also proved to affect the composition of the BCO with respect to its components. HCW BCO components were significantly different from those identified from n-octanol BCO. A second co-solvent (tetralin) was used to prove whether the difference on the components of BCO was affected by n-octanol. The results proved that indeed the addition of different solvents in liquefaction reaction media favours the formation of different components. The amount of char formed was also reduced when using a co-solvent. A decrease in the oxygen/nitrogen compounds was also observed in the presence of a co-solvent, thus improving BCO properties.
- Full Text:
- Date Issued: 2015
AP-MOVPE growth and characterisation of GaSb/GaAs quantum dots
- Authors: Tile, Ngcali
- Date: 2018
- Subjects: Quantum theory , Quantum electronics Quantum dots Semiconductors
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/36716 , vital:34047
- Description: GaSb/GaAs quantum dots (QD) were grown by atmospheric pressure (AP) metal-organic vapour phase epitaxy (MOVPE) using triethylgallium (TEGa), tertiarybutylarsine (tBAs) and trimethylantimony (TMSb) as gallium (Ga), arsenic (As) and (Sb) sources, respectively. The effect of AP-MOVPE growth parameters on the formation of GaSb QD structures on GaAs was studied. The formation of small, coherent GaSb dots on GaAs improved with decreasing V/III ratios, which were controlled through changing either the TMSb/TEGa ratio at a constant growth temperature or changing the growth temperature at a constant TMSb/TEGa ratio. The maximum effective V/III ratio for dot formation was 0.175. The dot density was more sensitive to growth time than to source mole fraction in the reactor, since time determines the amount of deposited material. The dot density increased with increasing growth time, while the shape and size of the dots were more sensitive to the source vapour mole fraction, which controls the growth rate. Lower mole fractions resulted in smaller sized dots with a more uniform distribution compared to higher mole fractions. Dome-shaped dots with densities as high as 4×1010 cm-2, average base length of 35 nm and average height of 5 nm were achieved. Capping of GaSb QDs at high temperatures caused flattening and the formation of a thin, inhomogeneous GaSb layer inside GaAs. No obvious QD photoluminescence (PL) peak was detected for these samples. A two stage process for capping the dots (involving growth of a low temperature GaAs cap, followed by a high temperature cap) led to the retention of the dot-like features in/on a wetting layer (WL) of GaSb and distinct PL peaks for both the QDs and WL. An increase in excitation power during PL measurements for this particular sample caused the QD and WL peaks to shift to higher energies. This is attributed to electrostatic band bending, leading to triangular potential wells, typical for type II band alignment between GaAs and strained GaSb. Variable temperature PL measurements showed the decrease in the intensity of the WL peak to be faster than that of the QD peak as the measurement temperature increased. A detailed high resolution transmission electron microscopy analysis was performed to study the morphology and chemical interaction between GaAs and GaSb regions for capped GaSb/GaAs QDs. The capped dots had dimensions similar to those of uncapped dots and had a higher concentration of Sb at their center, with the periphery being intermixed with GaAs. Measurement of lattice strain performed inside these dots revealed the strain to be distributed inhomogenously throughout the dot area. The effect of GaAs host matrix on excitonic behaviour in AP-MOVPE grown GaSb/GaAs quantum dots was investigated. Room temperature (RT) PL emission was achieved from a single layer of quantum dots by controlling the GaAs host matrix growth temperature. These samples were prepared using a GaSb dot growth temperature of 530 °C, followed by growth of a thin GaAs ‘cold’ cap, before depositing the final part of the GaAs capping layer at either 550 °C, 600 °C or 650 °C. PL measurements at 10 K revealed QD emission peaks for all the samples at around 1.1 eV. However, variable temperature PL revealed different thermal quenching rates of the emission, with the rates of quenching reduced with increasing GaAs growth temperature. This was ascribed to reduced defect densities in GaAs grown at higher temperature, which resulted in QD emission even at RT. This RT emission peaked at approximately 1 eV. The hole localisation energy determined for these samples at RT was approximately 470 meV.
- Full Text:
- Date Issued: 2018
- Authors: Tile, Ngcali
- Date: 2018
- Subjects: Quantum theory , Quantum electronics Quantum dots Semiconductors
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/36716 , vital:34047
- Description: GaSb/GaAs quantum dots (QD) were grown by atmospheric pressure (AP) metal-organic vapour phase epitaxy (MOVPE) using triethylgallium (TEGa), tertiarybutylarsine (tBAs) and trimethylantimony (TMSb) as gallium (Ga), arsenic (As) and (Sb) sources, respectively. The effect of AP-MOVPE growth parameters on the formation of GaSb QD structures on GaAs was studied. The formation of small, coherent GaSb dots on GaAs improved with decreasing V/III ratios, which were controlled through changing either the TMSb/TEGa ratio at a constant growth temperature or changing the growth temperature at a constant TMSb/TEGa ratio. The maximum effective V/III ratio for dot formation was 0.175. The dot density was more sensitive to growth time than to source mole fraction in the reactor, since time determines the amount of deposited material. The dot density increased with increasing growth time, while the shape and size of the dots were more sensitive to the source vapour mole fraction, which controls the growth rate. Lower mole fractions resulted in smaller sized dots with a more uniform distribution compared to higher mole fractions. Dome-shaped dots with densities as high as 4×1010 cm-2, average base length of 35 nm and average height of 5 nm were achieved. Capping of GaSb QDs at high temperatures caused flattening and the formation of a thin, inhomogeneous GaSb layer inside GaAs. No obvious QD photoluminescence (PL) peak was detected for these samples. A two stage process for capping the dots (involving growth of a low temperature GaAs cap, followed by a high temperature cap) led to the retention of the dot-like features in/on a wetting layer (WL) of GaSb and distinct PL peaks for both the QDs and WL. An increase in excitation power during PL measurements for this particular sample caused the QD and WL peaks to shift to higher energies. This is attributed to electrostatic band bending, leading to triangular potential wells, typical for type II band alignment between GaAs and strained GaSb. Variable temperature PL measurements showed the decrease in the intensity of the WL peak to be faster than that of the QD peak as the measurement temperature increased. A detailed high resolution transmission electron microscopy analysis was performed to study the morphology and chemical interaction between GaAs and GaSb regions for capped GaSb/GaAs QDs. The capped dots had dimensions similar to those of uncapped dots and had a higher concentration of Sb at their center, with the periphery being intermixed with GaAs. Measurement of lattice strain performed inside these dots revealed the strain to be distributed inhomogenously throughout the dot area. The effect of GaAs host matrix on excitonic behaviour in AP-MOVPE grown GaSb/GaAs quantum dots was investigated. Room temperature (RT) PL emission was achieved from a single layer of quantum dots by controlling the GaAs host matrix growth temperature. These samples were prepared using a GaSb dot growth temperature of 530 °C, followed by growth of a thin GaAs ‘cold’ cap, before depositing the final part of the GaAs capping layer at either 550 °C, 600 °C or 650 °C. PL measurements at 10 K revealed QD emission peaks for all the samples at around 1.1 eV. However, variable temperature PL revealed different thermal quenching rates of the emission, with the rates of quenching reduced with increasing GaAs growth temperature. This was ascribed to reduced defect densities in GaAs grown at higher temperature, which resulted in QD emission even at RT. This RT emission peaked at approximately 1 eV. The hole localisation energy determined for these samples at RT was approximately 470 meV.
