Decision analysis to inform invasive alien plant management in the Garden Route Biosphere Reserve
- Authors: Masunungure, Current
- Date: 2020
- Subjects: Invasive plants -- South Africa , Alien plants -- South Africa , Biodiversity -- South Africa -- Management , Ecosystem management -- South Africa
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49159 , vital:41606
- Description: Invasive alien plants (IAP) pose significant threats to global economies and biodiversity and are often considered as wicked problems. With an increasing number of IAP and limited resources, their management and decision-making processes are becoming difficult because of uncertainty, multiple and conflicting objectives, and diverse stakeholder views, facts and values. This is particularly challenging given the complex interactions between economic, ecological, and social elements that exist in invaded areas. Consequently, it is important to incorporate new ways of thinking and novel methodologies to improve our understanding of IAP management and the decision-making processes around them, which are currently inadequate. Decision analysis can help with dealing with these challenges and support decision-making under uncertainty. Drawing on the systems thinking approach and the concepts of leverage points, transition management and transformational change, the aim of this thesis was to explore the effectiveness of IAP management and the decision-making process in the Garden Route Biosphere Reserve (GRBR). This was achieved using a mixed methods approach involving: social-ecological inventory (identifying relevant stakeholders); review of literature on the available decision support tools; key informant interviews (stakeholder perspectives on the current decision-making process); and stakeholder workshop and expert consultation (casual loop modelling). The results of this thesis provide evidence that application of the proposed principles of robust decision-making has the potential to overcome the weaknesses of the current decision-making process and as such, enables decision-makers to efficiently allocate resources towards IAS management. A novel causal loop diagram (CLD) was developed to highlight the interconnections between key variables in IAP management and decision-making. This revealed that to transcend ‘policy resistance’ and ‘quickfixes that fail’ archetypes, and improve IAP management, the stakeholders need to consider deep leverage points, for example, fostering trust and shared understanding among different stakeholder groups. These can be realistically maintained over the long-term and can cause a fundamental change in IAP management, rather than focusing on shallow leverage points that are relatively easy to implement but do not result in significant systemic change. The findings of this thesis are flexible and could guide various stakeholder groups at local, national, and international scales in improving the effectiveness of IAP management and decision-making.
- Full Text:
- Date Issued: 2020
- Authors: Masunungure, Current
- Date: 2020
- Subjects: Invasive plants -- South Africa , Alien plants -- South Africa , Biodiversity -- South Africa -- Management , Ecosystem management -- South Africa
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49159 , vital:41606
- Description: Invasive alien plants (IAP) pose significant threats to global economies and biodiversity and are often considered as wicked problems. With an increasing number of IAP and limited resources, their management and decision-making processes are becoming difficult because of uncertainty, multiple and conflicting objectives, and diverse stakeholder views, facts and values. This is particularly challenging given the complex interactions between economic, ecological, and social elements that exist in invaded areas. Consequently, it is important to incorporate new ways of thinking and novel methodologies to improve our understanding of IAP management and the decision-making processes around them, which are currently inadequate. Decision analysis can help with dealing with these challenges and support decision-making under uncertainty. Drawing on the systems thinking approach and the concepts of leverage points, transition management and transformational change, the aim of this thesis was to explore the effectiveness of IAP management and the decision-making process in the Garden Route Biosphere Reserve (GRBR). This was achieved using a mixed methods approach involving: social-ecological inventory (identifying relevant stakeholders); review of literature on the available decision support tools; key informant interviews (stakeholder perspectives on the current decision-making process); and stakeholder workshop and expert consultation (casual loop modelling). The results of this thesis provide evidence that application of the proposed principles of robust decision-making has the potential to overcome the weaknesses of the current decision-making process and as such, enables decision-makers to efficiently allocate resources towards IAS management. A novel causal loop diagram (CLD) was developed to highlight the interconnections between key variables in IAP management and decision-making. This revealed that to transcend ‘policy resistance’ and ‘quickfixes that fail’ archetypes, and improve IAP management, the stakeholders need to consider deep leverage points, for example, fostering trust and shared understanding among different stakeholder groups. These can be realistically maintained over the long-term and can cause a fundamental change in IAP management, rather than focusing on shallow leverage points that are relatively easy to implement but do not result in significant systemic change. The findings of this thesis are flexible and could guide various stakeholder groups at local, national, and international scales in improving the effectiveness of IAP management and decision-making.
- Full Text:
- Date Issued: 2020
Defect Classification in Photovoltaic Modules through Thermal Infrared Imaging using Machine Learning
- Dunderdale, Christopher, Clohessy, C M
- Authors: Dunderdale, Christopher , Clohessy, C M
- Date: 2020
- Subjects: Photovoltaic power generation -- South Africa
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/48280 , vital:40838
- Description: As the global energy demand continues to soar, solar energy has become an attractive and environmentally conscious method to meet this demand. This study examines the use of machine learning techniques for defect detection and classification in photovoltaic systems using thermal infrared images. A deep learning and feature-based approach is also investigated for the purpose of detecting and classifying defective photovoltaic modules. The VGG-16 and MobileNet deep learning models are shown to provide good performance for the classification of defects. The scale invariant feature transform (SIFT) descriptor, combined with the random forest and support vector machine classifier, is also used to discriminate between defective and non-defective photovoltaic modules in a South African setting. The successful implementation of this approach has significant potential for cost reduction in defect classification over currently available methods.
- Full Text:
- Date Issued: 2020
- Authors: Dunderdale, Christopher , Clohessy, C M
- Date: 2020
- Subjects: Photovoltaic power generation -- South Africa
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/48280 , vital:40838
- Description: As the global energy demand continues to soar, solar energy has become an attractive and environmentally conscious method to meet this demand. This study examines the use of machine learning techniques for defect detection and classification in photovoltaic systems using thermal infrared images. A deep learning and feature-based approach is also investigated for the purpose of detecting and classifying defective photovoltaic modules. The VGG-16 and MobileNet deep learning models are shown to provide good performance for the classification of defects. The scale invariant feature transform (SIFT) descriptor, combined with the random forest and support vector machine classifier, is also used to discriminate between defective and non-defective photovoltaic modules in a South African setting. The successful implementation of this approach has significant potential for cost reduction in defect classification over currently available methods.
- Full Text:
- Date Issued: 2020
Defining the potential ecological roles of three sea turtle species (Caretta caretta, Chelonia mydas and Eretmochelys imbricata) along the Eastern seaboard of South Africa
- Authors: Ramboran, Ryan
- Date: 2020
- Subjects: Sea turtles -- Conservation -- South Africa , Sea turtles -- Habitat -- Conservation -- South Africa Marine ecology
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/49343 , vital:41623
- Description: Sea turtles were once key species, driving the ecosystem process and energy flows, the past loss of their ecological roles, however has resulted in reduced ecosystem functionality through food web shifts and trophic cascades. Therefore understanding the past and present ecological roles of sea turtles is identified as one of the global research priorities for sea turtle management and conservation.
- Full Text: false
- Date Issued: 2020
- Authors: Ramboran, Ryan
- Date: 2020
- Subjects: Sea turtles -- Conservation -- South Africa , Sea turtles -- Habitat -- Conservation -- South Africa Marine ecology
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/49343 , vital:41623
- Description: Sea turtles were once key species, driving the ecosystem process and energy flows, the past loss of their ecological roles, however has resulted in reduced ecosystem functionality through food web shifts and trophic cascades. Therefore understanding the past and present ecological roles of sea turtles is identified as one of the global research priorities for sea turtle management and conservation.
- Full Text: false
- Date Issued: 2020
Development of a UV-tolerant strain of the South African isolate of Cryptophlebia leucotreta granulovirus for use as an enhanced biopesticide for Thaumatotibia leucotreta control on citrus
- Authors: Mwanza, Patrick
- Date: 2020
- Subjects: Baculoviruses -- South Africa , Ultraviolet astronomy
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/48533 , vital:40885
- Description: Baculoviruses are pathogenic to insects in the orders Diptera, Hymenoptera, and Lepidoptera. As a result of this natural relationship with insects they provide an environmentally friendly method to combat crop and forest pests. As such, a number of baculoviruses have been formulated into biopesticides. The use of baculovirus biopesticides is gaining popularity as the use of chemical pesticides has come under stringent regulatory conditions imposed by governments and continental blocks such as the European Union. Baculoviruses have a narrow host range and therefore do not harm non-pests or humans who consume the crops. One such baculovirus is Cryptophlebia leucotreta granulovirus (CrleGV), which is pathogenic to the citrus pest Thaumatotibia leucotreta, commonly referred to as the false codling moth (FCM). CrleGV has an occlusion body (OB) that encloses a single virion. Several CrleGV biopesticides have been registered in South Africa for use on citrus, avocadoes, macadamias, grapes and other crops by two commercial producers, River Bioscience (SA) and Andermatt (Switzerland). These biopesticides are used as part of the FCM integrated pest management (IPM) programme, a multifacetted approach to controlling FCM. However, baculoviruses are susceptible to the ultraviolet (UV) radiation component of sunlight and lose their activity within hours to a few days, after exposure to UV. Several substances have been tested as UV protectants to improve the persistence of baculovirus biopesticides in the field. These include optical brighteners, UV absorbers and anti-oxidants. While very promising in the laboratory, UV-protectants have not been as successful in the field. A few published reports have reported, that UV-tolerant baculoviruses could be isolated from a population by repeatedly exposing and re-exposing the virus to UV irradiation with a propagation step in insect host fourth or fifth instars between each exposure cycle. In this study, the South African isolate of Cryptophlebia leucotreta (CrleGV-SA) was exposed to UV irradiation for 5 exposure cycles in a Q-Sun Xe-3 HC test chamber (Qlab, USA) with parameters set to mimic a typical summer day in the Sundays River Valley, Eastern Cape Province, in South Africa. In between exposures the virus survivors were allowed to multiply in FCM fifth instars. Surface dose bioassays were also conducted to determine the LC50 of the virus after each exposure cycle. Samples from exposure cycle 1 and cycle 5 (UV-tolerant) irradiated for 72 h were prepared for Next Generation Sequencing (NGS) of DNA. The resultant sequence data were analysed using the Geneious R11 software (New Zealand) and compared with the unexposed CrleGV-SA sequence. In-silico restriction enzyme analsysis (REN) with several enzymes was also carried on both the cycle 1 and cycle 5 exposed samples and the resulting digestion patterns were compared with the original CrleGV-SA digestion patterns. The same samples were also analysed by transmission electron microscopy (TEM) and Attenuated Reflectance Fourier Transform Infrared Spectroscopy (ATR-FTIR) to evaluate the effect of UV irradiation on the structure of the CrleGV-SA OB. In addition, three UV protectants, lignin sulphate (Sappi, SA), BREAK-THRU®OE446 (OE446) (Evonik Industries, Germany) and Uvinul Easy (BASF, Germany) were prepared with CrleGV-SA to give final protectant concentrations of 0.09 %, 0.9 % and 9 %. The protectant-virus suspensions were exposed to UV for 24 h in the Q-Sun test chamber and bioassays conducted to determine the protective effect of each protectant concentration. The most successful protectants were then combined with the UV-tolerant CrleGV-SA and exposed to UV for 24 h in the Q-Sun test chamber and surface dose bioassays conducted afterwards. Samples exposed to UV in cycle 5 had lower LC50 values compared to samples in the early cycles. With each re-exposure cycle the LC50 values moved closer to that of the unexposed control. The LC50 of virus samples decreased from 2.89 x 108 OBs/ml after 24 h UV-exposure in cycle 1 to 2.16 x 105 OBs/ml after the same duration of exposure in cycle 5; and from 2.11 x 109 OBs/ml in cycle 1 after 72 h UV-exposure to 1.73 x 106 OBs/ml after the same duration of exposure. This represented a 1338-fold difference and a 1220-fold difference, respectively. When the UV-tolerant samples were sequenced seven SNPs were identified in cycle 1, which were thought to help establish UV tolerance, while a further seven SNPs were identified in cycle 5 samples; these were thought to further establish and maintain the UV-tolerance. Additionally, REN analysis with EcoR1 for both test samples yielded digestion patterns that were different from those of the original CrleGV-SA. TEM data showed that UV damages the virion as well as the crystalline structure of the OB. This is the first time visual evidence for UV damage to baculoviruses has been published. Comparison of cycle 1 and cycle 5 UV exposed OBs revealed that the cycle 5 OBs were significantly larger than the cycle 1 OBs (P<0.05). In addition, several peaks in the fingerprint region were shown to have either appeared or disapeered from the ATR-FTIR spectra after UV irradiation. However, there was no difference in the spectra of the Cycle 1 and Cycle 5 virus samples. The tests with potential UV-protectants revealed that the 0.9 % lignin, 9 % OE446 and 9 % Uvinul Easy were the most effective in protecting the virus from UV. However, there was no significant difference in their protection of UV tolerant CrleGV-SA and wild type CrleGV-SA. Going forward, it is recommended that the 0.9 % lignin, 9 % OE446 and 9 % Uvinul Easy combinations be explored further in future studies, particulary in the field. This study therefore forms an important foundation for the development of UV-tolerant baculovirus that will last longer in the field.
