Post-impoundment population dynamics of non-native common carp Cyprinus Carpio in relation to two large native cyprinids in Lake Gariep, South Africa
- Authors: Winker, Henning
- Date: 2011
- Subjects: Cyprinidae -- South Africa -- Gariep Dam Carp -- South Africa -- Gariep Dam Fish populations -- South Africa -- Gariep Dam Fishes -- Physiology -- South Africa -- Gariep Dam Barbus aeneus -- South Africa -- Gariep Dam Mudfishes -- South Africa -- Gariep Dam Freshwater fishes -- South Africa -- Gariep Dam
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:5311 , http://hdl.handle.net/10962/d1005156
- Description: To contribute to the understanding of the invasion biology of common carp Cyprinus carpio in southern Africa, this thesis investigated the life history, relative abundance, long-term population demographics and trophic niche utilisations of non-native common carp C. carpio in relation to two endemic cyprinids, Orange River mudfish Labeo capensis and smallmouth yellowfish Labeobarbus aeneus in South Africa‟s largest impoundment, Lake Gariep. The growth zone deposition rates in astericus otoliths of the three species were validated as biannual for C. carpio and as annual for L. capensis and L. aeneus, which allowed for reliable estimation of lengths-at-age upon which growth, age-at-maturity and mortality rates could be estimated. Cyprinus carpio exhibited fast growth, matured relatively early at two years of age and attained a maximum age of seven years. Labeo capensis grew significantly slower, but attained older ages of up to 12 years. Females showed notably delayed maturation at approximately six years of age. The life history parameter estimates for L. aeneus were similar to those of L. capensis. These species-specific life history characteristics contributed to a substantially higher population growth potential of C. carpio compared to L. capensis and L. aeneus. Delta-lognormal and delta-gamma Generalized Linear Models (GLMs) were used to analyse patterns of relative abundance of L. capensis, L. aeneus and C. carpio. The application of these GLMs was necessary to account for large proportions of zeros and strong skewness in the catch-per-unit-effort (CPUE) from experimental gillnet and fisheries-dependent angler surveys. Confidence intervals around predicted abundance indices were obtained through the development of a generalised parametric bootstrap procedure. The resulting standardised abundance indices were coupled with results from analysis of stable isotope ratios of fish tissues and potential food resources and revealed that C. carpio was mainly confined to soft-bottom habitats, where it predominantly foraged on benthic invertebrates. Labeo capensis was abundant in a wide range of benthic habitats and was consumed basal food resources such as detritus. Labeobarbus aeneus was found to feed mostly on pelagic zooplankton. There were no significant interspecific differences in trophic niche space, suggesting limited resource competition among the three species. Standardised historical and contemporary gillnet CPUE data indicated slow population growth rates of L. capensis and L. aeneus during the first ten years postimpoundment, but showed high biomass levels some four decades after impoundment. These results could be corroborated by stochastic age-structured production model (ASPM) simulations. In contrast to the two endemic species, the gillnet CPUE of C. carpio showed a clear „boom and bust‟ pattern, which, based on ASPM simulations, could be best explained by increased food availability during the first five years postimpoundment, followed by suboptimal conditions thereafter. Together, these results provided evidence that the establishment of the C. carpio population did not prevent the slow but successful long-term establishment of the two large endemic cyprinids. Both endemic fishes revealed specialised feeding within the impoundment.