- Full Text:
- Date Issued: 2018
Assemblage dynamics of larval fishes associated with various shallow water nursery habitats in Algoa Bay, South Africa
- Authors: Pattrick, Paula
- Date: 2013
- Subjects: Spawning -- South Africa -- Algoa Bay , Fishes -- Larvae -- South Africa -- Algoa Bay
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: vital:10727 , http://hdl.handle.net/10948/d1021042
- Description: The success of the larval stage in fishes plays a critical role in structuring adult fish populations. It is well understood that juveniles of many marine fish species are closely associated with nearshore and coastal habitats that serve as nursery areas while adult assemblages are more widely distributed. The larval phase however, particularly pertaining to nursery habitat use, remains poorly understood in South Africa. A mixed-method, larval and juvenile fish study was conducted in the warm-temperate shallow coastal waters of Algoa Bay, South Africa. Two years (2010 – 2012) of seasonal sampling at 27 stations at various habitat types revealed distinct spatio-temporal patterns in larval fish composition and abundance. In total, 164 species from 50 families were collected in the nearshore (<30 m), over reef and sand, in the surf zone and large estuarine habitats in Algoa Bay. Engraulidae dominated the larval fish catch in the nearshore (38.4 percent) and over the selected reef and sand habitats (37.8 percent). Cynoglossidae (28.1 percent) and Sparidae (8.4 percent) were the second and third most abundant fish families in the nearshore. In subtidal reef and sand habitats, Gobiidae (23.4 percent) and Clupeidae (9.2 percent) were the second and third most abundant families respectively. Sparidae dominated (71.4 percent) surf zones followed by Soleidae (10.8 percent) and Mugilidae (5.3 percent), while in the mouth area of two permanently open estuaries in Algoa Bay, Gobiidae (35.9 percent) Sparidae (30.1 percent) and Mugilidae (12.4 percent) dominated. Several species from the Blenniidae, Gobiesocidae, Gobiidae, Scorpaenidae and Tripterygiidae fish families complete their pelagic larval phase in the reef habitats in Algoa Bay. These reef habitats therefore serve as important nursery areas for the larvae of benthic species. The sand and nearshore habitats serve as nursery areas for Clupeidae and Engraulidae. Highest densities of Carangidae, Sciaenidae and Sparidae larvae were observed at the subtidal reef habitats indicating that this area is important for accumulation of the early developmental stages of these fishes. The nearshore serves as an important accumulation habitat for species in the Haemulidae and Soleidae families whose juveniles are known to recruit into estuarine nursery areas. The nearshore therefore is a specific area of presettlement buildup of larvae prior to settlement of larvae or juveniles in estuarine nursery areas. Cynoglossidae larvae are also using the nearshore as an accumulation area prior to settlement and recruitment into adult populations occurring in shallow water habitats. In the surf zone, not only are estuary-dependent fish species utilizing this habitat as a nursery area, but marinespecies whose adults are either associated with rocky shores or surf zones are similarly using these areas as nursery habitats. In addition, estuary-dependent fish species which spawn in the marine environment are actively recruiting into estuarine nursery areas on both tides. Active recruitment against the outgoing ebb tide flow was a conclusive finding in this study. These larvae and juveniles are actively swimming against the ebb tide in the shallower, slower-flowing marginal areas where current flow is reduced. Strong environmental gradients on multiple temporal and spatial scales occur in Algoa Bay. Seasonal patterns were evident in larval densities, richness and diversity. Peaks in density, richness and diversity occurred during spring and summer (September to February) associated with increasing water temperatures and a high productivity providing a good food environment for larval fishes. Thereafter densities declined steadily as a result of natural mortality, settlement or adult spawning activity, until autumn when numbers dropped suddenly as the surviving larvae moved to settlement habitats. The relationship between larval fish and environmental variables provides information useful to determine distributions. Therefore the Bay is particularly suited for modelling larval fish distributions. Using generalized linear models, larval fish density in the nearshore of Algoa Bay responded to different ocean features to varying degrees. Larval fish density responded positively to both upwelling and when warm water plumes, originating from an Agulhas Current meander, entered Algoa Bay. On subtidal reefs, habitat complexity played an important role in determining larval fish composition and diversity. The less structurally complex, reefassociated sand habitats, yielded higher species richness and diversity than the high and low profile reef habitats. Therefore, it is likely that the importance of less structurally complex habitats has been overlooked relative to other habitats in terms of their function for larval fishes. In the surf zone, wave period and wave height, which can be related to exposure, were the most significant environmental factors influencing larval fish assemblages. Greatest species diversity was observed in the surf zone habitats heavily influenced by wave action in the windward sector of Algoa Bay. The identification of spawning areas and the mapping of distributions of early developmental stages of fishes are important in providing data pertaining to the protection of these habitats. This is particularly relevant as a new marine protected area MPA)is planned for the eastern sector of Algoa Bay. Results from retrogressive plots indicate that the spawning locations of several species of coastal and pelagic fishes are occurring outside of the Bay, with the bay therefore serving as an accumulation area. Furthermore, distribution modelling results demonstrate that the early developmental stages of fishes in the shallow coastal habitats of Algoa Bay exhibit high spatial variability in their distributions. Results presented in this thesis help fill the knowledge gaps critical to the understanding of larval fish nursery areas of several economically and ecologically important fish species in Algoa Bay.
- Full Text:
- Date Issued: 2013
- Authors: Pattrick, Paula
- Date: 2013
- Subjects: Spawning -- South Africa -- Algoa Bay , Fishes -- Larvae -- South Africa -- Algoa Bay
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: vital:10727 , http://hdl.handle.net/10948/d1021042
- Description: The success of the larval stage in fishes plays a critical role in structuring adult fish populations. It is well understood that juveniles of many marine fish species are closely associated with nearshore and coastal habitats that serve as nursery areas while adult assemblages are more widely distributed. The larval phase however, particularly pertaining to nursery habitat use, remains poorly understood in South Africa. A mixed-method, larval and juvenile fish study was conducted in the warm-temperate shallow coastal waters of Algoa Bay, South Africa. Two years (2010 – 2012) of seasonal sampling at 27 stations at various habitat types revealed distinct spatio-temporal patterns in larval fish composition and abundance. In total, 164 species from 50 families were collected in the nearshore (<30 m), over reef and sand, in the surf zone and large estuarine habitats in Algoa Bay. Engraulidae dominated the larval fish catch in the nearshore (38.4 percent) and over the selected reef and sand habitats (37.8 percent). Cynoglossidae (28.1 percent) and Sparidae (8.4 percent) were the second and third most abundant fish families in the nearshore. In subtidal reef and sand habitats, Gobiidae (23.4 percent) and Clupeidae (9.2 percent) were the second and third most abundant families respectively. Sparidae dominated (71.4 percent) surf zones followed by Soleidae (10.8 percent) and Mugilidae (5.3 percent), while in the mouth area of two permanently open estuaries in Algoa Bay, Gobiidae (35.9 percent) Sparidae (30.1 percent) and Mugilidae (12.4 percent) dominated. Several species from the Blenniidae, Gobiesocidae, Gobiidae, Scorpaenidae and Tripterygiidae fish families complete their pelagic larval phase in the reef habitats in Algoa Bay. These reef habitats therefore serve as important nursery areas for the larvae of benthic species. The sand and nearshore habitats serve as nursery areas for Clupeidae and Engraulidae. Highest densities of Carangidae, Sciaenidae and Sparidae larvae were observed at the subtidal reef habitats indicating that this area is important for accumulation of the early developmental stages of these fishes. The nearshore serves as an important accumulation habitat for species in the Haemulidae and Soleidae families whose juveniles are known to recruit into estuarine nursery areas. The nearshore therefore is a specific area of presettlement buildup of larvae prior to settlement of larvae or juveniles in estuarine nursery areas. Cynoglossidae larvae are also using the nearshore as an accumulation area prior to settlement and recruitment into adult populations occurring in shallow water habitats. In the surf zone, not only are estuary-dependent fish species utilizing this habitat as a nursery area, but marinespecies whose adults are either associated with rocky shores or surf zones are similarly using these areas as nursery habitats. In addition, estuary-dependent fish species which spawn in the marine environment are actively recruiting into estuarine nursery areas on both tides. Active recruitment against the outgoing ebb tide flow was a conclusive finding in this study. These larvae and juveniles are actively swimming against the ebb tide in the shallower, slower-flowing marginal areas where current flow is reduced. Strong environmental gradients on multiple temporal and spatial scales occur in Algoa Bay. Seasonal patterns were evident in larval densities, richness and diversity. Peaks in density, richness and diversity occurred during spring and summer (September to February) associated with increasing water temperatures and a high productivity providing a good food environment for larval fishes. Thereafter densities declined steadily as a result of natural mortality, settlement or adult spawning activity, until autumn when numbers dropped suddenly as the surviving larvae moved to settlement habitats. The relationship between larval fish and environmental variables provides information useful to determine distributions. Therefore the Bay is particularly suited for modelling larval fish distributions. Using generalized linear models, larval fish density in the nearshore of Algoa Bay responded to different ocean features to varying degrees. Larval fish density responded positively to both upwelling and when warm water plumes, originating from an Agulhas Current meander, entered Algoa Bay. On subtidal reefs, habitat complexity played an important role in determining larval fish composition and diversity. The less structurally complex, reefassociated sand habitats, yielded higher species richness and diversity than the high and low profile reef habitats. Therefore, it is likely that the importance of less structurally complex habitats has been overlooked relative to other habitats in terms of their function for larval fishes. In the surf zone, wave period and wave height, which can be related to exposure, were the most significant environmental factors influencing larval fish assemblages. Greatest species diversity was observed in the surf zone habitats heavily influenced by wave action in the windward sector of Algoa Bay. The identification of spawning areas and the mapping of distributions of early developmental stages of fishes are important in providing data pertaining to the protection of these habitats. This is particularly relevant as a new marine protected area MPA)is planned for the eastern sector of Algoa Bay. Results from retrogressive plots indicate that the spawning locations of several species of coastal and pelagic fishes are occurring outside of the Bay, with the bay therefore serving as an accumulation area. Furthermore, distribution modelling results demonstrate that the early developmental stages of fishes in the shallow coastal habitats of Algoa Bay exhibit high spatial variability in their distributions. Results presented in this thesis help fill the knowledge gaps critical to the understanding of larval fish nursery areas of several economically and ecologically important fish species in Algoa Bay.