- Full Text:
- Date Issued: 2020
- Authors: Mwanza, Patrick
- Date: 2020
- Subjects: Baculoviruses -- South Africa , Ultraviolet astronomy
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/48533 , vital:40885
- Description: Baculoviruses are pathogenic to insects in the orders Diptera, Hymenoptera, and Lepidoptera. As a result of this natural relationship with insects they provide an environmentally friendly method to combat crop and forest pests. As such, a number of baculoviruses have been formulated into biopesticides. The use of baculovirus biopesticides is gaining popularity as the use of chemical pesticides has come under stringent regulatory conditions imposed by governments and continental blocks such as the European Union. Baculoviruses have a narrow host range and therefore do not harm non-pests or humans who consume the crops. One such baculovirus is Cryptophlebia leucotreta granulovirus (CrleGV), which is pathogenic to the citrus pest Thaumatotibia leucotreta, commonly referred to as the false codling moth (FCM). CrleGV has an occlusion body (OB) that encloses a single virion. Several CrleGV biopesticides have been registered in South Africa for use on citrus, avocadoes, macadamias, grapes and other crops by two commercial producers, River Bioscience (SA) and Andermatt (Switzerland). These biopesticides are used as part of the FCM integrated pest management (IPM) programme, a multifacetted approach to controlling FCM. However, baculoviruses are susceptible to the ultraviolet (UV) radiation component of sunlight and lose their activity within hours to a few days, after exposure to UV. Several substances have been tested as UV protectants to improve the persistence of baculovirus biopesticides in the field. These include optical brighteners, UV absorbers and anti-oxidants. While very promising in the laboratory, UV-protectants have not been as successful in the field. A few published reports have reported, that UV-tolerant baculoviruses could be isolated from a population by repeatedly exposing and re-exposing the virus to UV irradiation with a propagation step in insect host fourth or fifth instars between each exposure cycle. In this study, the South African isolate of Cryptophlebia leucotreta (CrleGV-SA) was exposed to UV irradiation for 5 exposure cycles in a Q-Sun Xe-3 HC test chamber (Qlab, USA) with parameters set to mimic a typical summer day in the Sundays River Valley, Eastern Cape Province, in South Africa. In between exposures the virus survivors were allowed to multiply in FCM fifth instars. Surface dose bioassays were also conducted to determine the LC50 of the virus after each exposure cycle. Samples from exposure cycle 1 and cycle 5 (UV-tolerant) irradiated for 72 h were prepared for Next Generation Sequencing (NGS) of DNA. The resultant sequence data were analysed using the Geneious R11 software (New Zealand) and compared with the unexposed CrleGV-SA sequence. In-silico restriction enzyme analsysis (REN) with several enzymes was also carried on both the cycle 1 and cycle 5 exposed samples and the resulting digestion patterns were compared with the original CrleGV-SA digestion patterns. The same samples were also analysed by transmission electron microscopy (TEM) and Attenuated Reflectance Fourier Transform Infrared Spectroscopy (ATR-FTIR) to evaluate the effect of UV irradiation on the structure of the CrleGV-SA OB. In addition, three UV protectants, lignin sulphate (Sappi, SA), BREAK-THRU®OE446 (OE446) (Evonik Industries, Germany) and Uvinul Easy (BASF, Germany) were prepared with CrleGV-SA to give final protectant concentrations of 0.09 %, 0.9 % and 9 %. The protectant-virus suspensions were exposed to UV for 24 h in the Q-Sun test chamber and bioassays conducted to determine the protective effect of each protectant concentration. The most successful protectants were then combined with the UV-tolerant CrleGV-SA and exposed to UV for 24 h in the Q-Sun test chamber and surface dose bioassays conducted afterwards. Samples exposed to UV in cycle 5 had lower LC50 values compared to samples in the early cycles. With each re-exposure cycle the LC50 values moved closer to that of the unexposed control. The LC50 of virus samples decreased from 2.89 x 108 OBs/ml after 24 h UV-exposure in cycle 1 to 2.16 x 105 OBs/ml after the same duration of exposure in cycle 5; and from 2.11 x 109 OBs/ml in cycle 1 after 72 h UV-exposure to 1.73 x 106 OBs/ml after the same duration of exposure. This represented a 1338-fold difference and a 1220-fold difference, respectively. When the UV-tolerant samples were sequenced seven SNPs were identified in cycle 1, which were thought to help establish UV tolerance, while a further seven SNPs were identified in cycle 5 samples; these were thought to further establish and maintain the UV-tolerance. Additionally, REN analysis with EcoR1 for both test samples yielded digestion patterns that were different from those of the original CrleGV-SA. TEM data showed that UV damages the virion as well as the crystalline structure of the OB. This is the first time visual evidence for UV damage to baculoviruses has been published. Comparison of cycle 1 and cycle 5 UV exposed OBs revealed that the cycle 5 OBs were significantly larger than the cycle 1 OBs (P<0.05). In addition, several peaks in the fingerprint region were shown to have either appeared or disapeered from the ATR-FTIR spectra after UV irradiation. However, there was no difference in the spectra of the Cycle 1 and Cycle 5 virus samples. The tests with potential UV-protectants revealed that the 0.9 % lignin, 9 % OE446 and 9 % Uvinul Easy were the most effective in protecting the virus from UV. However, there was no significant difference in their protection of UV tolerant CrleGV-SA and wild type CrleGV-SA. Going forward, it is recommended that the 0.9 % lignin, 9 % OE446 and 9 % Uvinul Easy combinations be explored further in future studies, particulary in the field. This study therefore forms an important foundation for the development of UV-tolerant baculovirus that will last longer in the field.
- Full Text:
- Date Issued: 2020
Development of bio-based xylan composites for food packaging applications
- Authors: Naidu, Darrel Sarvesh
- Date: 2020
- Subjects: Xylanases
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/48544 , vital:40886
- Description: Currently a large number of chemicals and plastics are produced from petroleum-based resources. However, due to the concerns surrounding the depletion of petroleum resources and growing carbon emissions, there is a desire to produce chemicals and plastics from renewable and carbon natural sources. Lignocellulosic biomass (biomass consisting of cellulose, lignin and hemicellulose) is the most common biomass on earth and is renewable and carbon neutral. Of the three main constituents of lignocellulosic biomass, hemicellulose is composed of a mixture of sugars which can be converted into chemicals and plastics. The most common form of hemicellulose found in nature is xylan. This study is aimed at extracting xylan from maize stalk waste residues and the development of xylan films with properties that are suitable for food packaging applications. Xylan was extracted from maize stalk waste residues using an alkaline pre-treatment method. The effects of bleaching conditions (time, temperature and bleach concentration) prior to alkaline treatment on the yield and purity of xylan extracted was studied using a Box-Behnken experimental design. It was observed that the experimental conditions tested had no effect on the yield of the xylan extracted but the bleach concentration had a significant effect on the purity of the xylan extracted. The samples with the lowest lignin content were found to be the samples treated with 3wt% bleach prior to alkaline pre-treatment. One of the main disadvantages of xylan is that it has poor film forming properties, a method of overcoming this is to combine it with another abundantly available biopolymer that has good film forming properties, such as alginate. The effect of xylan, alginate and glycerol content on the mechanical, thermal, moisture uptake and water barrier properties of the films were investigated. It was observed that with an increase in the alginate content there was an increase in the tensile strength and Young’s modulus of the films, whereas the water vapour permeability (WVP) of the films decreased. This was attributed to the greater cohesion between alginate polymer chains compared to the cohesion between xylan polymer chains. The xylanalginate films exhibited better optical and water sorption properties at higher xylan content. In order to improve the inherently poor mechanical and barrier properties of the xylan-alginate films, bentonite and halloysite were incorporated into the films. It was found that 5wt% incorporation of either bentonite or halloysite resulted in a 49% decrease of the WVP, which was attributed to water vapour impermeable nature of the silicate layers that make up both clays. The incorporation of the clays into the xylan-alginate matrix resulted in a significant
- Full Text:
- Date Issued: 2020
- Authors: Naidu, Darrel Sarvesh
- Date: 2020
- Subjects: Xylanases
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/48544 , vital:40886
- Description: Currently a large number of chemicals and plastics are produced from petroleum-based resources. However, due to the concerns surrounding the depletion of petroleum resources and growing carbon emissions, there is a desire to produce chemicals and plastics from renewable and carbon natural sources. Lignocellulosic biomass (biomass consisting of cellulose, lignin and hemicellulose) is the most common biomass on earth and is renewable and carbon neutral. Of the three main constituents of lignocellulosic biomass, hemicellulose is composed of a mixture of sugars which can be converted into chemicals and plastics. The most common form of hemicellulose found in nature is xylan. This study is aimed at extracting xylan from maize stalk waste residues and the development of xylan films with properties that are suitable for food packaging applications. Xylan was extracted from maize stalk waste residues using an alkaline pre-treatment method. The effects of bleaching conditions (time, temperature and bleach concentration) prior to alkaline treatment on the yield and purity of xylan extracted was studied using a Box-Behnken experimental design. It was observed that the experimental conditions tested had no effect on the yield of the xylan extracted but the bleach concentration had a significant effect on the purity of the xylan extracted. The samples with the lowest lignin content were found to be the samples treated with 3wt% bleach prior to alkaline pre-treatment. One of the main disadvantages of xylan is that it has poor film forming properties, a method of overcoming this is to combine it with another abundantly available biopolymer that has good film forming properties, such as alginate. The effect of xylan, alginate and glycerol content on the mechanical, thermal, moisture uptake and water barrier properties of the films were investigated. It was observed that with an increase in the alginate content there was an increase in the tensile strength and Young’s modulus of the films, whereas the water vapour permeability (WVP) of the films decreased. This was attributed to the greater cohesion between alginate polymer chains compared to the cohesion between xylan polymer chains. The xylanalginate films exhibited better optical and water sorption properties at higher xylan content. In order to improve the inherently poor mechanical and barrier properties of the xylan-alginate films, bentonite and halloysite were incorporated into the films. It was found that 5wt% incorporation of either bentonite or halloysite resulted in a 49% decrease of the WVP, which was attributed to water vapour impermeable nature of the silicate layers that make up both clays. The incorporation of the clays into the xylan-alginate matrix resulted in a significant
- Full Text:
- Date Issued: 2020
Development of MOVPE-grown InAsSb for barrier diode applications
- Authors: Dobson, Stephen R
- Date: 2020
- Subjects: Gallium arsenide semiconductors , Electronics
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49071 , vital:41598
- Description: In this study, layers of GaSb, InAs and InAsSb are grown by metalorganic vapour phase epitaxy and characterised. Growth is conducted using the precursors of trimethylgallium, trimethylindium, trimethylantimony and tertiarybutylarsine. Focus is then placed on the characterisation of the materials, carried out by the techniques of X-ray diffraction, photoluminescence spectroscopy, Hall measurements and photocurrent spectroscopy. It is observed that V/III ratio plays a vital role in the growth of the GaSb and InAsSb layers. Epilayers of GaSb showed best crystalline quality when a V/III ratio of 1.2 was used at a growth temperature of 600 °C and a cell pressure of 600 Torr. Resultant Hall measurements indicated p-type GaSb. The Hall carrier concentrations of the p-type GaSb samples were analyzed considering electrical neutrality conditions and found to be highly compensated with evidence of band impurity conduction at low measurement temperatures. Both the donor and acceptor concentrations were determined to be of the order of 1016 cm−3 for all samples. For low temperature (< 150 K) a monovalent acceptor concentration is calculated to have an activation energy at approximately 20 meV. At high temperature (> 150 K) a divalent acceptor is extracted with an activation energy varying between samples based on compensation in a range of 90 meV to 70 meV. Photoluminescence measurements show four peaks with recombination mechanisms linked to the native acceptor identified in literature as either the gallium antisite and/or vacant gallium site. A fifth peak observed is attributed to the longitudinal phonon of the native acceptor. InAs and InAsSb epilayer are all grown at a temperature of 600 °C and cell pressure of 600 Torr. InAs is grown at a V/III ratio of 9.5 on GaAs substrate. Photoluminescence of the InAs layer shows two distinct peaks, one of which is an extrinsic band to band recombination. The other is attributed to free electron to acceptor or a donor-acceptor pair transition. An additional weak peak is also observed which is assigned to the longitudinal phonon of the band to band. InAsSb growth was conducted under a range of V/III ratios of 4.8 to 5, with a vapour phase composition of 0.4 to 0.435. Structural analysis via X-ray diffraction showed a 6 % to 12 % solid antimony content. Photoluminescence exhibited a single broad peak for all samples, with extended band tails. Temperature and power dependant analysis of luminescence indicated a convolution of extrinsic band to tail and band to band recombinations. Hall measurements indicated the InAsSb was n-type material with an apparent measured maximum mobility at 120 K of 9.5 × 103 cm2/V.s. and a room temperature apparent mobility of 7.5 × 103 cm2/V.s. Analysis of hall results using a two-layer model calculated a true bulk mobility of the epilayer at room temperature with an increased value of 15.4 × 103 cm2/V.s. The two-layer model details the effects of the surface conduction. From photoconductivity measurements and further analysis a resultant effective lifetime, at room temperature, was found to be on same order of magnitude as that of InAs materials. Application of a single Einstein oscillator extrapolated 0 K energy gaps for two samples of solid Sb contents of 6 % and 12 %, of 354 meV and 332 meV, respectively. Finally consideration was given to the growth of aluminium containing compounds, particularly AlGaSb. Multiple phases were observed under scanning electron microscope showing growth of GaSb regions surrounded by amorphous solid aluminium and/or aluminium oxide phases. The failure of the aluminium to incorporate into the desired crystal structure is speculated to be due to impure precursor introducing oxygen into the films. Additionally, the effectiveness of the gallium precursor compared to the aluminium precursor in helping the removal of the methyl groups at the growth surface, could also promote a preference for GaSb growth.