- Full Text:
- Date Issued: 2011
- Authors: Winker, Henning
- Date: 2011
- Subjects: Cyprinidae -- South Africa -- Gariep Dam Carp -- South Africa -- Gariep Dam Fish populations -- South Africa -- Gariep Dam Fishes -- Physiology -- South Africa -- Gariep Dam Barbus aeneus -- South Africa -- Gariep Dam Mudfishes -- South Africa -- Gariep Dam Freshwater fishes -- South Africa -- Gariep Dam
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:5311 , http://hdl.handle.net/10962/d1005156
- Description: To contribute to the understanding of the invasion biology of common carp Cyprinus carpio in southern Africa, this thesis investigated the life history, relative abundance, long-term population demographics and trophic niche utilisations of non-native common carp C. carpio in relation to two endemic cyprinids, Orange River mudfish Labeo capensis and smallmouth yellowfish Labeobarbus aeneus in South Africa‟s largest impoundment, Lake Gariep. The growth zone deposition rates in astericus otoliths of the three species were validated as biannual for C. carpio and as annual for L. capensis and L. aeneus, which allowed for reliable estimation of lengths-at-age upon which growth, age-at-maturity and mortality rates could be estimated. Cyprinus carpio exhibited fast growth, matured relatively early at two years of age and attained a maximum age of seven years. Labeo capensis grew significantly slower, but attained older ages of up to 12 years. Females showed notably delayed maturation at approximately six years of age. The life history parameter estimates for L. aeneus were similar to those of L. capensis. These species-specific life history characteristics contributed to a substantially higher population growth potential of C. carpio compared to L. capensis and L. aeneus. Delta-lognormal and delta-gamma Generalized Linear Models (GLMs) were used to analyse patterns of relative abundance of L. capensis, L. aeneus and C. carpio. The application of these GLMs was necessary to account for large proportions of zeros and strong skewness in the catch-per-unit-effort (CPUE) from experimental gillnet and fisheries-dependent angler surveys. Confidence intervals around predicted abundance indices were obtained through the development of a generalised parametric bootstrap procedure. The resulting standardised abundance indices were coupled with results from analysis of stable isotope ratios of fish tissues and potential food resources and revealed that C. carpio was mainly confined to soft-bottom habitats, where it predominantly foraged on benthic invertebrates. Labeo capensis was abundant in a wide range of benthic habitats and was consumed basal food resources such as detritus. Labeobarbus aeneus was found to feed mostly on pelagic zooplankton. There were no significant interspecific differences in trophic niche space, suggesting limited resource competition among the three species. Standardised historical and contemporary gillnet CPUE data indicated slow population growth rates of L. capensis and L. aeneus during the first ten years postimpoundment, but showed high biomass levels some four decades after impoundment. These results could be corroborated by stochastic age-structured production model (ASPM) simulations. In contrast to the two endemic species, the gillnet CPUE of C. carpio showed a clear „boom and bust‟ pattern, which, based on ASPM simulations, could be best explained by increased food availability during the first five years postimpoundment, followed by suboptimal conditions thereafter. Together, these results provided evidence that the establishment of the C. carpio population did not prevent the slow but successful long-term establishment of the two large endemic cyprinids. Both endemic fishes revealed specialised feeding within the impoundment.
- Full Text:
- Date Issued: 2011
Effect of alkaline pre-treatments on the synergistic enzymatic hydrolysis of sugarcane (Saccharum officinarum) bagasse by Clostridium cellulovorans XynA, ManA and ArfA
- Authors: Beukes, Natasha
- Date: 2011
- Subjects: Sugarcane -- Biotechnology Lignocellulose -- Biotechnology Renewable energy sources Hydrolysis Enzymes
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:3952 , http://hdl.handle.net/10962/d1004011
- Description: The continual increase in industrialization and global population has increased the dependency and demand on traditional fossil fuels for energy; however, there are limited amounts of fossil fuels available. The slow depletion of fossil fuels has sparked a fresh interest in renewable sources such as lignocellulose to produce a variety of biofuels, such as biogases (e.g. methane), bioethanol, biodiesel and a variety of other solvents and economically valuable by-products. Agricultural crop wastes produced in surplus are typically lignocellulosic in composition and thus partially recalcitrant to enzymatic degradation. The recalcitrant nature of plant biomass and the inability to obtain complete enzymatic hydrolysis has led to the establishment of various pre-treatment strategies. Alkaline pre-treatments