- Full Text:
- Date Issued: 2013
Behavioural flexibility in an endangered seabird during current changes
- Authors: Traisnel, Gwendoline
- Date: 2019
- Subjects: Penguins -- South Africa , Penguins -- Behavior Sea birds -- Behavior Sea birds -- Ecology
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/43800 , vital:37048
- Description: Penguins spend a large part of their life cycle at sea and are amongst the most threatened seabirds as they suffer high mortality and have low reproductive success. Across the world, many populations are currently declining despite the constant development of conservation actions. The lack of information at the individual level reduces the understanding of individual variability and its potential role in the population dynamics of these vulnerable species. For example, long-lived species are characterised by substantial individual heterogeneity in their contribution to the overall population dynamic that should be understood when considering the implemention of conservation policies. This thesis explored some of the primary mechanisms behind inter-individual differences in behaviour and breeding success in the endangered African penguin Spheniscus demersus. On Bird island (Algoa Bay), nest defence behaviours were investigated on adults brooding chicks 1-3 weeks-old and chicks were measured at regular intervals (every 5 days) to assess their growth rate, a proxy for breeding success in this species. All adults were sexed and implanted with a passive integrated transponder which was used for individual identification. In this species, males are usually larger than females and have a higher survival rates both as juveniles and as adults. A subsample of them was equipped with tracking devices (GPSs and Time Depth Recorders), sometimes over consecutive foraging trips and across years. Finally, mate and nest fidelity were investigated to understand the drivers and consequences of this trait in that population. Breeding success was linked to nest defence behaviours, with bolder birds generally showing lower breeding success. This relation could not, however, be explained by differences in foraging strategies. Males were generally bolder than females when defending the nests, but their foraging behaviour did not vary with their personality. They generally had lower foraging effort than females. By contrast, bolder females performed more sinuous path, more wiggles and travelled larger vertical distances than shyer ones. Overall, females were more flexible than males over consecutive trips, suggesting that they probably adjust their behaviours to the offspring needs in this species. However, no sex difference in behavioural flexibility between sexes was visible across years, indicating that environmental variability may equally impact females and males’ behaviour over such time-scale. Generally, consistency was time-scale dependent as penguins increased their foraging flexibility across years, potentially adjusting to the variability of the environment. Interestingly, foraging consistency over consecutive trips increased during years of poor environmental conditions, and individuals with consistent foraging strategies were more successful than more flexible individuals when resources were extremely scarce. Finally, while nest and mate fidelity were high in this species, individuals that changed nest/partners, improved their breeding outcome. Particularly, after low breeding success females were more likely to change nest site and thereby partner to possibly improve their fitness. The potential biased adult sex ratio towards males in this population may facilitate changes in females which may have more partners available to re-mate than males. The present thesis reveals the existence of individual differences in behaviour and breeding success which relate to personality in penguins. These findings highlight the importance to integrate individual variability to predict future population dynamics in the context of global changes to understand the resilience and vulnerability of the species.
- Full Text:
- Date Issued: 2019
- Authors: Traisnel, Gwendoline
- Date: 2019
- Subjects: Penguins -- South Africa , Penguins -- Behavior Sea birds -- Behavior Sea birds -- Ecology
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/43800 , vital:37048
- Description: Penguins spend a large part of their life cycle at sea and are amongst the most threatened seabirds as they suffer high mortality and have low reproductive success. Across the world, many populations are currently declining despite the constant development of conservation actions. The lack of information at the individual level reduces the understanding of individual variability and its potential role in the population dynamics of these vulnerable species. For example, long-lived species are characterised by substantial individual heterogeneity in their contribution to the overall population dynamic that should be understood when considering the implemention of conservation policies. This thesis explored some of the primary mechanisms behind inter-individual differences in behaviour and breeding success in the endangered African penguin Spheniscus demersus. On Bird island (Algoa Bay), nest defence behaviours were investigated on adults brooding chicks 1-3 weeks-old and chicks were measured at regular intervals (every 5 days) to assess their growth rate, a proxy for breeding success in this species. All adults were sexed and implanted with a passive integrated transponder which was used for individual identification. In this species, males are usually larger than females and have a higher survival rates both as juveniles and as adults. A subsample of them was equipped with tracking devices (GPSs and Time Depth Recorders), sometimes over consecutive foraging trips and across years. Finally, mate and nest fidelity were investigated to understand the drivers and consequences of this trait in that population. Breeding success was linked to nest defence behaviours, with bolder birds generally showing lower breeding success. This relation could not, however, be explained by differences in foraging strategies. Males were generally bolder than females when defending the nests, but their foraging behaviour did not vary with their personality. They generally had lower foraging effort than females. By contrast, bolder females performed more sinuous path, more wiggles and travelled larger vertical distances than shyer ones. Overall, females were more flexible than males over consecutive trips, suggesting that they probably adjust their behaviours to the offspring needs in this species. However, no sex difference in behavioural flexibility between sexes was visible across years, indicating that environmental variability may equally impact females and males’ behaviour over such time-scale. Generally, consistency was time-scale dependent as penguins increased their foraging flexibility across years, potentially adjusting to the variability of the environment. Interestingly, foraging consistency over consecutive trips increased during years of poor environmental conditions, and individuals with consistent foraging strategies were more successful than more flexible individuals when resources were extremely scarce. Finally, while nest and mate fidelity were high in this species, individuals that changed nest/partners, improved their breeding outcome. Particularly, after low breeding success females were more likely to change nest site and thereby partner to possibly improve their fitness. The potential biased adult sex ratio towards males in this population may facilitate changes in females which may have more partners available to re-mate than males. The present thesis reveals the existence of individual differences in behaviour and breeding success which relate to personality in penguins. These findings highlight the importance to integrate individual variability to predict future population dynamics in the context of global changes to understand the resilience and vulnerability of the species.