- Full Text:
- Date Issued: 2020
- Authors: Dobson, Stephen R
- Date: 2020
- Subjects: Gallium arsenide semiconductors , Electronics
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49071 , vital:41598
- Description: In this study, layers of GaSb, InAs and InAsSb are grown by metalorganic vapour phase epitaxy and characterised. Growth is conducted using the precursors of trimethylgallium, trimethylindium, trimethylantimony and tertiarybutylarsine. Focus is then placed on the characterisation of the materials, carried out by the techniques of X-ray diffraction, photoluminescence spectroscopy, Hall measurements and photocurrent spectroscopy. It is observed that V/III ratio plays a vital role in the growth of the GaSb and InAsSb layers. Epilayers of GaSb showed best crystalline quality when a V/III ratio of 1.2 was used at a growth temperature of 600 °C and a cell pressure of 600 Torr. Resultant Hall measurements indicated p-type GaSb. The Hall carrier concentrations of the p-type GaSb samples were analyzed considering electrical neutrality conditions and found to be highly compensated with evidence of band impurity conduction at low measurement temperatures. Both the donor and acceptor concentrations were determined to be of the order of 1016 cm−3 for all samples. For low temperature (< 150 K) a monovalent acceptor concentration is calculated to have an activation energy at approximately 20 meV. At high temperature (> 150 K) a divalent acceptor is extracted with an activation energy varying between samples based on compensation in a range of 90 meV to 70 meV. Photoluminescence measurements show four peaks with recombination mechanisms linked to the native acceptor identified in literature as either the gallium antisite and/or vacant gallium site. A fifth peak observed is attributed to the longitudinal phonon of the native acceptor. InAs and InAsSb epilayer are all grown at a temperature of 600 °C and cell pressure of 600 Torr. InAs is grown at a V/III ratio of 9.5 on GaAs substrate. Photoluminescence of the InAs layer shows two distinct peaks, one of which is an extrinsic band to band recombination. The other is attributed to free electron to acceptor or a donor-acceptor pair transition. An additional weak peak is also observed which is assigned to the longitudinal phonon of the band to band. InAsSb growth was conducted under a range of V/III ratios of 4.8 to 5, with a vapour phase composition of 0.4 to 0.435. Structural analysis via X-ray diffraction showed a 6 % to 12 % solid antimony content. Photoluminescence exhibited a single broad peak for all samples, with extended band tails. Temperature and power dependant analysis of luminescence indicated a convolution of extrinsic band to tail and band to band recombinations. Hall measurements indicated the InAsSb was n-type material with an apparent measured maximum mobility at 120 K of 9.5 × 103 cm2/V.s. and a room temperature apparent mobility of 7.5 × 103 cm2/V.s. Analysis of hall results using a two-layer model calculated a true bulk mobility of the epilayer at room temperature with an increased value of 15.4 × 103 cm2/V.s. The two-layer model details the effects of the surface conduction. From photoconductivity measurements and further analysis a resultant effective lifetime, at room temperature, was found to be on same order of magnitude as that of InAs materials. Application of a single Einstein oscillator extrapolated 0 K energy gaps for two samples of solid Sb contents of 6 % and 12 %, of 354 meV and 332 meV, respectively. Finally consideration was given to the growth of aluminium containing compounds, particularly AlGaSb. Multiple phases were observed under scanning electron microscope showing growth of GaSb regions surrounded by amorphous solid aluminium and/or aluminium oxide phases. The failure of the aluminium to incorporate into the desired crystal structure is speculated to be due to impure precursor introducing oxygen into the films. Additionally, the effectiveness of the gallium precursor compared to the aluminium precursor in helping the removal of the methyl groups at the growth surface, could also promote a preference for GaSb growth.
- Full Text:
- Date Issued: 2020
Development of Tio 2 nanostructure arrays for photonic extraction of hydrogen gas
- Authors: Suliali, Nyasha Joseph
- Date: 2020
- Subjects: Nanostructures , Nanostructured materials Hydrogen
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49314 , vital:41620
- Description: Amid the energy crisis of the 21st century, renewable energy is a thriving field of study, light harvesting materials being a central theme due to the abundance of solar energy. Nanostructured TiO2 is the most studied photocatalysis material, since the discovery of its energy harvesting properties by Fujishima and Honda in 1972. Environmentally friendly products such as hydrogen fuel, can be produced using TiO2 due to its non-toxicity, chemical stability and photocatalytic activity. The surprising aspect of this important material is that it can be prepared using cost-effective methods such as hydrothermal synthesis, solution gelation and anodic oxidation. This research focused on the three key elements required to develop TiO2 photoelectrodes i.e. the deposition of Ti films on transparent substrates, a thorough analysis of the chemistry of the anodic oxidation process and the development of the TiO2 thin films. Glass substrates that have Ti films are the base component for TiO2 photoelectrode production. Ti films with thicknesses up to 4 μm, were developed on commercial F-doped SnO2 (FTO) glass substrates using high-power impulse magnetron sputtering (HiPIMS). The sputter deposition experiments were performed in the 1 to 8 kW range at a substrate temperature of 500 °C and Ar pressure of 400 mPa. At higher powers, thicker films were deposited, resulting in increased intensity of Xray-diffraction peaks. However, on comparing the XRD patterns, the (001) peak outgrew the rest regardless of thickness of the film. The deposition process therefore favoured orientation of most of the α-Ti phase crystallites with the [001] axis perpendicular to the substrate surface. Surface roughness results were interesting, showing a non-linear dependence of the surface roughness on HiPIMS pulse energy in the 1 to 8 kW range. The surface roughness is highest at the starting deposition power of 1450 W and reduces to a minimum at 4500 W. From this minimum, it increases to its second highest value at 7900 W. From this data, the parameters required to produce Ti films of lowest surface roughness, for deposition on commercial Technistro® FTO glass, were deduced at the inflection point, where the deposition power was 4500 W. The surface roughness obtained is a critical result for the anodic production of quality TiO2 photoelectrodes, which if high, leads to uneven etching, thus irregular and inefficient photoelectrodes. Direct current magnetron sputtering was also carried out in the 1 to 5 kW range to obtain ratios of power-normalised growth rates of the Ti films. This investigation provided the Ti films on FTO glass, the transparent, conductive substrates which were used to develop TiO2 photoelectrodes. To elucidate the chemistry of anodic oxidation of Ti, a mathematical model of the anodic current density, which had not been reported at the time of its publication, was developed. The technique, a highlight of this research, is a predictive numerical computation of the instantaneous quantities of species that participate in the anodization process. From eleven chemical reactions, 14 first order ordinary differential equations were compiled using the principles of chemical reaction kinetics. The pattern, transient behaviour and response to anodization parameters of the current density signal, were successfully predicted. Strong agreement between the model and measurements was demonstrated in seven experiments. The results confirm that the current density signal is a numerical integral of the kinetics of redox reactions of water. The bulk of this research was on the development of TiO2 nanotubular arrays on Ti foil substrates and Ti films on FTO glass. TiO2 films with well-defined tubular structures were synthesised. The films were developed in anhydrous, polar organic hosts with water and etching agents in the range of 10 V to 70 V. The control of geometrical properties of the tubes such as the length, pore diameter, wall thickness, tube separation and number of nanotubes per unit area was demonstrated. Anatase only and mixed anatase-rutile phase compositions were obtained at different annealing temperatures. Nanotubes with diameters as small as 20 nm and thickness as high as 29 μm were produced. Apart from an increase in nanotube thickness, a decrease in distance between nanotubes grown in diethylene glycol was observed at longer anodization times. Studies of the effects of anodization parameters on the current density measured, morphological and crystallographic properties of the nanotube films were conducted in three main investigations. The first was the study of the effect of anodization parameters on current density. Besides the obvious increase of current density with anodic voltage, the first steady state of the growth process was found to depend on the NH4F concentration. The second investigation focused on the effect of accelerated growth of TiO2 nanotubular films. In the study, 9 μm-thick nanotube films were synthesised at twice the growth rate of a 9 μm-thick control sample. The array obtained by accelerated growth had distinguishable nanotubes, however, the morphological quality was reduced. The third investigation demonstrates the control of the number of nanotubes per unit area. By varying the etchant content, the anodic voltage and the viscosity of the electrolyte host, various distributions were obtained. The research ends with a photoelectrochemical application: measurement on photocurrents generated in a two-electrode setup. The photocurrent densities measured in the off and on conditions were 30 nA/cm2 and 2.57 μA/cm2, respectively, demonstrating photoactivity of the developed films.
- Full Text:
- Date Issued: 2020
- Authors: Suliali, Nyasha Joseph
- Date: 2020
- Subjects: Nanostructures , Nanostructured materials Hydrogen
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49314 , vital:41620
- Description: Amid the energy crisis of the 21st century, renewable energy is a thriving field of study, light harvesting materials being a central theme due to the abundance of solar energy. Nanostructured TiO2 is the most studied photocatalysis material, since the discovery of its energy harvesting properties by Fujishima and Honda in 1972. Environmentally friendly products such as hydrogen fuel, can be produced using TiO2 due to its non-toxicity, chemical stability and photocatalytic activity. The surprising aspect of this important material is that it can be prepared using cost-effective methods such as hydrothermal synthesis, solution gelation and anodic oxidation. This research focused on the three key elements required to develop TiO2 photoelectrodes i.e. the deposition of Ti films on transparent substrates, a thorough analysis of the chemistry of the anodic oxidation process and the development of the TiO2 thin films. Glass substrates that have Ti films are the base component for TiO2 photoelectrode production. Ti films with thicknesses up to 4 μm, were developed on commercial F-doped SnO2 (FTO) glass substrates using high-power impulse magnetron sputtering (HiPIMS). The sputter deposition experiments were performed in the 1 to 8 kW range at a substrate temperature of 500 °C and Ar pressure of 400 mPa. At higher powers, thicker films were deposited, resulting in increased intensity of Xray-diffraction peaks. However, on comparing the XRD patterns, the (001) peak outgrew the rest regardless of thickness of the film. The deposition process therefore favoured orientation of most of the α-Ti phase crystallites with the [001] axis perpendicular to the substrate surface. Surface roughness results were interesting, showing a non-linear dependence of the surface roughness on HiPIMS pulse energy in the 1 to 8 kW range. The surface roughness is highest at the starting deposition power of 1450 W and reduces to a minimum at 4500 W. From this minimum, it increases to its second highest value at 7900 W. From this data, the parameters required to produce Ti films of lowest surface roughness, for deposition on commercial Technistro® FTO glass, were deduced at the inflection point, where the deposition power was 4500 W. The surface roughness obtained is a critical result for the anodic production of quality TiO2 photoelectrodes, which if high, leads to uneven etching, thus irregular and inefficient photoelectrodes. Direct current magnetron sputtering was also carried out in the 1 to 5 kW range to obtain ratios of power-normalised growth rates of the Ti films. This investigation provided the Ti films on FTO glass, the transparent, conductive substrates which were used to develop TiO2 photoelectrodes. To elucidate the chemistry of anodic oxidation of Ti, a mathematical model of the anodic current density, which had not been reported at the time of its publication, was developed. The technique, a highlight of this research, is a predictive numerical computation of the instantaneous quantities of species that participate in the anodization process. From eleven chemical reactions, 14 first order ordinary differential equations were compiled using the principles of chemical reaction kinetics. The pattern, transient behaviour and response to anodization parameters of the current density signal, were successfully predicted. Strong agreement between the model and measurements was demonstrated in seven experiments. The results confirm that the current density signal is a numerical integral of the kinetics of redox reactions of water. The bulk of this research was on the development of TiO2 nanotubular arrays on Ti foil substrates and Ti films on FTO glass. TiO2 films with well-defined tubular structures were synthesised. The films were developed in anhydrous, polar organic hosts with water and etching agents in the range of 10 V to 70 V. The control of geometrical properties of the tubes such as the length, pore diameter, wall thickness, tube separation and number of nanotubes per unit area was demonstrated. Anatase only and mixed anatase-rutile phase compositions were obtained at different annealing temperatures. Nanotubes with diameters as small as 20 nm and thickness as high as 29 μm were produced. Apart from an increase in nanotube thickness, a decrease in distance between nanotubes grown in diethylene glycol was observed at longer anodization times. Studies of the effects of anodization parameters on the current density measured, morphological and crystallographic properties of the nanotube films were conducted in three main investigations. The first was the study of the effect of anodization parameters on current density. Besides the obvious increase of current density with anodic voltage, the first steady state of the growth process was found to depend on the NH4F concentration. The second investigation focused on the effect of accelerated growth of TiO2 nanotubular films. In the study, 9 μm-thick nanotube films were synthesised at twice the growth rate of a 9 μm-thick control sample. The array obtained by accelerated growth had distinguishable nanotubes, however, the morphological quality was reduced. The third investigation demonstrates the control of the number of nanotubes per unit area. By varying the etchant content, the anodic voltage and the viscosity of the electrolyte host, various distributions were obtained. The research ends with a photoelectrochemical application: measurement on photocurrents generated in a two-electrode setup. The photocurrent densities measured in the off and on conditions were 30 nA/cm2 and 2.57 μA/cm2, respectively, demonstrating photoactivity of the developed films.