increase the accessibility of the exposed surface to enzymatic hydrolysis through the removal of acetyl and uronic acid substituents on hemicellulose. Unlike the use of steam and acid pre-treatments, alkaline pre-treatments solubilize lignin and a small percentage of the hemicellulose, increasing enzyme accessibility and thus the hydrolysis of lignocellulose. The majority of Clostridium cellulovorans associated enzyme synergy studies have been devoted to an understanding of the cellulolytic and hemi-cellulolytic degradation of plant cell walls. However, little is known about the effect of various physical and chemical pre-treatments on the synergistic enzymatic degradation of plant biomass and possible depolymerization of plant cell walls. This study investigates the use of slake lime, sodium hydroxide and ammonium hydroxide to pre-treat sugarcane bagasse under mild conditions and elucidates potentially important synergistic associations between the C. cellulovorans enzymes for the enhanced degradation of lignocellulose. The primary aims of the study were addressed using of a variety of techniques. This included suitable vector constructs for the expression and purification of recombinant C. cellulovorans enzymes, identification of the effects of various pre-treatments on enzyme synergy, and identification of the resultant reducing sugars and phenolic compounds (released during the pre-treatment of the bagasse). This study also made use of physical and chemical pre-treatment methods, protein purification using affinity, high performance liquid and thin layer chromatography, mass spectrometry, sodium dodecyl sulphate and fluorophore-assisted polyacrylamide gel electrophoresis (FACE) , enzymatic degradation and synergy studies with various substrates indirectly using the 3, 4-dinitrosalicylic acid (DNS) reducing sugar assay. From this investigation, the following conclusions were made: alkaline pre-treatment successfully solublised, redistributed and removed lignin from the bagasse, increasing the digestibility of the substrates. In summary, the most effective pre-treatment employed 0.114 M ammonium hydroxide / gram bagasse at 70°C for 36 hours, followed by hydrolysis with an enzyme cocktail containing 25% ManA and 75% XynA. This increased the production of sugars approximately 13-fold. Analysis of the sugars produced by the synergistic hydrolysis of sugarcane bagasse (SCB) indicated the presence of xylose, indicating that the enzymes are potentially bifunctional under certain conditions. This study indicated that the use of mild pre-treatment conditions sufficiently removed a large portion of lignin without affecting the hemicellulose moiety of the SCB. This facilitated the potential use of the hemicellulose component for the production of valuable products (e.g. xylitol) in addition to the production of bioethanol. Thus, the potential use of additional components of holocellulose may generate an additional biotechnological benefit and allow a certain degree of flexibility in the biofuel industry, depending on consumer and industrial needs.
- Full Text:
- Date Issued: 2011
- Authors: Beukes, Natasha
- Date: 2011
- Subjects: Sugarcane -- Biotechnology Lignocellulose -- Biotechnology Renewable energy sources Hydrolysis Enzymes
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:3952 , http://hdl.handle.net/10962/d1004011
- Description: The continual increase in industrialization and global population has increased the dependency and demand on traditional fossil fuels for energy; however, there are limited amounts of fossil fuels available. The slow depletion of fossil fuels has sparked a fresh interest in renewable sources such as lignocellulose to produce a variety of biofuels, such as biogases (e.g. methane), bioethanol, biodiesel and a variety of other solvents and economically valuable by-products. Agricultural crop wastes produced in surplus are typically lignocellulosic in composition and thus partially recalcitrant to enzymatic degradation. The recalcitrant nature of plant biomass and the inability to obtain complete enzymatic hydrolysis has led to the establishment of various pre-treatment strategies. Alkaline pre-treatments increase the accessibility of the exposed surface to enzymatic hydrolysis through the removal of acetyl and uronic acid substituents on hemicellulose. Unlike the use of steam and acid pre-treatments, alkaline pre-treatments solubilize lignin and a small percentage of the hemicellulose, increasing enzyme accessibility and thus the hydrolysis of lignocellulose. The majority of Clostridium cellulovorans associated enzyme synergy studies have been devoted to an understanding of the cellulolytic and hemi-cellulolytic degradation of plant cell walls. However, little is known about the effect of various physical and chemical pre-treatments on the synergistic enzymatic degradation of plant biomass and possible depolymerization of plant cell walls. This study investigates the use of slake lime, sodium hydroxide and ammonium hydroxide to pre-treat sugarcane bagasse under mild conditions