- Full Text:
- Date Issued: 2019
Benzoyl isothiocyanates derived ligands as potential HIV-1 protease inhibitors and their reactions with gold ions
- Authors: Odame, Felix
- Date: 2016
- Subjects: HIV (Viruses) -- Enzymes Enzyme inhibitors -- Research , Pharmaceutical chemistry Biochemistry
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/33228 , vital:32585
- Description: The synthesis and evaluation of benzoyl isothiocyanate derivatives as potential HIV-1 protease inhibitors is presented. The ligands were first designed to fit the protease active site using Autodock 4.2. The design was based on the deNOVO method of drug design in which the active site coordinates from the crystal structure of protease bound to ritonavir was used. An attempt to access the scaffolds designed initially led to the formation of 2,2,4-trimethyl 2,3-dihydro-1H-1,5-benzodiazepin-5-ium isophthalate and 2-2-(3-methylphenyl-1Hbenzimidazole which could not be converted to the desired intermediate. A further attempt led to formation of amino acid and amino acid ester derivatives of benzoyl isothiocyanates which have been fully characterized and the reasons why the desired intermediates were not readily accessible explained. Scaffolds based on the benzoyl isothiocyanate derivatives of structurally diverse diamines were then screened. Sixty compounds have been synthesized and fully characterized using elemental analysis, spectroscopy, GC-MS and twenty-six crystal structures have been discussed. The DFT transition state studies of 11-phenyl- 1,8,10,12-tetraazatricyclo[7.4.0.02,7]trideca-2(7),3,5,9,11-pentaene-13-thione (20), N-(1Hbenzimidazol-2-yl)benzamide (21), 3-(1,3-benzothiazol-2-yl)-1-(benzoyl)thiourea (23), and N-[(9E)-8,10,17-triazatetracyclo[8.7.0.02,7.011,16]heptadeca-1(17),2,4,6,11(16),12,14-heptaen-9-ylidene] benzamide (39), have been carried out and their detailed density functional theory reaction mechanism have be computed. The Bernly algorithm was used in the determination of saddle points (transtions states), and the intrinsic reaction coordinates leading to the determination of intermediates were traced and optimized to a global minimum or in some cases a local minimum was obtained. The cell viability tests of diamine derivatives which was done by exposing white blood cells to the compounds (inhibitors) at 37 °C and a pH of 7.4 showed that 1-(4-bromobenzoyl)-3-[2- ({[(4-bromophenyl)formamido]methanethioyl}amino)phenyl]thiourea (46), 1-(3-chloro benzoyl)-3-[2-({[(3-chlorophenyl)formamido]methanethioyl}amino)phenyl]thiourea (48), 1- (3-bromobenzoyl)-3-[2-({[(3-bromophenyl)formamido]methanethioyl}amino)phenyl] thiourea (49) and 3-benzoyl-1-(4-{[(phenylformamido)methanethioyl]amino}butyl)thiourea (54), in that group of compounds were cytotoxic with EC50 values of 17.04 ± 9.75 μM, 69.20± 38.16 μM, 35.90 ± 20.55 μM and 68.37 ± 26.45 μM, respectively. 4-Bromo-N-[(9E)-8,10,17-triazatetracyclo[8.7.0.02,7.011,16]heptadeca-1(17),2,4,6,11(16),12,14-heptaen-9-ylidene] benzamide (32), 4-methoxy-N-[(9E)-8,10,17-triazatetracyclo[8.7.0.02,7.011,16]heptadeca-1(17),2,4,6,11(16),12,14-heptaen-9-ylidene]benzamide (33) and 3-chloro-N-[(9E)-8,10,17-triazatetracyclo[8.7.0.02,7.011,16]heptadeca-1(17),2,4,6,11(16),12,14-heptaen-9-ylidene] benzamide (37) were also cytotoxic giving EC50 values of 45.47 ± 21.92, 45.09 ±13.79 and 74.94 ± 13.17 μM, respectively. 3-(1,3-Benzothiazol-2-yl)-1-(3-bromobenzoyl)thiourea (31) and 3-(1,3-benzothiazoyl-2-yl)-1-(4-nitrobenzoyl)thiourea (30) derivatives were also found to be cytotoxic with EC50 values of 1.207 ± 0.58 and 24.08 ±13.14 nM, respectively. 11-(4-Chlorophenyl-1,8,10, 12-tetraazatricyclo[7.4.0.02,7]trideca-2(7),3,5,9,11-pentaene-13-thione (12), 11-(4-methoxyphenyl)-1,8,10,12-tetraazatricyclo[7.4.0.02,7]trideca-2(7),3,9,1-pentaene-13-thione (14), and 11-phenyl-1,8,10,12-tetraazatricyclo[7.4.0.02,7]trideca-2(7),3,5,9,11-pentaene-13-thione (20), were found to be cytotoxic giving EC50 values of 0.152 ± 0.051, 37.96 ± 21.87 and 5.28 ± 2.95 μM, respectively. In the enzyme inhibition studies compound 49 gave a percentage inhibition of 97.03 ± 10.61% at 100 μM, but the fact that it is cytoxic might make it less useful, whilst compounds 19 and 16 had a percentage inhibition of 59.57 ± 13.59% (4-nitro derivative) and 79.97 ± 11.97% (3-nitro derivative) respectively at 100 μM of inhibitor and 20 μM of enzyme (HIV-1 protease). The results suggests that the presence of the nitro group at position 3 (16) and 4 (19) leads to an increase in activity against HIV-1 protease.
- Full Text:
- Date Issued: 2016
- Authors: Odame, Felix
- Date: 2016
- Subjects: HIV (Viruses) -- Enzymes Enzyme inhibitors -- Research , Pharmaceutical chemistry Biochemistry
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/33228 , vital:32585
- Description: The synthesis and evaluation of benzoyl isothiocyanate derivatives as potential HIV-1 protease inhibitors is presented. The ligands were first designed to fit the protease active site using Autodock 4.2. The design was based on the deNOVO method of drug design in which the active site coordinates from the crystal structure of protease bound to ritonavir was used. An attempt to access the scaffolds designed initially led to the formation of 2,2,4-trimethyl 2,3-dihydro-1H-1,5-benzodiazepin-5-ium isophthalate and 2-2-(3-methylphenyl-1Hbenzimidazole which could not be converted to the desired intermediate. A further attempt led to formation of amino acid and amino acid ester derivatives of benzoyl isothiocyanates which have been fully characterized and the reasons why the desired intermediates were not readily accessible explained. Scaffolds based on the benzoyl isothiocyanate derivatives of structurally diverse diamines were then screened. Sixty compounds have been synthesized and fully characterized using elemental analysis, spectroscopy, GC-MS and twenty-six crystal structures have been discussed. The DFT transition state studies of 11-phenyl- 1,8,10,12-tetraazatricyclo[7.4.0.02,7]trideca-2(7),3,5,9,11-pentaene-13-thione (20), N-(1Hbenzimidazol-2-yl)benzamide (21), 3-(1,3-benzothiazol-2-yl)-1-(benzoyl)thiourea (23), and N-[(9E)-8,10,17-triazatetracyclo[8.7.0.02,7.011,16]heptadeca-1(17),2,4,6,11(16),12,14-heptaen-9-ylidene] benzamide (39), have been carried out and their detailed density functional theory reaction mechanism have be computed. The Bernly algorithm was used in the determination of saddle points (transtions states), and the intrinsic reaction coordinates leading to the determination of intermediates were traced and optimized to a global minimum or in some cases a local minimum was obtained. The cell viability tests of diamine derivatives which was done by exposing white blood cells to the compounds (inhibitors) at 37 °C and a pH of 7.4 showed that 1-(4-bromobenzoyl)-3-[2- ({[(4-bromophenyl)formamido]methanethioyl}amino)phenyl]thiourea (46), 1-(3-chloro benzoyl)-3-[2-({[(3-chlorophenyl)formamido]methanethioyl}amino)phenyl]thiourea (48), 1- (3-bromobenzoyl)-3-[2-({[(3-bromophenyl)formamido]methanethioyl}amino)phenyl] thiourea (49) and 3-benzoyl-1-(4-{[(phenylformamido)methanethioyl]amino}butyl)thiourea (54), in that group of compounds were cytotoxic with EC50 values of 17.04 ± 9.75 μM, 69.20± 38.16 μM, 35.90 ± 20.55 μM and 68.37 ± 26.45 μM, respectively. 4-Bromo-N-[(9E)-8,10,17-triazatetracyclo[8.7.0.02,7.011,16]heptadeca-1(17),2,4,6,11(16),12,14-heptaen-9-ylidene] benzamide (32), 4-methoxy-N-[(9E)-8,10,17-triazatetracyclo[8.7.0.02,7.011,16]heptadeca-1(17),2,4,6,11(16),12,14-heptaen-9-ylidene]benzamide (33) and 3-chloro-N-[(9E)-8,10,17-triazatetracyclo[8.7.0.02,7.011,16]heptadeca-1(17),2,4,6,11(16),12,14-heptaen-9-ylidene] benzamide (37) were also cytotoxic giving EC50 values of 45.47 ± 21.92, 45.09 ±13.79 and 74.94 ± 13.17 μM, respectively. 3-(1,3-Benzothiazol-2-yl)-1-(3-bromobenzoyl)thiourea (31) and 3-(1,3-benzothiazoyl-2-yl)-1-(4-nitrobenzoyl)thiourea (30) derivatives were also found to be cytotoxic with EC50 values of 1.207 ± 0.58 and 24.08 ±13.14 nM, respectively. 11-(4-Chlorophenyl-1,8,10, 12-tetraazatricyclo[7.4.0.02,7]trideca-2(7),3,5,9,11-pentaene-13-thione (12), 11-(4-methoxyphenyl)-1,8,10,12-tetraazatricyclo[7.4.0.02,7]trideca-2(7),3,9,1-pentaene-13-thione (14), and 11-phenyl-1,8,10,12-tetraazatricyclo[7.4.0.02,7]trideca-2(7),3,5,9,11-pentaene-13-thione (20), were found to be cytotoxic giving EC50 values of 0.152 ± 0.051, 37.96 ± 21.87 and 5.28 ± 2.95 μM, respectively. In the enzyme inhibition studies compound 49 gave a percentage inhibition of 97.03 ± 10.61% at 100 μM, but the fact that it is cytoxic might make it less useful, whilst compounds 19 and 16 had a percentage inhibition of 59.57 ± 13.59% (4-nitro derivative) and 79.97 ± 11.97% (3-nitro derivative) respectively at 100 μM of inhibitor and 20 μM of enzyme (HIV-1 protease). The results suggests that the presence of the nitro group at position 3 (16) and 4 (19) leads to an increase in activity against HIV-1 protease.