- Full Text:
- Date Issued: 2020
Early diagnosis of colorectal cancer using gold nanoparticles : a pilot study
- Authors: Noguda, Njabulo
- Date: 2020
- Subjects: Colon (Anatomy) -- Cancer -- Diagnosis
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/48577 , vital:40892
- Description: Introduction: Colorectal cancer (CRC) is ranked amongst the top three most diagnosed cancers in humans worldwide. Colorectal cancer is the fourth most common cancer in South Africa and the sixth most common cause of death. If diagnosed during the early stages, the 5year relative survival rate can be as high as 90%. However, in most cases, the diagnosis is only made at a later stage when the cancer has metastasised, as the detection depends on the symptoms and non-specific screening. Many attempts have been made to achieve an early detected of CRC. Aim: To induce CRC in rats to investigate the use of targeted gold nanoparticles (AuNPs) as a diagnostic tool for CRC. Methods: Ten Wistar rats were injected with 1,2-dimethylhydrazine (DMH), 25 µg/Kg bodyweight once per week, for 5 consecutive weeks to induce CRC. This was followed by an incubation period of 22 weeks. At the end of the incubation period, AuNPs were synthesized using Turkevich’s citrate reduction method, and conjugated with peptide p.L. The rats were then injected intraperitoneally with p.L-PEG-AuNPs to detect CRC. Six rats were kept as controls and did not receive any treatment. Results: Five injections of DMH did not induce CRC in the rats. Conclusion: Even though CRC could not be induced using DMH in this study, 14 nm p.L-AuNPs were synthesized successfully.
- Full Text:
- Date Issued: 2020
- Authors: Noguda, Njabulo
- Date: 2020
- Subjects: Colon (Anatomy) -- Cancer -- Diagnosis
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/48577 , vital:40892
- Description: Introduction: Colorectal cancer (CRC) is ranked amongst the top three most diagnosed cancers in humans worldwide. Colorectal cancer is the fourth most common cancer in South Africa and the sixth most common cause of death. If diagnosed during the early stages, the 5year relative survival rate can be as high as 90%. However, in most cases, the diagnosis is only made at a later stage when the cancer has metastasised, as the detection depends on the symptoms and non-specific screening. Many attempts have been made to achieve an early detected of CRC. Aim: To induce CRC in rats to investigate the use of targeted gold nanoparticles (AuNPs) as a diagnostic tool for CRC. Methods: Ten Wistar rats were injected with 1,2-dimethylhydrazine (DMH), 25 µg/Kg bodyweight once per week, for 5 consecutive weeks to induce CRC. This was followed by an incubation period of 22 weeks. At the end of the incubation period, AuNPs were synthesized using Turkevich’s citrate reduction method, and conjugated with peptide p.L. The rats were then injected intraperitoneally with p.L-PEG-AuNPs to detect CRC. Six rats were kept as controls and did not receive any treatment. Results: Five injections of DMH did not induce CRC in the rats. Conclusion: Even though CRC could not be induced using DMH in this study, 14 nm p.L-AuNPs were synthesized successfully.
- Full Text:
- Date Issued: 2020
Ecological health assessment and ecosystem service provision of two urban wetlands in Port Elizabeth, Eastern Cape (South Africa)
- Authors: Larsen, Michael
- Date: 2020
- Subjects: Ecological assessment (Biology) -- South Africa -- Port Elizabeth
- Language: English
- Type: Thesis , Masters , Msc
- Identifier: http://hdl.handle.net/10948/48434 , vital:40876
- Description: The exponential increase in population numbers has imposed greater demands on the natural environment to meet energy demands for food, transportation, water treatment and the production of consumable goods (Faulkner, 2004). The majority of the African continent is dominated by arid and semi-arid climates and as a result freshwater is limited with many regions experiencing severe water shortages on a regular basis (Schuyt, 2005). Increased natural resource consumption, technological advancements that increase the rate at which resources are harvested and global population growth have had numerous effects on the natural environment. Wide spread degradation of natural habitats is occurring globally resulting in changes to both fauna and flora and can lead to changes in species distribution and abundance, community composition and ecosystem function (Faulkner, 2004).
- Full Text:
- Date Issued: 2020
- Authors: Larsen, Michael
- Date: 2020
- Subjects: Ecological assessment (Biology) -- South Africa -- Port Elizabeth
- Language: English
- Type: Thesis , Masters , Msc
- Identifier: http://hdl.handle.net/10948/48434 , vital:40876
- Description: The exponential increase in population numbers has imposed greater demands on the natural environment to meet energy demands for food, transportation, water treatment and the production of consumable goods (Faulkner, 2004). The majority of the African continent is dominated by arid and semi-arid climates and as a result freshwater is limited with many regions experiencing severe water shortages on a regular basis (Schuyt, 2005). Increased natural resource consumption, technological advancements that increase the rate at which resources are harvested and global population growth have had numerous effects on the natural environment. Wide spread degradation of natural habitats is occurring globally resulting in changes to both fauna and flora and can lead to changes in species distribution and abundance, community composition and ecosystem function (Faulkner, 2004).
- Full Text:
- Date Issued: 2020
Efficacy of the rind physiological disorder oleocellosis control measures in lemon fruit (Citrus limon) under shade netting
- Authors: Njili, Zamazima
- Date: 2020
- Subjects: Citrus fruits--Storage--Diseases and injuries , Citrus--Diseases and pests Citrus fruit industry Citrus products
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/49237 , vital:41613
- Description: Lemon growers aim to produce fruit with no blemishes on the rind. Fruit without blemishes is regarded as high value fruit required for the export market. Leakage of phytotoxic oil from the rind tissues damages them and results in the development of oleocellosis symptoms. Four experiments were conducted to investigate methods of avoiding and controlling the development of oleocellosis during harvest and post-harvest handling. The first experiment indicated that the rind oil release pressure (RORP) test is the method most effective at predicting oleocellosis incidents. The experiment also suggested that fruit not exposed to the sun are the most susceptible to oleocellosis due to low temperatures that cause high turgidity. Oleocellosis results when turgid fruit is mishandled. A cultivar experiment was carried out to ascertain the lemon cultivar most susceptible to oleocellosis. The results show that the Limoneira cultivar is the most susceptible to oleocellosis and 2PH seedless is the least susceptible cultivar when compared to other lemon cultivars such as Lisbon, Eureka and Genoa. When the use of shade netting was tested to determine its effect on oleocellosis severity, it was found that using shade netting did not have an effect. Fruit grown under shade netting had the same colour and average diameter as fruit grown in an open orchard. In the same experiment, mature fruit were shown to be more susceptible to oleocellosis than immature fruit. The final part of the project investigated harvesting and post-harvest practices to determine those that cause oleocellosis the most. It was found that fruit after degreening had greater oleocellosis due to exposure to moisture conditions and rough handling. Another practice that results in oleocellosis occurs before waxing when the fruit was roughly transferred from the bins into the packline. The third oleocellosis inducing practice was moving fruit along the conveyor belt while it is turgid. Improvement of handling procedures to reduce oleocellosis can increase export volume and result in higher value of fruit per carton.
- Full Text:
- Date Issued: 2020
- Authors: Njili, Zamazima
- Date: 2020
- Subjects: Citrus fruits--Storage--Diseases and injuries , Citrus--Diseases and pests Citrus fruit industry Citrus products
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/49237 , vital:41613
- Description: Lemon growers aim to produce fruit with no blemishes on the rind. Fruit without blemishes is regarded as high value fruit required for the export market. Leakage of phytotoxic oil from the rind tissues damages them and results in the development of oleocellosis symptoms. Four experiments were conducted to investigate methods of avoiding and controlling the development of oleocellosis during harvest and post-harvest handling. The first experiment indicated that the rind oil release pressure (RORP) test is the method most effective at predicting oleocellosis incidents. The experiment also suggested that fruit not exposed to the sun are the most susceptible to oleocellosis due to low temperatures that cause high turgidity. Oleocellosis results when turgid fruit is mishandled. A cultivar experiment was carried out to ascertain the lemon cultivar most susceptible to oleocellosis. The results show that the Limoneira cultivar is the most susceptible to oleocellosis and 2PH seedless is the least susceptible cultivar when compared to other lemon cultivars such as Lisbon, Eureka and Genoa. When the use of shade netting was tested to determine its effect on oleocellosis severity, it was found that using shade netting did not have an effect. Fruit grown under shade netting had the same colour and average diameter as fruit grown in an open orchard. In the same experiment, mature fruit were shown to be more susceptible to oleocellosis than immature fruit. The final part of the project investigated harvesting and post-harvest practices to determine those that cause oleocellosis the most. It was found that fruit after degreening had greater oleocellosis due to exposure to moisture conditions and rough handling. Another practice that results in oleocellosis occurs before waxing when the fruit was roughly transferred from the bins into the packline. The third oleocellosis inducing practice was moving fruit along the conveyor belt while it is turgid. Improvement of handling procedures to reduce oleocellosis can increase export volume and result in higher value of fruit per carton.
- Full Text:
- Date Issued: 2020
Elucidation of the effect of cannabinoids on ER stress to determine their molecular mechanism of action in breast cancer cells
- Authors: De la Harpe, Amy
- Date: 2020
- Subjects: Endoplasmic reticulum -- Pathophysiology , Breast -- Cancer -- Research
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/48213 , vital:40525
- Description: Endoplasmic reticulum (ER) stress is defined as an imbalance between the ER’s protein-folding load and folding capacity. ER stress is induced by various physiological conditions and subsequently triggers the activation of the unfolded protein response (UPR) to re-establish homeostasis and promote cell survival. However, under severe or chronic stress, apoptosis is induced. Normal cells generally do not experience ER stress; however, stressful conditions in the tumour micro-environment facilitates chronic ER stress and UPR activation, which plays a pivotal role in tumour survival. Exacerbation of pre-existing ER stress can trigger cancer cell death, with a minimal effect on normal cells. Currently, no high-throughput method exists to detect and quantify ER stress in cell lines. This study showed that Thioflavin T, a fluorescent dye that binds to misfolded protein aggregates, can be used for the high-throughput detection of ER stress, and provides several advantages over currently used methods. Current literature suggests that cannabinoid treatment may induce cancer cell death via ER stress, however little is known about the mechanism of induction. This study proposed a mechanism that occurs via the influx of Ca2+ via the vanilloid receptor 1 (TRPV1), and subsequent ROS production, which affects protein folding. ER stress was induced using various cannabinoids and measured using Thioflavin T and western blot analysis. The effect of cannabinoid treatment on ROS production and the intracellular Ca2+ concentration was measured. Cannabidiol (CBD) was the most potent ER stress inducer, significantly increasing Ca2+ and ROS accumulation; however, the level of accumulated Ca2+ across cell lines varied, which may be due to the differences in the TRPV1 expression and localization. Concomitant treatment of CBD with an antioxidant significantly increased cell viability and decreased ER stress induction in the MCF7 cell line. Concomitant treatment with a TRPV1 antagonist increased viability in this cell line. In conclusion, the results suggested that CBD may induce ER stress via Ca2+ influx through the TRPV1 receptor, thereby elevating intracellular ROS levels and disrupting protein folding.
- Full Text:
- Date Issued: 2020
- Authors: De la Harpe, Amy
- Date: 2020
- Subjects: Endoplasmic reticulum -- Pathophysiology , Breast -- Cancer -- Research
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/48213 , vital:40525
- Description: Endoplasmic reticulum (ER) stress is defined as an imbalance between the ER’s protein-folding load and folding capacity. ER stress is induced by various physiological conditions and subsequently triggers the activation of the unfolded protein response (UPR) to re-establish homeostasis and promote cell survival. However, under severe or chronic stress, apoptosis is induced. Normal cells generally do not experience ER stress; however, stressful conditions in the tumour micro-environment facilitates chronic ER stress and UPR activation, which plays a pivotal role in tumour survival. Exacerbation of pre-existing ER stress can trigger cancer cell death, with a minimal effect on normal cells. Currently, no high-throughput method exists to detect and quantify ER stress in cell lines. This study showed that Thioflavin T, a fluorescent dye that binds to misfolded protein aggregates, can be used for the high-throughput detection of ER stress, and provides several advantages over currently used methods. Current literature suggests that cannabinoid treatment may induce cancer cell death via ER stress, however little is known about the mechanism of induction. This study proposed a mechanism that occurs via the influx of Ca2+ via the vanilloid receptor 1 (TRPV1), and subsequent ROS production, which affects protein folding. ER stress was induced using various cannabinoids and measured using Thioflavin T and western blot analysis. The effect of cannabinoid treatment on ROS production and the intracellular Ca2+ concentration was measured. Cannabidiol (CBD) was the most potent ER stress inducer, significantly increasing Ca2+ and ROS accumulation; however, the level of accumulated Ca2+ across cell lines varied, which may be due to the differences in the TRPV1 expression and localization. Concomitant treatment of CBD with an antioxidant significantly increased cell viability and decreased ER stress induction in the MCF7 cell line. Concomitant treatment with a TRPV1 antagonist increased viability in this cell line. In conclusion, the results suggested that CBD may induce ER stress via Ca2+ influx through the TRPV1 receptor, thereby elevating intracellular ROS levels and disrupting protein folding.