and elucidates potentially important synergistic associations between the C. cellulovorans enzymes for the enhanced degradation of lignocellulose. The primary aims of the study were addressed using of a variety of techniques. This included suitable vector constructs for the expression and purification of recombinant C. cellulovorans enzymes, identification of the effects of various pre-treatments on enzyme synergy, and identification of the resultant reducing sugars and phenolic compounds (released during the pre-treatment of the bagasse). This study also made use of physical and chemical pre-treatment methods, protein purification using affinity, high performance liquid and thin layer chromatography, mass spectrometry, sodium dodecyl sulphate and fluorophore-assisted polyacrylamide gel electrophoresis (FACE) , enzymatic degradation and synergy studies with various substrates indirectly using the 3, 4-dinitrosalicylic acid (DNS) reducing sugar assay. From this investigation, the following conclusions were made: alkaline pre-treatment successfully solublised, redistributed and removed lignin from the bagasse, increasing the digestibility of the substrates. In summary, the most effective pre-treatment employed 0.114 M ammonium hydroxide / gram bagasse at 70°C for 36 hours, followed by hydrolysis with an enzyme cocktail containing 25% ManA and 75% XynA. This increased the production of sugars approximately 13-fold. Analysis of the sugars produced by the synergistic hydrolysis of sugarcane bagasse (SCB) indicated the presence of xylose, indicating that the enzymes are potentially bifunctional under certain conditions. This study indicated that the use of mild pre-treatment conditions sufficiently removed a large portion of lignin without affecting the hemicellulose moiety of the SCB. This facilitated the potential use of the hemicellulose component for the production of valuable products (e.g. xylitol) in addition to the production of bioethanol. Thus, the potential use of additional components of holocellulose may generate an additional biotechnological benefit and allow a certain degree of flexibility in the biofuel industry, depending on consumer and industrial needs.
- Full Text:
- Date Issued: 2011
The discoursal construction of female physical identity in selected works in children's literature
- Authors: Hunt, Sally Ann
- Date: 2011 , 2013-09-20
- Subjects: Rowling, J K -- Criticism and interpretation Lewis, C S (Clive Staples), 1898-1963 -- Criticism and interpretation Girls in literature Girls -- Identity Human body in literature Gender identity in literature Sex role in literature Children's stories, English -- History and criticism Young women in literature Women in literature
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:2377 , http://hdl.handle.net/10962/d1005965
- Description: This thesis reports on an analysis of the discursive construction of female and male physical identity in children’s literature and explicitly combines corpus linguistic methods with a critical discourse approach. Based on three novels from each of the Chronicles of Narnia and the Harry Potter series, it shows clear gendering of body parts, not only in terms of the purely quantitative preferences for certain body parts to be associated with one or other gender, but in terms of discourse prosody, or the uses to which the body parts are put. Human body parts in these series are mostly used in the following four ways, all of which show differences in realisation in terms of gender: · to describe individuals, physically, in order to distinguish one from the other; · to convey emotion, unintentionally as well as consciously; · for physical interaction between people and · for interaction with the world more broadly: responses to danger and agency, i.e. the ability to act on the world and the nature of what is achieved. The use of body parts by characters to express emotion and act agentively on the world is revealed to be strongly gendered in the two series. I characterise the most prominent patterns in terms of the bodily products blood, sweat and tears, of which the last is strongly connected to female characters, who are generally associated with emotion. The other two, referring to active participation in fighting and injury, as well as agency, are almost exclusively reserved for males, with female characters rendered unable to act on the physical world as a result of overwhelming feelings. The females’ response to danger suggests stereotyped discourses of inequality which see women and girls as requiring protection and being physically incapable. Thus gender is still a particularly salient aspect in these widely-read examples of children’s literature, despite plots which appear to be fairly positive towards women. The strength of the inclusion of a corpus approach in this study lies in its capacity to reveal objective, and often fairly covert, trends in language use. These in turn enrich the critical analysis of discourses in these influential texts, which facilitates social change through linguistic analysis.