- Full Text:
- Date Issued: 2016
Characterization and ecology of selected micro-estuaries and micro-outlets in the Eastern Cape province, South Africa
- Authors: Magoro, Mandla Leon
- Date: 2018
- Subjects: Estuarine ecology -- South Africa -- Eastern Cape , Estuaries -- Management Estuaries -- South Africa -- Eastern Cape
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/31644 , vital:31640
- Description: South Africa has more than 200 Temporarily Open/Closed Estuaries (TOCEs) along its approximately 3000 km coastline. In addition, there are approximately 200 micro-estuaries and micro-outlets on the subcontinent, many of which share some of the characteristics with TOCEs but differ in that they are supplied by localised coastal stream catchments with a more limited supply of freshwater and less connectivity to the marine environment. Between 2015 and 2016, this study endeavoured to investigate the physico-chemical properties, microalgal dynamics as well as the seasonal species abundance and composition of aquatic invertebrates and fishes in four micro-estuaries and four micro-outlets along the warm-temperate section of the Eastern Cape coast. The micro-outlets were dominated by oligohaline or freshwater conditions, while the micro-estuaries were mostly mesohaline. Microalgal biomass in these systems was influenced by temperature, nutrient conditions and light availability. Chironomidae and Ephemeroptera dominated benthic macro-invertebrate communities in the micro-outlets, while Amphipoda and Mysida were most dominant in micro-estuaries. Copepoda and Amphipoda dominated the zooplankton assemblages in both system types. Nekton communities in micro-outlets were dominated by juvenile Myxus capensis and tadpoles (mostly Xenopus laevis), while Oreochromis mossambicus, Gilchristella aestuaria, M. capensis and Mugil cephalus were the four most common species in the micro-estuaries. Seasonal variations in physico-chemical parameters and community composition of both the nekton and invertebrates were recorded during this study. Micro-estuaries and micro-outlets exhibited relatively lower diversity and abundances of biota than TOCEs. Furthermore, the micro-estuaries have a low estuarine function when compared to TOCEs, while the micro-outlets have very limited estuarine characteristics and were dominated by freshwater biota. The micro-systems are smaller in size and contain lower proportions of estuary-associated taxa when compared to larger estuarine systems such as TOCEs and permanently open estuaries. The results of this study confirm that there are distinctions between the biota of iv the two micro-system types, thus making biotic assemblages, together with physico-chemical parameters, a viable tool for differentiating between micro-estuaries and micro-outlets. This study represents the first investigation into the ecological functioning of micro-estuaries and micro-outlets. As a whole, micro-systems serve as nursery areas for freshwater-associated invertebrate taxa. Due to their limited periods of stability, micro-estuaries serve as intermediate nursery areas for 0+ juveniles of estuary-associated marine fish which, after less than a year, then migrate to larger estuarine systems located nearby. The small catchment size and short period of stability in these systems heightens their level of sensitivity to water flow alterations through dams, direct water abstraction, afforestation and watercourse diversion, while their lower buffering capacity makes them more susceptible to pollution and nutrient inputs from intensive agricultural activities and urban expansion.
- Full Text:
- Date Issued: 2018
- Authors: Magoro, Mandla Leon
- Date: 2018
- Subjects: Estuarine ecology -- South Africa -- Eastern Cape , Estuaries -- Management Estuaries -- South Africa -- Eastern Cape
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/31644 , vital:31640
- Description: South Africa has more than 200 Temporarily Open/Closed Estuaries (TOCEs) along its approximately 3000 km coastline. In addition, there are approximately 200 micro-estuaries and micro-outlets on the subcontinent, many of which share some of the characteristics with TOCEs but differ in that they are supplied by localised coastal stream catchments with a more limited supply of freshwater and less connectivity to the marine environment. Between 2015 and 2016, this study endeavoured to investigate the physico-chemical properties, microalgal dynamics as well as the seasonal species abundance and composition of aquatic invertebrates and fishes in four micro-estuaries and four micro-outlets along the warm-temperate section of the Eastern Cape coast. The micro-outlets were dominated by oligohaline or freshwater conditions, while the micro-estuaries were mostly mesohaline. Microalgal biomass in these systems was influenced by temperature, nutrient conditions and light availability. Chironomidae and Ephemeroptera dominated benthic macro-invertebrate communities in the micro-outlets, while Amphipoda and Mysida were most dominant in micro-estuaries. Copepoda and Amphipoda dominated the zooplankton assemblages in both system types. Nekton communities in micro-outlets were dominated by juvenile Myxus capensis and tadpoles (mostly Xenopus laevis), while Oreochromis mossambicus, Gilchristella aestuaria, M. capensis and Mugil cephalus were the four most common species in the micro-estuaries. Seasonal variations in physico-chemical parameters and community composition of both the nekton and invertebrates were recorded during this study. Micro-estuaries and micro-outlets exhibited relatively lower diversity and abundances of biota than TOCEs. Furthermore, the micro-estuaries have a low estuarine function when compared to TOCEs, while the micro-outlets have very limited estuarine characteristics and were dominated by freshwater biota. The micro-systems are smaller in size and contain lower proportions of estuary-associated taxa when compared to larger estuarine systems such as TOCEs and permanently open estuaries. The results of this study confirm that there are distinctions between the biota of iv the two micro-system types, thus making biotic assemblages, together with physico-chemical parameters, a viable tool for differentiating between micro-estuaries and micro-outlets. This study represents the first investigation into the ecological functioning of micro-estuaries and micro-outlets. As a whole, micro-systems serve as nursery areas for freshwater-associated invertebrate taxa. Due to their limited periods of stability, micro-estuaries serve as intermediate nursery areas for 0+ juveniles of estuary-associated marine fish which, after less than a year, then migrate to larger estuarine systems located nearby. The small catchment size and short period of stability in these systems heightens their level of sensitivity to water flow alterations through dams, direct water abstraction, afforestation and watercourse diversion, while their lower buffering capacity makes them more susceptible to pollution and nutrient inputs from intensive agricultural activities and urban expansion.
- Full Text:
- Date Issued: 2018
Comparison of the population growth potential of South African loggerhead (Caretta caretta) and leatherback (Dermochelys coriacea) sea turtles
- Authors: Tucek, Jenny Bianka
- Date: 2014
- Subjects: Sea turtles -- Population viability analysis -- South Africa , Migratory animals -- South Africa
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/5032 , vital:20793
- Description: A beach conservation programme protecting nesting loggerhead (Caretta caretta) and leatherback (Dermochelys coriacea) sea turtles in South Africa was started in 1963. As initial numbers of nesting females were low for both species (107 loggerheads and 24 leatherbacks) it was proposed that the protection of eggs, hatchlings and nesting females along the nesting beach would induce population growth and prohibit local extinction. Today, 50 years later, the loggerhead population exceeds 650 females per annum, whereas the leatherback population counts about 65 nesting females per year. The trend for leatherback turtles is that the population has been stable for about 30 years whereas loggerheads are increasing exponentially. Thus, this thesis investigated several life-history traits to explain the differing responses to the ongoing beach conservation programme. Reproductive output and success were assessed for both species; it was hypothesised that environmental conditions are sub-optimal for leatherback turtles to reproduce successfully. It was ascertained that nesting loggerhead females deposit larger clutches than leatherbacks (112 ± SD 20 eggs and 100 ± SD 23 eggs, respectively), but that annual reproductive output per individual leatherback female exceeds that of loggerhead turtles (±700 eggs and ±448 eggs, respectively) because they exhibit a higher intra-seasonal nesting frequency (leatherbacks n = 7 and loggerheads n = 4 from Nel et al. 2013). Emergence success (i.e. the percentage of hatchlings produced) per nest was similar for both species (loggerhead 73.6 ± SD 27.68 % and leatherback turtles 73.8 ± SD 22.70 %), but as loggerhead turtles nest in greater numbers, i.e. producing more hatchlings per year, the absolute population growth potential favours the loggerhead turtle. The second factor investigated was sex ratio because sea turtles display temperature-dependent sex determination (TSD) where extreme incubation temperatures can skew the sex ratio (i.e. feminising or masculinising a clutch). It was suspected that leatherback turtles are male-biased as this is the southern-most rookery (for both species). Further, leatherback nests are generally closer to the high tide mark, which might induce a cooling effect. Standard histological techniques were applied to sex hatchlings and a generalized linear model (GLM) was used to approximate annual sex ratio. Loggerhead sex ratio (2009 - 2011) was estimated at 86.9 ± SE 0.35 % female-biased; however, sufficient replication for the leatherback population was only obtained for season 2010, which indicated a 97.1 % (95 % CI 93.3 - 98.7) female bias. Both species are, thus, highly female-biased, and current sex ratio for leatherback turtles is not prohibiting population growth. Current sex ratios, however, are not necessarily indicative of sex ratios in the past which would have induced present population growth. Thus, to account for present population growth profiles, sex ratios from the past needed to be ascertained. Annual sex ratios (1997 - 2011) were modelled from historical air and sea surface temperatures (SSTs) but no significant change over time was obtained for either loggerhead or leatherback turtles (linear regression; p ≥ 0.45). The average sex ratio over this 15-year period for the South African loggerhead turtle was approximated at 77.1 ± SE 3.36 % female-biased, whereas leatherbacks exhibited a 99.5 ± SE 0.24 % female bias. Re-analysing data from the mid-80s by Maxwell et al. (1988) also indicated a 77.4 % female bias for the South African loggerhead population. It is, therefore, highly likely that sex ratios of the South African loggerhead and leatherback sea turtle populations have been stable for at least three decades and are not accountable for the differing population growth profiles as they are displayed today. Another possibility that could explain the opposed population growth profiles is the time taken for animals to replace themselves, i.e. age at maturity. It was suspected that age at maturity for the South African loggerhead turtle is comparable with that for leatherbacks. Using data from a 30-year mutilation tagging experiment (i.e. notching), age at first reproduction for South African loggerhead females was estimated. Results ranged broadly but a mean of 36.2 ± SD 7.71 years was obtained using a Gaussian distribution. Age at reproduction of the South African leatherback turtle was not determined but the literature suggests a much younger age of 13.3 - 26.8 years (Zug & Parham 1996, Dutton et al. 2005, Avens et al. 2009, Jones et al. 2011). Therefore, population growth would favour leatherback turtles as they exhibit a much shorter generation time. Finally, it was concluded that all life-history parameters investigated favour leatherback turtles, yet loggerheads are displaying population growth. However, as there were no obvious constraints to population growth on the nesting beach, it is suspected that population growth of the South African leatherback turtle is either unobserved (due to inadequate monitoring not capturing sufficient numbers of nesting events to establish a trend) or that population growth is prohibited by some offshore factor such as industrial fisheries (or some other driver not yet identified). Monitoring should, thus, be expanded and offshore mortality monitored as the leatherback population nesting in South Africa is still critically endangered with nesting numbers dangerously low.