- Full Text:
- Date Issued: 2020
Flammability of indigenous and invasive alien woody plants in coastal fynbos and thicket
- Msweli, Samukelisiwe Tholakele, Potts, Alastair J
- Authors: Msweli, Samukelisiwe Tholakele , Potts, Alastair J
- Date: 2020
- Subjects: Forest fires -- Environmental aspects , Forest fires -- Prevention and control
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/45875 , vital:39313
- Description: Globally, extreme fires have become more common in wildland-urban interface areas, and more recently, along the southern Cape coast of South Africa. The 2017 Knysna fires prompted greater understanding of the flammability of, and the fire risk posed by, different vegetation groups, which is essential to develop fire risk mitigation strategies. In this study, I experimentally assessed flammability of 30 woody plant species from the vegetation groups indigenous fynbos, thicket, and invasive alien plants (IAPs) that occur along the southern Cape coast. Live plant shoots were sampled across varying fire weather conditions and burnt experimentally to measure flammability in relation to fire weather conditions, fuel moisture, and fuel load. Flammability measures considered were: burn intensity, completeness of burn, time-to-ignition, and the likelihood of spontaneous ignition. I further assessed the flammability of partially dried plant material as a crude proxy for drought effects, to ascertain whether drying of fuels would differentially affect the flammability of the vegetation groups. I used generalized linear mixed-effects models to assess flammability measures in relation to the predictor variables: fire weather, fuel moisture, fuel load, vegetation groups, and species (as a random factor). Results showed that increasing severity of fire weather significantly increased flammability through increasing burn intensity, increasing completeness of burn, increasing the likelihood of spontaneous ignition, and also reducing time-to-ignition. Increasing fuel moisture significantly decreased burn intensity, completeness of burn, and the likelihood of spontaneous ignition. Fuel load significantly increased burn intensity and time-to-ignition. Flammability was highest in IAPs, intermediate in fynbos, and lowest in thicket. IAPs and fynbos showed significantly higher ignitability, and thus present risks under moderate and high fire weather conditions, whereas thicket presents lower risks under low and moderate fire weather conditions. The drying out of fuels considerably increased flammability equally in the three vegetation groups, and by implication, fire risk due to an increase in dead:live ratio. Flammability was furthermore assessed in relation to fuel traits, i.e. the proportion of fine fuels, coarse fuels, and dead fuels, fuel bed porosity, fuel load, and fuel moisture, using multiple regression analysis and stepwise selection of factors. This revealed that fuel moisture was the most important factor affecting flammability in terms of all the flammability measures. Results further showed that the increase in v the proportions of fine fuels increased flammability by increasing completeness of burn. Lastly, vegetation groups were compared (using Kruskal Wallis) in terms of their flammability and fuel traits. I found that fynbos and IAPs exhibited greater flammability on account of higher completeness of burn and more rapid ignition than thicket species, but no clear distinction was evident between fynbos and IAPs. Fynbos’ high flammability was attributed to high proportions of fine and porous fuels. Thicket’s low flammability was attributed to high proportions of coarse and dense fuels. Little distinction in fuel traits could be made between fynbos and IAPs, except that fynbos had a greater proportion of fine fuels. There is a potential risk posed by the IAPs in terms of increased flammability and fire severity, on an indigenous landscape that is invaded. Fire managers need to encourage the prioritization of the management of IAPs that present high flammability as an attempt to reduce fire risk along the southern Cape coast of South Africa.
- Full Text:
- Date Issued: 2020
- Authors: Msweli, Samukelisiwe Tholakele , Potts, Alastair J
- Date: 2020
- Subjects: Forest fires -- Environmental aspects , Forest fires -- Prevention and control
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/45875 , vital:39313
- Description: Globally, extreme fires have become more common in wildland-urban interface areas, and more recently, along the southern Cape coast of South Africa. The 2017 Knysna fires prompted greater understanding of the flammability of, and the fire risk posed by, different vegetation groups, which is essential to develop fire risk mitigation strategies. In this study, I experimentally assessed flammability of 30 woody plant species from the vegetation groups indigenous fynbos, thicket, and invasive alien plants (IAPs) that occur along the southern Cape coast. Live plant shoots were sampled across varying fire weather conditions and burnt experimentally to measure flammability in relation to fire weather conditions, fuel moisture, and fuel load. Flammability measures considered were: burn intensity, completeness of burn, time-to-ignition, and the likelihood of spontaneous ignition. I further assessed the flammability of partially dried plant material as a crude proxy for drought effects, to ascertain whether drying of fuels would differentially affect the flammability of the vegetation groups. I used generalized linear mixed-effects models to assess flammability measures in relation to the predictor variables: fire weather, fuel moisture, fuel load, vegetation groups, and species (as a random factor). Results showed that increasing severity of fire weather significantly increased flammability through increasing burn intensity, increasing completeness of burn, increasing the likelihood of spontaneous ignition, and also reducing time-to-ignition. Increasing fuel moisture significantly decreased burn intensity, completeness of burn, and the likelihood of spontaneous ignition. Fuel load significantly increased burn intensity and time-to-ignition. Flammability was highest in IAPs, intermediate in fynbos, and lowest in thicket. IAPs and fynbos showed significantly higher ignitability, and thus present risks under moderate and high fire weather conditions, whereas thicket presents lower risks under low and moderate fire weather conditions. The drying out of fuels considerably increased flammability equally in the three vegetation groups, and by implication, fire risk due to an increase in dead:live ratio. Flammability was furthermore assessed in relation to fuel traits, i.e. the proportion of fine fuels, coarse fuels, and dead fuels, fuel bed porosity, fuel load, and fuel moisture, using multiple regression analysis and stepwise selection of factors. This revealed that fuel moisture was the most important factor affecting flammability in terms of all the flammability measures. Results further showed that the increase in v the proportions of fine fuels increased flammability by increasing completeness of burn. Lastly, vegetation groups were compared (using Kruskal Wallis) in terms of their flammability and fuel traits. I found that fynbos and IAPs exhibited greater flammability on account of higher completeness of burn and more rapid ignition than thicket species, but no clear distinction was evident between fynbos and IAPs. Fynbos’ high flammability was attributed to high proportions of fine and porous fuels. Thicket’s low flammability was attributed to high proportions of coarse and dense fuels. Little distinction in fuel traits could be made between fynbos and IAPs, except that fynbos had a greater proportion of fine fuels. There is a potential risk posed by the IAPs in terms of increased flammability and fire severity, on an indigenous landscape that is invaded. Fire managers need to encourage the prioritization of the management of IAPs that present high flammability as an attempt to reduce fire risk along the southern Cape coast of South Africa.
- Full Text:
- Date Issued: 2020
Foraging in a dynamic environment: movement and stable isotope ecology of marine top predators breeding at the Prince Edward Archipelago
- Authors: Carpenter-Kling, Tegan
- Date: 2020
- Subjects: Marine ecology , Stable isotope tracers , Estuarine ecology
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49049 , vital:41596
- Description: Marine ecosystems are experiencing rapid changes due to climate change. The associated temporal and spatial changes in resource distribution impacts on the foraging behaviour of marine top predators. If these changes negatively affect the ability of marine predators to forage efficiently, there may be dire consequences for their populations. However, evidence of foraging plasticity during adverse conditions, or generalist foraging behaviour, can allow inference about the resilience of species to environmental change and provide essential knowledge towards effective and proactive conservation measures. I examined plasticity in the trophic ecology of 12 marine predator species breeding on Marion Island, southern Indian Ocean, over three years (2015 – 2018), a period characterized by pronounced environmental variability. Firstly, I correlated behavioural states inferred along the GPS tracks of incubating wandering, grey-headed, sooty and light-mantled albatrosses to environmental variables that are indicative of biologically productive oceanographic features. Secondly, I analysed δ13C and δ15N blood values in 12 marine predator species (the afore-mentioned albatrosses as well as king, gentoo, macaroni and eastern rockhopper penguins, northern and southern giant petrels and Antarctic and sub-Antarctic fur seals) over two seasons: summer and autumn. My results revealed that the foraging behaviour of all the species is, to some degree, either plastic (temporally variable isotopic niche) or general (large isotopic niche which remained similar over time), except for the king penguin (small isotopic niche which remained similar over time), a known foraging specialist. Furthermore, despite their dynamic foraging behaviour, resource partitioning among the predators was maintained over time. Due to the ease and relatively low cost of collecting tissues for stable isotope analysis it has the potential to be a powerful tool to monitor the trophic ecology of marine predators. I thus used my simultaneously collected dataset of GPS tracks with the stable isotope blood compositions to investigate some of the assumptions underlying the inferences made from marine predator δ13C and δ15N blood values. I reconstructed species- and guild- specific δ13C and δ15N isoscapes for eight seabird species. Following this, I coupled individual-based movement models of northern giant petrels with global marine isotope models to explore the sensitivity of tissue δ13C values to a range of extrinsic (environmental) and intrinsic (behavioural, physiological) drivers. My results demonstrate the strong influence of reference isoscapes on the inference of stable isotope compositions of marine predators. Furthermore, I show that caution should be used when using non-species-specific or temporally inaccurate isoscapes. I furthermore demonstrate that biological interactions, such as competition for food resources, either past or present, as well as spatio-temporal distribution of food patches strongly influence the foraging behaviour of marine predators. These findings highlight the importance of integrating biological interactions in species distribution models which are used to predict possible distributional shifts of marine predators in the context of global changes. My thesis further developed previously available methods and presents a novel approach to investigate sources of variance in the stable isotopic composition of animals’ tissues.
- Full Text:
- Date Issued: 2020
- Authors: Carpenter-Kling, Tegan
- Date: 2020
- Subjects: Marine ecology , Stable isotope tracers , Estuarine ecology
- Language: English
- Type: Thesis , Doctoral , DPhil
- Identifier: http://hdl.handle.net/10948/49049 , vital:41596
- Description: Marine ecosystems are experiencing rapid changes due to climate change. The associated temporal and spatial changes in resource distribution impacts on the foraging behaviour of marine top predators. If these changes negatively affect the ability of marine predators to forage efficiently, there may be dire consequences for their populations. However, evidence of foraging plasticity during adverse conditions, or generalist foraging behaviour, can allow inference about the resilience of species to environmental change and provide essential knowledge towards effective and proactive conservation measures. I examined plasticity in the trophic ecology of 12 marine predator species breeding on Marion Island, southern Indian Ocean, over three years (2015 – 2018), a period characterized by pronounced environmental variability. Firstly, I correlated behavioural states inferred along the GPS tracks of incubating wandering, grey-headed, sooty and light-mantled albatrosses to environmental variables that are indicative of biologically productive oceanographic features. Secondly, I analysed δ13C and δ15N blood values in 12 marine predator species (the afore-mentioned albatrosses as well as king, gentoo, macaroni and eastern rockhopper penguins, northern and southern giant petrels and Antarctic and sub-Antarctic fur seals) over two seasons: summer and autumn. My results revealed that the foraging behaviour of all the species is, to some degree, either plastic (temporally variable isotopic niche) or general (large isotopic niche which remained similar over time), except for the king penguin (small isotopic niche which remained similar over time), a known foraging specialist. Furthermore, despite their dynamic foraging behaviour, resource partitioning among the predators was maintained over time. Due to the ease and relatively low cost of collecting tissues for stable isotope analysis it has the potential to be a powerful tool to monitor the trophic ecology of marine predators. I thus used my simultaneously collected dataset of GPS tracks with the stable isotope blood compositions to investigate some of the assumptions underlying the inferences made from marine predator δ13C and δ15N blood values. I reconstructed species- and guild- specific δ13C and δ15N isoscapes for eight seabird species. Following this, I coupled individual-based movement models of northern giant petrels with global marine isotope models to explore the sensitivity of tissue δ13C values to a range of extrinsic (environmental) and intrinsic (behavioural, physiological) drivers. My results demonstrate the strong influence of reference isoscapes on the inference of stable isotope compositions of marine predators. Furthermore, I show that caution should be used when using non-species-specific or temporally inaccurate isoscapes. I furthermore demonstrate that biological interactions, such as competition for food resources, either past or present, as well as spatio-temporal distribution of food patches strongly influence the foraging behaviour of marine predators. These findings highlight the importance of integrating biological interactions in species distribution models which are used to predict possible distributional shifts of marine predators in the context of global changes. My thesis further developed previously available methods and presents a novel approach to investigate sources of variance in the stable isotopic composition of animals’ tissues.
- Full Text:
- Date Issued: 2020
Genetic connectivity in sandy beach macroinfauna with contrasting life histories and zonation patterns
- Authors: Bezuidenhout, Karien
- Date: 2020
- Subjects: Fishes -- Genetics , Seashore ecology -- South Africa
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/45944 , vital:39380
- Description: Open-ocean sandy beaches are highly dynamic ecosystems that continuously respond to waves, tides and storms. These beaches support a suite of uniquely adapted fauna that exhibits a high degree of endemism. This diversity, which also includes some economically important resource species, contributes to the great socio-economic and ecological value of sandy beach systems, which provide ecosystem services such as nutrient recycling and water purification, fish nursery habitat (surf zone), and natural buffering against storms. Despite their broad global distribution comprising ~70 % of the world’s ice-free coastline, beaches are naturally fragmented by other intertidal marine habitats and extensive coastal development. Sea-level rise is now threatening beaches, particularly along developed coasts through coastal squeeze, with an increased risk of habitat loss and exacerbated fragmentation. Such habitat loss has important implications for population and species persistence, depending on the level of connectivity among populations. While sandy beach macroinfauna tend to be highly mobile across and along shore, they also show a strong bias towards direct, or aplanktonic, development; the latter could reduce opportunities for dispersal and sustained population connectivity. However, comparatively little is known about population connectivity on sandy beaches, limiting scientifically sound management of much of the world’s coastline. This study aims to address this knowledge gap by working towards a conceptual model quantifying population connectivity, and by investigating the specific roles of life history, across-shore zonation, and geographic range as putative indicators and possibly drivers of genetic differentiation (ΦST) and connectivity (gene flow) among beach macroinvertebrate populations. The main hypotheses are that 1) species with a pelagic larval stage will display lower genetic differentiation with higher rates of gene flow among populations than species with a benthic lecithotrophic larval stage or direct development; and 2) genetic differentiation among populations will decrease along an across-shore axis, from the supratidal to the low water mark. Two opposing hypotheses were tested concerning the relationship between genetic structure and distributional range: 3a) Species with a large range (measured as distance and number of latitudes) will show less genetic differentiation than those with a narrow range, because they are more able to disperse; or 3b) more widely distributed species may occur across more phylogenetic | v breaks, and thus show higher genetic differentiation than species restricted to a smaller ranges and single biogeographic provinces. First, the extent and likely drivers of population connectivity were investigated for a suite of temperate South African macroinfauna. Very low, non-significant genetic differentiation was demonstrated for the beach clam Donax serra, thus supporting the hypothesis that pelagic larval dispersers display low/no genetic differentiation among populations (Chapter 2). Statistical power of the COI locus was, however, low in this species, due to reduced genetic variability which could be attributed to an expansion from a small source population into extant habitats. The results highlighted the need for caution when interpreting a lack of genetic differentiation as evidence for population connectivity. Nevertheless, COI sequences verified that D. serra occupying the cool and warm-temperate regions of the South African coast, constitute a single species, despite morphological and behavioural differences between inhabitants of these two bioregions. D. sordidus, a congener of D. serra, and endemic to the warm-temperate (Agulhas) bioregion of South Africa, was investigated to test two opposing hypotheses (Chapter 3): 1) this pelagic larval disperser lack genetic differentiation with high rates of gene flow across its range, or alternatively 2) these clams are genetically structured across their range due to the influence of freshwater input (measured as distance to nearest estuary), and morphodynamics of the surf zone (represented by surf-zone width). Significant global ΦST was estimated for D. sordidus, with differentiation predominantly driven by haplotype frequencies at a single study site and estimates of gene flow among most sample locations generally high. Tentative evidence suggested that natural selection driven by differences in water salinity due to estuarine runoff and surf-zone width, might be maintaining two dominant haplotypes across the range of this species. Beach clams from the Southern Hemisphere, occupying different distributional ranges, were compared to test the hypothesis that genetic structure decreases with an increase in range. This hypothesis was poorly supported by the results; opposite (yet mostly non-significant) trends demonstrated for ΦST and haplotype diversity, thus providing some support for the alternative hypothesis that more phylogeographic breaks in broad-ranging species results in higher estimates of genetic structure in these species.
- Full Text:
- Date Issued: 2020
- Authors: Bezuidenhout, Karien
- Date: 2020
- Subjects: Fishes -- Genetics , Seashore ecology -- South Africa
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/45944 , vital:39380
- Description: Open-ocean sandy beaches are highly dynamic ecosystems that continuously respond to waves, tides and storms. These beaches support a suite of uniquely adapted fauna that exhibits a high degree of endemism. This diversity, which also includes some economically important resource species, contributes to the great socio-economic and ecological value of sandy beach systems, which provide ecosystem services such as nutrient recycling and water purification, fish nursery habitat (surf zone), and natural buffering against storms. Despite their broad global distribution comprising ~70 % of the world’s ice-free coastline, beaches are naturally fragmented by other intertidal marine habitats and extensive coastal development. Sea-level rise is now threatening beaches, particularly along developed coasts through coastal squeeze, with an increased risk of habitat loss and exacerbated fragmentation. Such habitat loss has important implications for population and species persistence, depending on the level of connectivity among populations. While sandy beach macroinfauna tend to be highly mobile across and along shore, they also show a strong bias towards direct, or aplanktonic, development; the latter could reduce opportunities for dispersal and sustained population connectivity. However, comparatively little is known about population connectivity on sandy beaches, limiting scientifically sound management of much of the world’s coastline. This study aims to address this knowledge gap by working towards a conceptual model quantifying population connectivity, and by investigating the specific roles of life history, across-shore zonation, and geographic range as putative indicators and possibly drivers of genetic differentiation (ΦST) and connectivity (gene flow) among beach macroinvertebrate populations. The main hypotheses are that 1) species with a pelagic larval stage will display lower genetic differentiation with higher rates of gene flow among populations than species with a benthic lecithotrophic larval stage or direct development; and 2) genetic differentiation among populations will decrease along an across-shore axis, from the supratidal to the low water mark. Two opposing hypotheses were tested concerning the relationship between genetic structure and distributional range: 3a) Species with a large range (measured as distance and number of latitudes) will show less genetic differentiation than those with a narrow range, because they are more able to disperse; or 3b) more widely distributed species may occur across more phylogenetic | v breaks, and thus show higher genetic differentiation than species restricted to a smaller ranges and single biogeographic provinces. First, the extent and likely drivers of population connectivity were investigated for a suite of temperate South African macroinfauna. Very low, non-significant genetic differentiation was demonstrated for the beach clam Donax serra, thus supporting the hypothesis that pelagic larval dispersers display low/no genetic differentiation among populations (Chapter 2). Statistical power of the COI locus was, however, low in this species, due to reduced genetic variability which could be attributed to an expansion from a small source population into extant habitats. The results highlighted the need for caution when interpreting a lack of genetic differentiation as evidence for population connectivity. Nevertheless, COI sequences verified that D. serra occupying the cool and warm-temperate regions of the South African coast, constitute a single species, despite morphological and behavioural differences between inhabitants of these two bioregions. D. sordidus, a congener of D. serra, and endemic to the warm-temperate (Agulhas) bioregion of South Africa, was investigated to test two opposing hypotheses (Chapter 3): 1) this pelagic larval disperser lack genetic differentiation with high rates of gene flow across its range, or alternatively 2) these clams are genetically structured across their range due to the influence of freshwater input (measured as distance to nearest estuary), and morphodynamics of the surf zone (represented by surf-zone width). Significant global ΦST was estimated for D. sordidus, with differentiation predominantly driven by haplotype frequencies at a single study site and estimates of gene flow among most sample locations generally high. Tentative evidence suggested that natural selection driven by differences in water salinity due to estuarine runoff and surf-zone width, might be maintaining two dominant haplotypes across the range of this species. Beach clams from the Southern Hemisphere, occupying different distributional ranges, were compared to test the hypothesis that genetic structure decreases with an increase in range. This hypothesis was poorly supported by the results; opposite (yet mostly non-significant) trends demonstrated for ΦST and haplotype diversity, thus providing some support for the alternative hypothesis that more phylogeographic breaks in broad-ranging species results in higher estimates of genetic structure in these species.
- Full Text:
- Date Issued: 2020
Hydrogeochemistry of shallow karoo basin aquifers in the border-kei region flanking the Indian Ocean, Eastern Cape, South Africa
- Authors: Jeppesen, Keegan
- Date: 2020
- Subjects: Water chemistry -- South Africa -- Eastern Cape
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/48401 , vital:40856
- Description: As the potential for shale gas exploitation becomes a real possibility across parts of the Karoo in South Africa, and groundwater is one of the systems that could become heavily stressed if the shale gas industry becomes operational, it is important therefore to gain a better understanding into the hydrogeochemical systems and processes that occur within the Karoo Basin. Groundwater systems are very complex and are heavily relied upon in many areas across the Karoo that are surface water deficient. Groundwater is used domestically, for irrigation and livestock as well as in industry. A hydrogeochemical baseline investigation was undertaken in the shallow Karoo Basin aquifers (< 100 m) of the Border-Kei region with in the Eastern Cape of South Africa, which flanks the Indian Ocean. Since it has been suggested that seawater might be used as a potential fracking fluid, it is important to also establish baseline data linked to potential seawater salinisation in the coastal aquifers. This was achieved by sampling water from both 35 production and 3 non-production boreholes (by making use of a bailer and discrete interval sampler). Water from all 38 samples was analysed for major anions and cations, trace elements as well as for δ 18O and δ 2H stable isotopes. Results indicate that the majority of the groundwater in the study area falls within acceptable limits for domestic use, and although slightly saline, is exploitable for other uses as well. It was also found that dolerite dykes that have intruded into the Karoo Basin sediments have slight effects on the groundwater chemistry, but that these effects are also masked by the water-rock interactions occurring with the aquifer. It was also determined with major ions and stable isotopes that although the coastal aquifers do have saline signatures (EC > 200 mS/m) this is not due to salinisation via seawater intrusion. It is instead postulated that the salinity arises from marine aerosols that have introduced NaCl onto the soil layer, and which then leaches into the groundwater system through precipitation or irrigation. In the event of shale gas extraction through fracking or the expansion of rural and urban centres, this project serves as a preliminary hydrogeochemical baseline before any of these processes proceed within the Karoo Basin.
- Full Text:
- Date Issued: 2020
- Authors: Jeppesen, Keegan
- Date: 2020
- Subjects: Water chemistry -- South Africa -- Eastern Cape
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/48401 , vital:40856
- Description: As the potential for shale gas exploitation becomes a real possibility across parts of the Karoo in South Africa, and groundwater is one of the systems that could become heavily stressed if the shale gas industry becomes operational, it is important therefore to gain a better understanding into the hydrogeochemical systems and processes that occur within the Karoo Basin. Groundwater systems are very complex and are heavily relied upon in many areas across the Karoo that are surface water deficient. Groundwater is used domestically, for irrigation and livestock as well as in industry. A hydrogeochemical baseline investigation was undertaken in the shallow Karoo Basin aquifers (< 100 m) of the Border-Kei region with in the Eastern Cape of South Africa, which flanks the Indian Ocean. Since it has been suggested that seawater might be used as a potential fracking fluid, it is important to also establish baseline data linked to potential seawater salinisation in the coastal aquifers. This was achieved by sampling water from both 35 production and 3 non-production boreholes (by making use of a bailer and discrete interval sampler). Water from all 38 samples was analysed for major anions and cations, trace elements as well as for δ 18O and δ 2H stable isotopes. Results indicate that the majority of the groundwater in the study area falls within acceptable limits for domestic use, and although slightly saline, is exploitable for other uses as well. It was also found that dolerite dykes that have intruded into the Karoo Basin sediments have slight effects on the groundwater chemistry, but that these effects are also masked by the water-rock interactions occurring with the aquifer. It was also determined with major ions and stable isotopes that although the coastal aquifers do have saline signatures (EC > 200 mS/m) this is not due to salinisation via seawater intrusion. It is instead postulated that the salinity arises from marine aerosols that have introduced NaCl onto the soil layer, and which then leaches into the groundwater system through precipitation or irrigation. In the event of shale gas extraction through fracking or the expansion of rural and urban centres, this project serves as a preliminary hydrogeochemical baseline before any of these processes proceed within the Karoo Basin.
- Full Text:
- Date Issued: 2020
Ichthyofaunal and isotope changes along the rivere-stuarine continuum in a fluvially dominated Southern African coastal system
- Authors: Nashima, Festus Panduleni
- Date: 2020
- Subjects: Fishes -- Ecology
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/48555 , vital:40890
- Description: Catchment to coast and the continuum concept recognize linkages and make it imperative to take an ecosystem approach to catchment management, water allocation, fisheries management and environmental management as a whole. Fishes that utilise estuarine environments are influenced by physical and chemical conditions as well as biological interactions. Community structure, drivers and trophic linkages between species of different origin, utilising the low salinity waters along the riverestuarine continuum remain poorly understood in the lower Orange River and estuary. This body of work investigated the spatio-temporal dynamics structuring fishes in the lower Orange River Estuary Continuum (OREC) within the context of River Continuum (Vannote et al., 1980). Eight years (2004 - 2018) of seasonal sampling at 18 sites comprised of multi-species catches were analysed, including three years (2016 - 2018) exploring trophic linkages between the dominant species of marine, estuarine and freshwater fishes in the system. In total, 30 species belonging to 16 families were collected in the lower OREC. The Family Mugilidae dominated all catches. Fish species composition was comprised mostly of freshwater (47%), followed by the marine (33%) and estuarine species (20%). Numerically, the marine euryhaline Chelon richardsonii and solely estuarine Gilchristella aestuaria were the dominant species in the estuary region (site 1 - 11) with 95% and 4% contribution, respectively. Chelon richardsonii also dominated all catches (67%) upstream into the river (site 12 - 18), followed by freshwater Labeobarbus aeneus (13%) and Pseudocrenilabrus philander (8%). This highlights the point that besides the marine Chelon richardsonii, other species albeit marine, estuarine and freshwater are utilising unique areas within the OREC. Temporal differentiation in fish abundance (catch-per-unit-effort, CPUE), diversity, richness and evenness were higher in the high-flow season than the low-flow season. Mean CPUE was higher at the mouth of the estuary and declined upstream into the river, whilst species diversity (including richness and evenness) increased upstream. High catches but low species diversity observed close to the mouth of the estuary were attributed to the domination of Chelon richardsonii. However, species diversity increased upstream in the river due to the dominance of freshwater fishes coupled with several marine and estuarine species. This diversity patterns were inconsistent with the general Remane and revised model for estuaries, hence a new RiverEstuarine Continuum concept suitable for OREC was developed. With the exception of Chelon richardsonii, spatial variability in the length-frequency distribution of most fishes was observed. Physico-chemical drivers provided valuable information on adaptation limits of species movement and distribution. Fishes were structured along a salinity gradient and interaction between temperature and salinity influenced community structure and diversity patterns in the OREC. Fish species utilising the lower OREC are predominantly zoobenthivores but a few detritivores/planktivores dominate numerically. Trophic inferences from stable isotope analysis showed increased carbon isotope values (δ 13C) with salinity toward the mouth of the estuary, whilst nitrogen isotope values (δ 15N) increased upstream into the river. Ontogenetic shifts in the SI ratios of all five fish species (marine Chelon richardsonii; estuarine Gilchristella aestuaria; freshwater Labeobarbus aeneus, Pseudocrenilabrus philander and Mesobola brevianalis) were observed in the OREC. Variability in seasons and salinity gradient influenced the SI ratios of several fish species. Seasonal changes influenced the δ 13C ratios of all species, except for Labeobarbus aeneus and Pseudocrenilabrus philander whereas the δ 15N ratios of all species (except for Mesobola brevianalis) differed significantly between the high-flow and low-flow season. This can be due to their feeding on specific life-history stages, such as eggs, larvae, gametophytes, sporophytes or zoospores of prey. Stable isotope ratios revealed that Mesobola brevianalis fed at a higher trophic level than Chelon richardsonii and Gilchristella aestuaria. Mesobola brevianalis feed on planktonic crustacean and insects. Chelon richardsonii feed on a wide range of prey, with prey switching between planktonic and detritivore food resources, whilst Gilchristella aestuaria feed selectively on zooplankton but switched to filter feeding modes in turbid water. Generally, δ 15N SI ratios increase with growth, however, for Labeobarbus aeneus, it was significantly higher in small size length than in large size individuals, probably because most of the juveniles assessed were caught upstream where δ 15N increases. Juveniles of Labeobarbus aeneus mainly feed on zoobenthos whilst in larger fish phytoplankton becomes increasingly important, suggesting the possibility that zoobenthos was more 15N enriched than plant materials. The trophic niches of Mesobola brevianalis were isotopically distinguishable from Chelon richardsonii and Gilchristella aestuaria during the low-flow season, revealing that these species are probably accessing carbon sources from different food chains. During high-flow season, the isotopic niche overlapped among several species, indicating that these species are probably deriving carbon sources from the same or similar food chains. Results from Layman isotope-based metrics revealed that Chelon richardsonii, Pseudocrenilabrus philander and Labeobarbus aeneus occupied the widest isotopic niche in the lower OREC, suggesting that these species are utilising food sources which may be derived from a wide variety of carbon sources. Mesobola brevianalis had the narrowest isotopic niche, however this does not imply "a narrow range of food sources’’ for the species. Overall, the potential carbon sources for selected fish species revealed that they are supported by a variety of food sources (mainly phyto-and zooplanktonic) or their food items constituted different basal sources which enable them to coexist. This study represents the first, integrated investigation of trophic relations among fishes of different origin using δ 13C and δ15N SI analyses. The current study provides a broader understanding of fish ecology within the River-Estuarine Continuum in the lower Orange River and estuary. By filling research gaps identified in the lower OREC, this synthesis of work also supports and informs management, conservation and responsible utilisation of estuarine fishery resources, in particular within the OREC.