- Full Text:
- Date Issued: 2014
- Authors: Tucek, Jenny Bianka
- Date: 2014
- Subjects: Sea turtles -- Population viability analysis -- South Africa , Migratory animals -- South Africa
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/5032 , vital:20793
- Description: A beach conservation programme protecting nesting loggerhead (Caretta caretta) and leatherback (Dermochelys coriacea) sea turtles in South Africa was started in 1963. As initial numbers of nesting females were low for both species (107 loggerheads and 24 leatherbacks) it was proposed that the protection of eggs, hatchlings and nesting females along the nesting beach would induce population growth and prohibit local extinction. Today, 50 years later, the loggerhead population exceeds 650 females per annum, whereas the leatherback population counts about 65 nesting females per year. The trend for leatherback turtles is that the population has been stable for about 30 years whereas loggerheads are increasing exponentially. Thus, this thesis investigated several life-history traits to explain the differing responses to the ongoing beach conservation programme. Reproductive output and success were assessed for both species; it was hypothesised that environmental conditions are sub-optimal for leatherback turtles to reproduce successfully. It was ascertained that nesting loggerhead females deposit larger clutches than leatherbacks (112 ± SD 20 eggs and 100 ± SD 23 eggs, respectively), but that annual reproductive output per individual leatherback female exceeds that of loggerhead turtles (±700 eggs and ±448 eggs, respectively) because they exhibit a higher intra-seasonal nesting frequency (leatherbacks n = 7 and loggerheads n = 4 from Nel et al. 2013). Emergence success (i.e. the percentage of hatchlings produced) per nest was similar for both species (loggerhead 73.6 ± SD 27.68 % and leatherback turtles 73.8 ± SD 22.70 %), but as loggerhead turtles nest in greater numbers, i.e. producing more hatchlings per year, the absolute population growth potential favours the loggerhead turtle. The second factor investigated was sex ratio because sea turtles display temperature-dependent sex determination (TSD) where extreme incubation temperatures can skew the sex ratio (i.e. feminising or masculinising a clutch). It was suspected that leatherback turtles are male-biased as this is the southern-most rookery (for both species). Further, leatherback nests are generally closer to the high tide mark, which might induce a cooling effect. Standard histological techniques were applied to sex hatchlings and a generalized linear model (GLM) was used to approximate annual sex ratio. Loggerhead sex ratio (2009 - 2011) was estimated at 86.9 ± SE 0.35 % female-biased; however, sufficient replication for the leatherback population was only obtained for season 2010, which indicated a 97.1 % (95 % CI 93.3 - 98.7) female bias. Both species are, thus, highly female-biased, and current sex ratio for leatherback turtles is not prohibiting population growth. Current sex ratios, however, are not necessarily indicative of sex ratios in the past which would have induced present population growth. Thus, to account for present population growth profiles, sex ratios from the past needed to be ascertained. Annual sex ratios (1997 - 2011) were modelled from historical air and sea surface temperatures (SSTs) but no significant change over time was obtained for either loggerhead or leatherback turtles (linear regression; p ≥ 0.45). The average sex ratio over this 15-year period for the South African loggerhead turtle was approximated at 77.1 ± SE 3.36 % female-biased, whereas leatherbacks exhibited a 99.5 ± SE 0.24 % female bias. Re-analysing data from the mid-80s by Maxwell et al. (1988) also indicated a 77.4 % female bias for the South African loggerhead population. It is, therefore, highly likely that sex ratios of the South African loggerhead and leatherback sea turtle populations have been stable for at least three decades and are not accountable for the differing population growth profiles as they are displayed today. Another possibility that could explain the opposed population growth profiles is the time taken for animals to replace themselves, i.e. age at maturity. It was suspected that age at maturity for the South African loggerhead turtle is comparable with that for leatherbacks. Using data from a 30-year mutilation tagging experiment (i.e. notching), age at first reproduction for South African loggerhead females was estimated. Results ranged broadly but a mean of 36.2 ± SD 7.71 years was obtained using a Gaussian distribution. Age at reproduction of the South African leatherback turtle was not determined but the literature suggests a much younger age of 13.3 - 26.8 years (Zug & Parham 1996, Dutton et al. 2005, Avens et al. 2009, Jones et al. 2011). Therefore, population growth would favour leatherback turtles as they exhibit a much shorter generation time. Finally, it was concluded that all life-history parameters investigated favour leatherback turtles, yet loggerheads are displaying population growth. However, as there were no obvious constraints to population growth on the nesting beach, it is suspected that population growth of the South African leatherback turtle is either unobserved (due to inadequate monitoring not capturing sufficient numbers of nesting events to establish a trend) or that population growth is prohibited by some offshore factor such as industrial fisheries (or some other driver not yet identified). Monitoring should, thus, be expanded and offshore mortality monitored as the leatherback population nesting in South Africa is still critically endangered with nesting numbers dangerously low.
- Full Text:
- Date Issued: 2014
Compensation for distribution of timing and reference signals over optical fibre networks for telescope arrays
- Authors: Wassin, Shukree
- Date: 2018
- Subjects: Fiber optics , Optical communications Very large array telescopes Optical fiber detectors
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/36425 , vital:33941
- Description: Significant advancements and developments have been made in optical frequency standards, in recent years. In order to verify the accuracy and preciseness of the disseminated RF signal, it is essential to compare its stability with the standards provided in literature as well as by metrology institutes. However, conventional frequency comparison techniques via satellites have extremely inferior stability qualities. As a result, the need for an alternative ultra-high precision RF transfer method presented itself. Highly accurate and precise frequency dissemination across optical fiber has proved a leading contender and a possible solution. When compared to conventional data transfer media, optical fiber has proven to be more superior and yields lower transmission errors and is immune to radio frequency interference. A further quality of optical fibre is that its transmission distance can be extended to greater degree than the traditional coaxial cable due to its low loss property. This thesis deals with the compensation of phase noise in single mode optical fibre. Phase noise degrades the performance and stability of the RF signal as well as the optical carrier frequency across long-haul optical networks. This work begins by experimentally demonstrating a unique and novel way for measuring the round-trip optical fibre latency times. The technique is based on all optical wavelength conversion using a stable PPS injection signal. The result highlighted the importance for active phase error compensation along a fibre link. Various computer simulations were used to study the influence of temperature fluctuation on the optical fibre. The first ever error signals generated at NMU was experimentally demonstrated. Results illustrated that, by minimizing the error voltage the phase difference between the transmitted and reference signals were reduced to zero. Performance analysis testing of the VCSEL phase correction actuator showed that majority of the dither iterations that induced the phase compensation took approximately 0.15 s. Residual frequency instabilities of 3.39791 x 10-12 at 1 s and 8.14848 x 10-12 at 103 s was measured when the 26 km G.655 fibre link was running freely. Experimental results further showed that the relative frequency stabilities measured at 1 s and 103 s were 4.43902 x 10-12 and 1.62055 x 10-13 during active compensation, respectively. The novel work presented in this thesis is exciting since the VCSEL is used as the optical source as well as the phase correction actuator. The benefits of such a device is that is reduces system costs and complexities.