- Full Text:
- Date Issued: 2020
- Authors: Nashima, Festus Panduleni
- Date: 2020
- Subjects: Fishes -- Ecology
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/48555 , vital:40890
- Description: Catchment to coast and the continuum concept recognize linkages and make it imperative to take an ecosystem approach to catchment management, water allocation, fisheries management and environmental management as a whole. Fishes that utilise estuarine environments are influenced by physical and chemical conditions as well as biological interactions. Community structure, drivers and trophic linkages between species of different origin, utilising the low salinity waters along the riverestuarine continuum remain poorly understood in the lower Orange River and estuary. This body of work investigated the spatio-temporal dynamics structuring fishes in the lower Orange River Estuary Continuum (OREC) within the context of River Continuum (Vannote et al., 1980). Eight years (2004 - 2018) of seasonal sampling at 18 sites comprised of multi-species catches were analysed, including three years (2016 - 2018) exploring trophic linkages between the dominant species of marine, estuarine and freshwater fishes in the system. In total, 30 species belonging to 16 families were collected in the lower OREC. The Family Mugilidae dominated all catches. Fish species composition was comprised mostly of freshwater (47%), followed by the marine (33%) and estuarine species (20%). Numerically, the marine euryhaline Chelon richardsonii and solely estuarine Gilchristella aestuaria were the dominant species in the estuary region (site 1 - 11) with 95% and 4% contribution, respectively. Chelon richardsonii also dominated all catches (67%) upstream into the river (site 12 - 18), followed by freshwater Labeobarbus aeneus (13%) and Pseudocrenilabrus philander (8%). This highlights the point that besides the marine Chelon richardsonii, other species albeit marine, estuarine and freshwater are utilising unique areas within the OREC. Temporal differentiation in fish abundance (catch-per-unit-effort, CPUE), diversity, richness and evenness were higher in the high-flow season than the low-flow season. Mean CPUE was higher at the mouth of the estuary and declined upstream into the river, whilst species diversity (including richness and evenness) increased upstream. High catches but low species diversity observed close to the mouth of the estuary were attributed to the domination of Chelon richardsonii. However, species diversity increased upstream in the river due to the dominance of freshwater fishes coupled with several marine and estuarine species. This diversity patterns were inconsistent with the general Remane and revised model for estuaries, hence a new RiverEstuarine Continuum concept suitable for OREC was developed. With the exception of Chelon richardsonii, spatial variability in the length-frequency distribution of most fishes was observed. Physico-chemical drivers provided valuable information on adaptation limits of species movement and distribution. Fishes were structured along a salinity gradient and interaction between temperature and salinity influenced community structure and diversity patterns in the OREC. Fish species utilising the lower OREC are predominantly zoobenthivores but a few detritivores/planktivores dominate numerically. Trophic inferences from stable isotope analysis showed increased carbon isotope values (δ 13C) with salinity toward the mouth of the estuary, whilst nitrogen isotope values (δ 15N) increased upstream into the river. Ontogenetic shifts in the SI ratios of all five fish species (marine Chelon richardsonii; estuarine Gilchristella aestuaria; freshwater Labeobarbus aeneus, Pseudocrenilabrus philander and Mesobola brevianalis) were observed in the OREC. Variability in seasons and salinity gradient influenced the SI ratios of several fish species. Seasonal changes influenced the δ 13C ratios of all species, except for Labeobarbus aeneus and Pseudocrenilabrus philander whereas the δ 15N ratios of all species (except for Mesobola brevianalis) differed significantly between the high-flow and low-flow season. This can be due to their feeding on specific life-history stages, such as eggs, larvae, gametophytes, sporophytes or zoospores of prey. Stable isotope ratios revealed that Mesobola brevianalis fed at a higher trophic level than Chelon richardsonii and Gilchristella aestuaria. Mesobola brevianalis feed on planktonic crustacean and insects. Chelon richardsonii feed on a wide range of prey, with prey switching between planktonic and detritivore food resources, whilst Gilchristella aestuaria feed selectively on zooplankton but switched to filter feeding modes in turbid water. Generally, δ 15N SI ratios increase with growth, however, for Labeobarbus aeneus, it was significantly higher in small size length than in large size individuals, probably because most of the juveniles assessed were caught upstream where δ 15N increases. Juveniles of Labeobarbus aeneus mainly feed on zoobenthos whilst in larger fish phytoplankton becomes increasingly important, suggesting the possibility that zoobenthos was more 15N enriched than plant materials. The trophic niches of Mesobola brevianalis were isotopically distinguishable from Chelon richardsonii and Gilchristella aestuaria during the low-flow season, revealing that these species are probably accessing carbon sources from different food chains. During high-flow season, the isotopic niche overlapped among several species, indicating that these species are probably deriving carbon sources from the same or similar food chains. Results from Layman isotope-based metrics revealed that Chelon richardsonii, Pseudocrenilabrus philander and Labeobarbus aeneus occupied the widest isotopic niche in the lower OREC, suggesting that these species are utilising food sources which may be derived from a wide variety of carbon sources. Mesobola brevianalis had the narrowest isotopic niche, however this does not imply "a narrow range of food sources’’ for the species. Overall, the potential carbon sources for selected fish species revealed that they are supported by a variety of food sources (mainly phyto-and zooplanktonic) or their food items constituted different basal sources which enable them to coexist. This study represents the first, integrated investigation of trophic relations among fishes of different origin using δ 13C and δ15N SI analyses. The current study provides a broader understanding of fish ecology within the River-Estuarine Continuum in the lower Orange River and estuary. By filling research gaps identified in the lower OREC, this synthesis of work also supports and informs management, conservation and responsible utilisation of estuarine fishery resources, in particular within the OREC.
- Full Text:
- Date Issued: 2020
Impact of fracking fluid on Karoo plants based on field and greenhouse experiments
- Authors: Liddell, Duncan Carlyle
- Date: 2020
- Subjects: Plants -- South Africa -- Little Karoo , Desert ecology -- South Africa Great Karoo (South Africa)
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/49125 , vital:41603
- Description: Fracking fluid has been indicated to be detrimental to vegetation. In forest vegetation the fracking fluid caused ground vegetation to be extensively damaged with high mortality rates and trees showing premature leaf loss following application. A study by Martin (2017) investigated these effects on Karoo vegetation in a greenhouse and found it to increase stress and reduced the growth with some life forms being identified as sensitive. The current study followed on the work of Martin testing additional species in the same greenhouse and applying different treatments of fracking fluid to Karoo vegetation in their habitat. The plants were monitored by measuring their height, photosynthetic efficiency (stress), biomass allocation and the temperature of the sites. The greenhouse plants had increased growth associated with repeated fracking fluid treatments while having variable stress levels with different treatments of the fracking fluid. The farm had mixed results being generally more stressed due to the treatments, the repeated fracking fluid treatments showed greater growth. The farm vegetation was more sensitive due to prolonged drought which is suspected to play a large role in the different response to fracking fluid between the two sites. The several hypotheses based on the finding of Martin (2017) were not supported by the data in this study. However, the application of fracking fluid did affect the tree species as they were found to be sensitive, while the other plant species was generally stressed after the applications. The greenhouse study cannot accurately represent the effects of fracking fluid on the farm vegetation, due to the large difference in the environment thus, more field studies would need to be conducted to determine the effects of fracking fluid.
- Full Text:
- Date Issued: 2020
- Authors: Liddell, Duncan Carlyle
- Date: 2020
- Subjects: Plants -- South Africa -- Little Karoo , Desert ecology -- South Africa Great Karoo (South Africa)
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/49125 , vital:41603
- Description: Fracking fluid has been indicated to be detrimental to vegetation. In forest vegetation the fracking fluid caused ground vegetation to be extensively damaged with high mortality rates and trees showing premature leaf loss following application. A study by Martin (2017) investigated these effects on Karoo vegetation in a greenhouse and found it to increase stress and reduced the growth with some life forms being identified as sensitive. The current study followed on the work of Martin testing additional species in the same greenhouse and applying different treatments of fracking fluid to Karoo vegetation in their habitat. The plants were monitored by measuring their height, photosynthetic efficiency (stress), biomass allocation and the temperature of the sites. The greenhouse plants had increased growth associated with repeated fracking fluid treatments while having variable stress levels with different treatments of the fracking fluid. The farm had mixed results being generally more stressed due to the treatments, the repeated fracking fluid treatments showed greater growth. The farm vegetation was more sensitive due to prolonged drought which is suspected to play a large role in the different response to fracking fluid between the two sites. The several hypotheses based on the finding of Martin (2017) were not supported by the data in this study. However, the application of fracking fluid did affect the tree species as they were found to be sensitive, while the other plant species was generally stressed after the applications. The greenhouse study cannot accurately represent the effects of fracking fluid on the farm vegetation, due to the large difference in the environment thus, more field studies would need to be conducted to determine the effects of fracking fluid.
- Full Text:
- Date Issued: 2020
Impacts of cattle grazing pressure on vegetation and soil characteristics in an arid grassland of South Africa
- Authors: Botha, Gert Stephanus
- Date: 2020
- Subjects: Grazing -- Environmental aspects -- South Africa , Cattle -- Feeding and feeds -- South Africa
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/${Handle} , vital:39749
- Description: Natural rangelands are often degraded due to the implementation of incorrect grazing systems. One potential solution is the use of short duration, high intensity grazing. The impacts of this grazing system on, inter alia, vegetation and soil properties have not yet been comprehensively tested within the arid rangelands of South Africa. This study aimed to determine the impacts of grazing intensity on vegetation composition, forage quantity and quality, and soil compaction, soil water infiltration rates and soil chemical properties in an arid grassland in South Africa. The following three grazing treatments were compared: no grazing (NG), low intensity grazing (LIG) and high intensity grazing (HIG). A total of 18 plots (six replicates per treatment) were grazed with Bonsmara cattle. Each plot, 4 ha in size, was surveyed pre-grazing, directly after grazing, and again three, six and 12 months post-grazing. The results indicated that different grazing intensities did not affect grass diversity and the veld condition a year after grazing. Phytomass was influenced by grazing intensity, with no grazing having the highest phytomass throughout the study period. Soil compaction differed among seasons but not among treatments, with summer surveys recording the lowest soil compaction rates. The soil water infiltration rates did not differ between the three different treatments, indicating that grazing intensity did not affect infiltration rates. However, grazing did seem to improve soil nutrient levels when compared to NG. The grazed treatments had higher NH4+, K+, and organic carbon than the NG treatment. Nevertheless, there was no significant difference in nutrients levels when comparing the LIG system to the HIG system. When comparing the soil nutrients levels within a treatment over time, only the HIG treatment showed an increase in soil nutrient levels (Mg2+) over time, whereas the LIG and NG treatments showed no changed throughout the study period. Generally, the study results indicated that in the short term there was no advantage to using higher grazing intensity, although the presence of grazing (as opposed to no grazing) is advantageous to arid grassland functioning.