- Full Text:
- Date Issued: 2018
- Authors: Wassin, Shukree
- Date: 2018
- Subjects: Fiber optics , Optical communications Very large array telescopes Optical fiber detectors
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/36425 , vital:33941
- Description: Significant advancements and developments have been made in optical frequency standards, in recent years. In order to verify the accuracy and preciseness of the disseminated RF signal, it is essential to compare its stability with the standards provided in literature as well as by metrology institutes. However, conventional frequency comparison techniques via satellites have extremely inferior stability qualities. As a result, the need for an alternative ultra-high precision RF transfer method presented itself. Highly accurate and precise frequency dissemination across optical fiber has proved a leading contender and a possible solution. When compared to conventional data transfer media, optical fiber has proven to be more superior and yields lower transmission errors and is immune to radio frequency interference. A further quality of optical fibre is that its transmission distance can be extended to greater degree than the traditional coaxial cable due to its low loss property. This thesis deals with the compensation of phase noise in single mode optical fibre. Phase noise degrades the performance and stability of the RF signal as well as the optical carrier frequency across long-haul optical networks. This work begins by experimentally demonstrating a unique and novel way for measuring the round-trip optical fibre latency times. The technique is based on all optical wavelength conversion using a stable PPS injection signal. The result highlighted the importance for active phase error compensation along a fibre link. Various computer simulations were used to study the influence of temperature fluctuation on the optical fibre. The first ever error signals generated at NMU was experimentally demonstrated. Results illustrated that, by minimizing the error voltage the phase difference between the transmitted and reference signals were reduced to zero. Performance analysis testing of the VCSEL phase correction actuator showed that majority of the dither iterations that induced the phase compensation took approximately 0.15 s. Residual frequency instabilities of 3.39791 x 10-12 at 1 s and 8.14848 x 10-12 at 103 s was measured when the 26 km G.655 fibre link was running freely. Experimental results further showed that the relative frequency stabilities measured at 1 s and 103 s were 4.43902 x 10-12 and 1.62055 x 10-13 during active compensation, respectively. The novel work presented in this thesis is exciting since the VCSEL is used as the optical source as well as the phase correction actuator. The benefits of such a device is that is reduces system costs and complexities.
- Full Text:
- Date Issued: 2018
Data transport over optical fibre for ska using advanced modulation flexible spectrum technology
- Authors: Dlamini, Phumla Patience
- Date: 2020
- Subjects: Fiber optics
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/50666 , vital:42329
- Description: Flexible Spectrum Dense Wavelength Division Multiplexed (DWDM) optical fibre networks are next-generation technology for handling extremely high data rates of the kind produced by MeerKAT and SKA.We optimise the flexible spectrum for real-time dynamic channel wavelength assignment, to ensure optimum network performance. We needed to identify and develop novel hardware and dynamic algorithms for these networks to function optimally to perform critical tasks. Such tasks include wavelength assignment, signal routing, network restoration and network protection. The antennas of the Square Kilometre Array (SKA) network connect to the correlator and data processor in a simple point-to-point fixed configuration. The connection of the astronomer users to the data processor, however, requires a more complex network architecture. This is because the network has users scattered around South Africa, Africa and the whole world. This calls for upgrade of the classical fixed wavelength spectrum grids, to flexible spectrum grid that has improved capacity, reliable, simple and cost-effectiveness through sharing of network infrastructure. The exponential growth of data traffic in current optical communication networks requires higher capacity for the bandwidth demands at a reduced cost per bit. All-optical signal processing is a promising technique to improve network resource utilisation and resolve wavelength contention associated with the flexible spectrum. Flexible Spectrum Dense Wavelength Division Multiplexed (DWDM) optical fibre networks are next-generation technology for handling extremely high data rates of the kind produced by MeerKAT and SKA. Each DWDM channel is capable of 10 Gbps transmission rate, which is sliceable into finer flexible grid 12.5 GHz granularity to offer the network elastic spectrum and channel spacing capable of signal routing and wavelength switching for the scalability of aggregate bandwidth. The variable-sized portions of the flexible spectrum assignment to end users at different speeds depend on bandwidth demand, allowing efficient utilisation of the spectrum resources. The entire bandwidth of dynamic optical connections must be contiguously allocated. However, there is an introduction of spectrum fragmentation due to spectrum contiguity related to the optical channels having different width. Thus large traffic demands are likely to experience blocking regardless of available bandwidth. To minimise the congestion and cost-effectively obtain high performance, the optical network must be reconfigurable, achievable by adding wavelength as an extra degree of freedom for effectiveness. This can introduce colourless, directionless and contentionless reconfigurability to route individual wavelengths from fibre to fibre across multiple nodes to avoid wavelength blocking/collisions, increasing the flexibility and capacity of a network. For these networks to function optimally, novel hardware and dynamic algorithms identification and development is a critical task. Such tasks include wavelength assignment, signal routing, network restoration and network protection. In this work, we for the first time to our knowledge proposed a spectrum defragmentation technique through reallocation of the central frequency of the optical transmitter, to increase the probability of finding a sufficient continuous spectrum. This is to improve network resource utilisation, capacity and resolve wavelength contention associated with a flexible spectrum in optical communication networks. The following chapter provides details on a flexible spectrum in optical fibre networks utilising DWDM, optimising transmitter-receivers, advanced modulation formats, coherent detection, reconfigurable optical add and drop multiplexer (ROADM) technology to implement hardware and middleware platforms which address growing bandwidth demands for scalability, flexibility and cost-efficiency. A major attribute is tunable lasers, an essential component for future flexible spectrum with application to wavelength switching, routing, wavelength conversion and ROADM for the multi-node optical network through spectrum flexibility and cost-effective sharing of fibre links, transmitters and receivers. Spectrum slicing into fine granular sub-carriers and assigning several frequency slots to accommodate diverse traffic demands is a viable approach. This work experimentally presents a spectral efficient technique for bandwidth variability, wavelength allocation, routing, defragmentation and wavelength selective switches in the nodes of a network, capable of removing the fixed grid spacing using low cost, high bandwidth, power-efficient and wavelength-tunable vertical-cavity surface-emitting laser (VCSEL) transmitter directly modulated with 10 Gbps data. This to ensure that majority of the spectrum utilisation at finer channel spacing, wastage of the spectrum resource as caused by the wavelength continuity constraint reduction and it improves bandwidth utilisation. The technique is flexible in terms of modulation formats and accommodates various formats with spectrally continuous channels, fulfilling the future bandwidth demands with transmissions beyond 100 Gbps per channel while maintaining spectral efficiency.