- Full Text:
- Date Issued: 2020
- Authors: Botha, Gert Stephanus
- Date: 2020
- Subjects: Grazing -- Environmental aspects -- South Africa , Cattle -- Feeding and feeds -- South Africa
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/${Handle} , vital:39749
- Description: Natural rangelands are often degraded due to the implementation of incorrect grazing systems. One potential solution is the use of short duration, high intensity grazing. The impacts of this grazing system on, inter alia, vegetation and soil properties have not yet been comprehensively tested within the arid rangelands of South Africa. This study aimed to determine the impacts of grazing intensity on vegetation composition, forage quantity and quality, and soil compaction, soil water infiltration rates and soil chemical properties in an arid grassland in South Africa. The following three grazing treatments were compared: no grazing (NG), low intensity grazing (LIG) and high intensity grazing (HIG). A total of 18 plots (six replicates per treatment) were grazed with Bonsmara cattle. Each plot, 4 ha in size, was surveyed pre-grazing, directly after grazing, and again three, six and 12 months post-grazing. The results indicated that different grazing intensities did not affect grass diversity and the veld condition a year after grazing. Phytomass was influenced by grazing intensity, with no grazing having the highest phytomass throughout the study period. Soil compaction differed among seasons but not among treatments, with summer surveys recording the lowest soil compaction rates. The soil water infiltration rates did not differ between the three different treatments, indicating that grazing intensity did not affect infiltration rates. However, grazing did seem to improve soil nutrient levels when compared to NG. The grazed treatments had higher NH4+, K+, and organic carbon than the NG treatment. Nevertheless, there was no significant difference in nutrients levels when comparing the LIG system to the HIG system. When comparing the soil nutrients levels within a treatment over time, only the HIG treatment showed an increase in soil nutrient levels (Mg2+) over time, whereas the LIG and NG treatments showed no changed throughout the study period. Generally, the study results indicated that in the short term there was no advantage to using higher grazing intensity, although the presence of grazing (as opposed to no grazing) is advantageous to arid grassland functioning.
- Full Text:
- Date Issued: 2020
Investigating the fitness of sea turtles nesting in South Africa
- Le Gouvello du Timat, Diane Z M
- Authors: Le Gouvello du Timat, Diane Z M
- Date: 2020
- Subjects: Sea turtles -- South Africa
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/48445 , vital:40877
- Description: The South African rookeries of the South Western Indian Ocean (SWIO) loggerhead and leatherback regional management units have been continuously monitored for more than 5 decades, representing one of the longest-running sea turtle beach protection and monitoring programmes in the world. Although such conservation has been successful in protecting adults on land when they come to nest, it might not be enough to ensure population recovery if survival is not ensured across all life stages. Sea turtles are particularly vulnerable to direct threats and changing environmental conditions because they are long-lived, slow maturing, and have low survival rates at early life stages, making them conservation-dependent. These characteristics also render them difficult to conserve as a consequence of their wide geographic distributions, spanning multiple jurisdictions and legislative systems with different conservation targets, and a complex life cycle with changes in habitats and diets at different life stages. Sea turtle populations have been severely depleted as a result of historical over-exploitation and current threats including fisheries bycatch, direct harvest, habitat loss, pollution and pathogens, and climate change. In many cases however, population declines have been reversed by a variety of effective conservation measures such as beach protection programs, and marine protected areas, enabling successful population recovery around the world. Despite protection and apparent increase in abundance, indirect pressures can still affect turtle populations. Therefore, it is fundamental to evaluate the effectiveness of conservation measures (using fitness traits such as female and hatchling sizes) and examine underlying trends. The aim of this thesis was thus to evaluate the fitness of loggerhead and leatherback sea turtles nesting in South Africa. Long-term female size trends over time were evaluated and the populations were split between first-time nesters and experienced nesters. As sea turtle reproductive output (clutch size only) is correlated with female size and evidence is showing that in some populations individual female size is decreasing, the effects of maternal body size on reproductive output and hatchling fitness were investigated for both species. Crawling and swimming speeds were used as proxies of hatchling fitness, because these two traits positively influence their survival. An oceanic model was further used in combination with a particle tracking framework to estimate, for the first time, post-hatchling dispersal of loggerhead and leatherback turtles in the SWIO. I investigated whether the trend in female size for loggerhead turtles nesting in South Africa is a result of their foraging strategy to determine if there is a foraging dichotomy (neritic and oceanic). Despite an apparent increasing population, a significant 3.7 and 3.6 cm decrease in the size of both recruit and remingrant female loggerhead turtles, but a stable mean size of leatherbacks for both age groups was observed. I hypothesise that these contradictory effects are attributable to the very distinct foraging ecologies of the two turtle species and speculate that these variations in carapace length may be driven by environmental change. The reproductive strategy of both loggerhead and leatherback turtles nesting in South Africa supports the optimal egg size theory with larger turtles producing larger clutches but not larger eggs. Egg size was thus constant irrespective of maternal length. Hatchlings with longer carapaces and flippers had higher swimming speed, suggesting that larger hatchlings are fitter (potentially higher survival) than smaller ones by spending less time in high predation risk areas (i.e. beach and nearshore). The model revealed that dispersal trajectories of both loggerhead and leatherback sea turtle hatchlings were very similar and simulations indicated that initial active swimming (frenzy) as well as variability in oceanic conditions strongly influenced dispersal of virtual hatchlings. The trends observed in this study emphasize the importance of long-term monitoring, examining not only abundance but also individual size, to understand population dynamics, support recovery planning and prioritize future conservation practices. Furthermore, the findings of this study have important implications for overall population growth if smaller hatchlings of lower fitness are produced as a result of climate change and thus have decreased dispersal abilities and lower likelihood of survival.
- Full Text:
- Date Issued: 2020
- Authors: Le Gouvello du Timat, Diane Z M
- Date: 2020
- Subjects: Sea turtles -- South Africa
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/48445 , vital:40877
- Description: The South African rookeries of the South Western Indian Ocean (SWIO) loggerhead and leatherback regional management units have been continuously monitored for more than 5 decades, representing one of the longest-running sea turtle beach protection and monitoring programmes in the world. Although such conservation has been successful in protecting adults on land when they come to nest, it might not be enough to ensure population recovery if survival is not ensured across all life stages. Sea turtles are particularly vulnerable to direct threats and changing environmental conditions because they are long-lived, slow maturing, and have low survival rates at early life stages, making them conservation-dependent. These characteristics also render them difficult to conserve as a consequence of their wide geographic distributions, spanning multiple jurisdictions and legislative systems with different conservation targets, and a complex life cycle with changes in habitats and diets at different life stages. Sea turtle populations have been severely depleted as a result of historical over-exploitation and current threats including fisheries bycatch, direct harvest, habitat loss, pollution and pathogens, and climate change. In many cases however, population declines have been reversed by a variety of effective conservation measures such as beach protection programs, and marine protected areas, enabling successful population recovery around the world. Despite protection and apparent increase in abundance, indirect pressures can still affect turtle populations. Therefore, it is fundamental to evaluate the effectiveness of conservation measures (using fitness traits such as female and hatchling sizes) and examine underlying trends. The aim of this thesis was thus to evaluate the fitness of loggerhead and leatherback sea turtles nesting in South Africa. Long-term female size trends over time were evaluated and the populations were split between first-time nesters and experienced nesters. As sea turtle reproductive output (clutch size only) is correlated with female size and evidence is showing that in some populations individual female size is decreasing, the effects of maternal body size on reproductive output and hatchling fitness were investigated for both species. Crawling and swimming speeds were used as proxies of hatchling fitness, because these two traits positively influence their survival. An oceanic model was further used in combination with a particle tracking framework to estimate, for the first time, post-hatchling dispersal of loggerhead and leatherback turtles in the SWIO. I investigated whether the trend in female size for loggerhead turtles nesting in South Africa is a result of their foraging strategy to determine if there is a foraging dichotomy (neritic and oceanic). Despite an apparent increasing population, a significant 3.7 and 3.6 cm decrease in the size of both recruit and remingrant female loggerhead turtles, but a stable mean size of leatherbacks for both age groups was observed. I hypothesise that these contradictory effects are attributable to the very distinct foraging ecologies of the two turtle species and speculate that these variations in carapace length may be driven by environmental change. The reproductive strategy of both loggerhead and leatherback turtles nesting in South Africa supports the optimal egg size theory with larger turtles producing larger clutches but not larger eggs. Egg size was thus constant irrespective of maternal length. Hatchlings with longer carapaces and flippers had higher swimming speed, suggesting that larger hatchlings are fitter (potentially higher survival) than smaller ones by spending less time in high predation risk areas (i.e. beach and nearshore). The model revealed that dispersal trajectories of both loggerhead and leatherback sea turtle hatchlings were very similar and simulations indicated that initial active swimming (frenzy) as well as variability in oceanic conditions strongly influenced dispersal of virtual hatchlings. The trends observed in this study emphasize the importance of long-term monitoring, examining not only abundance but also individual size, to understand population dynamics, support recovery planning and prioritize future conservation practices. Furthermore, the findings of this study have important implications for overall population growth if smaller hatchlings of lower fitness are produced as a result of climate change and thus have decreased dispersal abilities and lower likelihood of survival.
- Full Text:
- Date Issued: 2020
Investigation of potential induced degradation as a performance limiting defect in photovoltaic modules
- Authors: Kwembur, Isaac Morko
- Date: 2020
- Subjects: Photovoltaic cells
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/48423 , vital:40875
- Description: Potential Induced Degradation (PID) impacts negatively on photovoltaic (PV) module durability because it significantly affects the output of PV modules and systems. Unless detected at infancy, PID progression can be catastrophic. This study involved systematic PID stressing of PV modules using a custom-built environmental chamber that can achieve suitable environmental conditions, viz., of the 35 °C ± 1 °C and relative humidity of 75 % ± 5 %. The first part of this work was to induce PID using three approaches: climate chamber testing, inducing PID using a conductive aluminium plate on the surface of the module without touching the frame and a localised PID induction on one cell in a module. The second part is to detect induced PID using Electroluminescence (EL) images taken at current corresponding to 10% Isc, EL histograms analysis and Voc ratio taken at 1000 W/m2 to 200 W/m2 . The third part is to study module regeneration after PID shunting degradation in two ways, viz., forced reverse polarization and natural recovery. The PID detection tools used in this work are well known module characterization techniques such as EL imaging, Infrared imaging, and light and dark current-voltage measurements. These characterisation tools are used in combination to detect defects such as optical losses, cracks, breakage, electric circuit degradation and PID. Under normal testing PID was detected and in some cases, modules were able to recover, while for advanced stage PID regeneration or PID reversal was difficult. This thesis focuses on PID detection at infancy using three approaches; EL imaging at current corresponding to 10% of Isc. Light and dark current – voltage measurements (L-IV & D-IV) and open circuit voltage (Voc) ratios at low irradiance. The early detection procedures are essential in reversing the degradation caused by PID which is reversible. The time taken to reverse the PID degradation will depend on the extent of the degradation. If detected early, it will take a short period of time to completely reverse lost power. Infrared thermography is a non-contact characteristic tool that can be deployed in large scale plants using drones to detect the presence of PID in PV plants. Module performance and device parameters extracted from the L-IV curves on a module before and after PID stress, such as Pmpp, Voc, Isc Fill Factor (FF), shunt resistance (Rsh) and series resistance (Rs) and ideality (n) are sensitive to PID shunting. Voc and Rsh drop significantly with the onset of PID, while Rs increases. The decrease in Voc and Rsh is due to heavy shunting on the module resulting in increased carrier recombination, while the increase in Rs is due to increased shunting paths leading to decreased photocurrent. When substantial degradation on a module occurs Pmpp, FF and n will drop and at very advanced stage of PID degradation Isc may drop excessively.
- Full Text:
- Date Issued: 2020
- Authors: Kwembur, Isaac Morko
- Date: 2020
- Subjects: Photovoltaic cells
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10948/48423 , vital:40875
- Description: Potential Induced Degradation (PID) impacts negatively on photovoltaic (PV) module durability because it significantly affects the output of PV modules and systems. Unless detected at infancy, PID progression can be catastrophic. This study involved systematic PID stressing of PV modules using a custom-built environmental chamber that can achieve suitable environmental conditions, viz., of the 35 °C ± 1 °C and relative humidity of 75 % ± 5 %. The first part of this work was to induce PID using three approaches: climate chamber testing, inducing PID using a conductive aluminium plate on the surface of the module without touching the frame and a localised PID induction on one cell in a module. The second part is to detect induced PID using Electroluminescence (EL) images taken at current corresponding to 10% Isc, EL histograms analysis and Voc ratio taken at 1000 W/m2 to 200 W/m2 . The third part is to study module regeneration after PID shunting degradation in two ways, viz., forced reverse polarization and natural recovery. The PID detection tools used in this work are well known module characterization techniques such as EL imaging, Infrared imaging, and light and dark current-voltage measurements. These characterisation tools are used in combination to detect defects such as optical losses, cracks, breakage, electric circuit degradation and PID. Under normal testing PID was detected and in some cases, modules were able to recover, while for advanced stage PID regeneration or PID reversal was difficult. This thesis focuses on PID detection at infancy using three approaches; EL imaging at current corresponding to 10% of Isc. Light and dark current – voltage measurements (L-IV & D-IV) and open circuit voltage (Voc) ratios at low irradiance. The early detection procedures are essential in reversing the degradation caused by PID which is reversible. The time taken to reverse the PID degradation will depend on the extent of the degradation. If detected early, it will take a short period of time to completely reverse lost power. Infrared thermography is a non-contact characteristic tool that can be deployed in large scale plants using drones to detect the presence of PID in PV plants. Module performance and device parameters extracted from the L-IV curves on a module before and after PID stress, such as Pmpp, Voc, Isc Fill Factor (FF), shunt resistance (Rsh) and series resistance (Rs) and ideality (n) are sensitive to PID shunting. Voc and Rsh drop significantly with the onset of PID, while Rs increases. The decrease in Voc and Rsh is due to heavy shunting on the module resulting in increased carrier recombination, while the increase in Rs is due to increased shunting paths leading to decreased photocurrent. When substantial degradation on a module occurs Pmpp, FF and n will drop and at very advanced stage of PID degradation Isc may drop excessively.
- Full Text:
- Date Issued: 2020