- Full Text:
- Date Issued: 2020
- Authors: Dlamini, Phumla Patience
- Date: 2020
- Subjects: Fiber optics
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/50666 , vital:42329
- Description: Flexible Spectrum Dense Wavelength Division Multiplexed (DWDM) optical fibre networks are next-generation technology for handling extremely high data rates of the kind produced by MeerKAT and SKA.We optimise the flexible spectrum for real-time dynamic channel wavelength assignment, to ensure optimum network performance. We needed to identify and develop novel hardware and dynamic algorithms for these networks to function optimally to perform critical tasks. Such tasks include wavelength assignment, signal routing, network restoration and network protection. The antennas of the Square Kilometre Array (SKA) network connect to the correlator and data processor in a simple point-to-point fixed configuration. The connection of the astronomer users to the data processor, however, requires a more complex network architecture. This is because the network has users scattered around South Africa, Africa and the whole world. This calls for upgrade of the classical fixed wavelength spectrum grids, to flexible spectrum grid that has improved capacity, reliable, simple and cost-effectiveness through sharing of network infrastructure. The exponential growth of data traffic in current optical communication networks requires higher capacity for the bandwidth demands at a reduced cost per bit. All-optical signal processing is a promising technique to improve network resource utilisation and resolve wavelength contention associated with the flexible spectrum. Flexible Spectrum Dense Wavelength Division Multiplexed (DWDM) optical fibre networks are next-generation technology for handling extremely high data rates of the kind produced by MeerKAT and SKA. Each DWDM channel is capable of 10 Gbps transmission rate, which is sliceable into finer flexible grid 12.5 GHz granularity to offer the network elastic spectrum and channel spacing capable of signal routing and wavelength switching for the scalability of aggregate bandwidth. The variable-sized portions of the flexible spectrum assignment to end users at different speeds depend on bandwidth demand, allowing efficient utilisation of the spectrum resources. The entire bandwidth of dynamic optical connections must be contiguously allocated. However, there is an introduction of spectrum fragmentation due to spectrum contiguity related to the optical channels having different width. Thus large traffic demands are likely to experience blocking regardless of available bandwidth. To minimise the congestion and cost-effectively obtain high performance, the optical network must be reconfigurable, achievable by adding wavelength as an extra degree of freedom for effectiveness. This can introduce colourless, directionless and contentionless reconfigurability to route individual wavelengths from fibre to fibre across multiple nodes to avoid wavelength blocking/collisions, increasing the flexibility and capacity of a network. For these networks to function optimally, novel hardware and dynamic algorithms identification and development is a critical task. Such tasks include wavelength assignment, signal routing, network restoration and network protection. In this work, we for the first time to our knowledge proposed a spectrum defragmentation technique through reallocation of the central frequency of the optical transmitter, to increase the probability of finding a sufficient continuous spectrum. This is to improve network resource utilisation, capacity and resolve wavelength contention associated with a flexible spectrum in optical communication networks. The following chapter provides details on a flexible spectrum in optical fibre networks utilising DWDM, optimising transmitter-receivers, advanced modulation formats, coherent detection, reconfigurable optical add and drop multiplexer (ROADM) technology to implement hardware and middleware platforms which address growing bandwidth demands for scalability, flexibility and cost-efficiency. A major attribute is tunable lasers, an essential component for future flexible spectrum with application to wavelength switching, routing, wavelength conversion and ROADM for the multi-node optical network through spectrum flexibility and cost-effective sharing of fibre links, transmitters and receivers. Spectrum slicing into fine granular sub-carriers and assigning several frequency slots to accommodate diverse traffic demands is a viable approach. This work experimentally presents a spectral efficient technique for bandwidth variability, wavelength allocation, routing, defragmentation and wavelength selective switches in the nodes of a network, capable of removing the fixed grid spacing using low cost, high bandwidth, power-efficient and wavelength-tunable vertical-cavity surface-emitting laser (VCSEL) transmitter directly modulated with 10 Gbps data. This to ensure that majority of the spectrum utilisation at finer channel spacing, wastage of the spectrum resource as caused by the wavelength continuity constraint reduction and it improves bandwidth utilisation. The technique is flexible in terms of modulation formats and accommodates various formats with spectrally continuous channels, fulfilling the future bandwidth demands with transmissions beyond 100 Gbps per channel while maintaining spectral efficiency.
- Full Text:
- Date Issued: 2020
Database and guide for Lesotho wool and mohair production and quality
- Authors: Maqalika, Papali Elizabeth
- Date: 2020
- Subjects: Mohair -- Dissertations -- Lesotho , Wool -- Dissertations -- Lesotho Textile fabrics -- Lesotho Textile industry -- Lesotho
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49148 , vital:41605
- Description: Lesotho produces significant quantities of Merino apparel wool and mohair, both of a quality that allows them to compete on the global market and to make a significant contribution to the economy of the country. Nevertheless, very little production and quality data and trends of these fibres have been documented. This is a serious disadvantage in terms of international trading and benchmarking as well as attempts to improve the production and quality of Lesotho wool and mohair. In the light of the aforementioned, the available production and quality data of the past 10 years have been captured and analysed for trends and also benchmarking, where considered applicable. The main focus is on fibre diameter (fineness), staple length, and yield since they largely determine fibre quality, application and price. Some quality related tests were undertaken to fill certain important gaps in the available data. In addition, prickle and medullation were evaluated on representative wool and mohair samples, respectively, because they represent important quality measures for apparel wool and mohair, respectively. It was found that Lesotho wool and mohair are of a fairly good and internationally competitive quality, with the wool having an average fibre diameter (MFD) of ≈20μm, an average staple length of about 64mm, an average VM level of about 4%, an average yield of about 57%, and the annual production being about 4 million kilograms greasy. The average staple length of the mohair was about 140mm, average MFD about 29μm and the average medullation, which unless otherwise specified, refers to the objectionable medullated fibres (kemp type) including the flat medullated fibre, relatively high at about 5.7%. The latter is certainly an area of concern which needs attention and improvement. It was found that the prickle level (Comfort Factor), of some of the wools tested was of such a level as to make the wool suitable for wearing against the skin. With respect to mohair, there is considerable scope to substantially reduce the level of objectionable medullated (kemp style) fibre level through the appropriate breeding interventions. Production of both wool and mohair has increased slightly over the ten years covered by this study. It also became apparent that Lesotho wool and mohair quality and production are greatly influenced by the farming practices and climatic conditions. Greater adoption of the merino sheep breed, sheds/barns and sheep coats are suggested as ways to reduce mortality rate (due to extremely cold temperatures), improve quality and increase yield and production. Some farming practices such as the lack of barns, supplementary feeding and veterinary care present constraints in terms of production of both wool and mohair. The districts in the Highlands region had the highest production of mostly wool, this being ascribed to better pastures, climatic and other conditions conducive to wool and mohair production. Both wool and mohair are considered to have potential for improved quality and production, which could be affected by appropriate interventions by the Small Agricultural and Development Project (SADP) and others through National Wool and Mohair Growers Association (NWMGA). Nevertheless, since the wool and mohair growers (farmers) do not form part of these and other interventions, they do not readily adopt the various strategies and decisions and do not receive the associated benefits immediately. It is therefore advised that local farmers, relevant educators and researchers be represented in policy and other decision making forums. In this way, educational campaigns will be demand driven with greater chance of adoption and success.
- Full Text:
- Date Issued: 2020
- Authors: Maqalika, Papali Elizabeth
- Date: 2020
- Subjects: Mohair -- Dissertations -- Lesotho , Wool -- Dissertations -- Lesotho Textile fabrics -- Lesotho Textile industry -- Lesotho
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49148 , vital:41605
- Description: Lesotho produces significant quantities of Merino apparel wool and mohair, both of a quality that allows them to compete on the global market and to make a significant contribution to the economy of the country. Nevertheless, very little production and quality data and trends of these fibres have been documented. This is a serious disadvantage in terms of international trading and benchmarking as well as attempts to improve the production and quality of Lesotho wool and mohair. In the light of the aforementioned, the available production and quality data of the past 10 years have been captured and analysed for trends and also benchmarking, where considered applicable. The main focus is on fibre diameter (fineness), staple length, and yield since they largely determine fibre quality, application and price. Some quality related tests were undertaken to fill certain important gaps in the available data. In addition, prickle and medullation were evaluated on representative wool and mohair samples, respectively, because they represent important quality measures for apparel wool and mohair, respectively. It was found that Lesotho wool and mohair are of a fairly good and internationally competitive quality, with the wool having an average fibre diameter (MFD) of ≈20μm, an average staple length of about 64mm, an average VM level of about 4%, an average yield of about 57%, and the annual production being about 4 million kilograms greasy. The average staple length of the mohair was about 140mm, average MFD about 29μm and the average medullation, which unless otherwise specified, refers to the objectionable medullated fibres (kemp type) including the flat medullated fibre, relatively high at about 5.7%. The latter is certainly an area of concern which needs attention and improvement. It was found that the prickle level (Comfort Factor), of some of the wools tested was of such a level as to make the wool suitable for wearing against the skin. With respect to mohair, there is considerable scope to substantially reduce the level of objectionable medullated (kemp style) fibre level through the appropriate breeding interventions. Production of both wool and mohair has increased slightly over the ten years covered by this study. It also became apparent that Lesotho wool and mohair quality and production are greatly influenced by the farming practices and climatic conditions. Greater adoption of the merino sheep breed, sheds/barns and sheep coats are suggested as ways to reduce mortality rate (due to extremely cold temperatures), improve quality and increase yield and production. Some farming practices such as the lack of barns, supplementary feeding and veterinary care present constraints in terms of production of both wool and mohair. The districts in the Highlands region had the highest production of mostly wool, this being ascribed to better pastures, climatic and other conditions conducive to wool and mohair production. Both wool and mohair are considered to have potential for improved quality and production, which could be affected by appropriate interventions by the Small Agricultural and Development Project (SADP) and others through National Wool and Mohair Growers Association (NWMGA). Nevertheless, since the wool and mohair growers (farmers) do not form part of these and other interventions, they do not readily adopt the various strategies and decisions and do not receive the associated benefits immediately. It is therefore advised that local farmers, relevant educators and researchers be represented in policy and other decision making forums. In this way, educational campaigns will be demand driven with greater chance of adoption and success.
- Full Text:
- Date Issued: 2020