- Full Text:
- Date Issued: 2011
- Authors: Hunt, Sally Ann
- Date: 2011 , 2013-09-20
- Subjects: Rowling, J K -- Criticism and interpretation Lewis, C S (Clive Staples), 1898-1963 -- Criticism and interpretation Girls in literature Girls -- Identity Human body in literature Gender identity in literature Sex role in literature Children's stories, English -- History and criticism Young women in literature Women in literature
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:2377 , http://hdl.handle.net/10962/d1005965
- Description: This thesis reports on an analysis of the discursive construction of female and male physical identity in children’s literature and explicitly combines corpus linguistic methods with a critical discourse approach. Based on three novels from each of the Chronicles of Narnia and the Harry Potter series, it shows clear gendering of body parts, not only in terms of the purely quantitative preferences for certain body parts to be associated with one or other gender, but in terms of discourse prosody, or the uses to which the body parts are put. Human body parts in these series are mostly used in the following four ways, all of which show differences in realisation in terms of gender: · to describe individuals, physically, in order to distinguish one from the other; · to convey emotion, unintentionally as well as consciously; · for physical interaction between people and · for interaction with the world more broadly: responses to danger and agency, i.e. the ability to act on the world and the nature of what is achieved. The use of body parts by characters to express emotion and act agentively on the world is revealed to be strongly gendered in the two series. I characterise the most prominent patterns in terms of the bodily products blood, sweat and tears, of which the last is strongly connected to female characters, who are generally associated with emotion. The other two, referring to active participation in fighting and injury, as well as agency, are almost exclusively reserved for males, with female characters rendered unable to act on the physical world as a result of overwhelming feelings. The females’ response to danger suggests stereotyped discourses of inequality which see women and girls as requiring protection and being physically incapable. Thus gender is still a particularly salient aspect in these widely-read examples of children’s literature, despite plots which appear to be fairly positive towards women. The strength of the inclusion of a corpus approach in this study lies in its capacity to reveal objective, and often fairly covert, trends in language use. These in turn enrich the critical analysis of discourses in these influential texts, which facilitates social change through linguistic analysis.
- Full Text:
- Date Issued: 2011
"On se Débrouille": Congolese migrants' search for survival and success in Muizenberg, Cape Town
- Authors: Owen, Joy N
- Date: 2011
- Subjects: Foreign workers, Congolese -- Social aspects -- South Africa -- Muizenberg Social capital (Sociology) Immigrants -- Social networks -- South Africa -- Muizenberg South Africa -- Emigration and immigration -- Social aspects
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:2094 , http://hdl.handle.net/10962/d1002657
- Description: Situated in a Congolese transnational 'community' in Muizenberg, a suburb of Cape Town, South Africa, the thesis focuses on the lives of three middle class Congolese male informants. Their contingent acquaintance with a South African white Christian man gave them access to valuable social capital; social capital that positioned them advantageously to date and eventually marry European white women and thereby further their culturally-defmed economic/material career goals. To demonstrate the socio-economic trajectory of the three, I compare their social positioning with other Congolese men and women resident in Muizenberg. I show how these men and women, like my three main informants, activate their Congolese 'habitus' to secure access to social networks and the social capital therein. The difference between these Congolese men and women and my three main informants, however, is their strategic use of contingency, and the instrumental capitalisation of their cultural capital through the creation of a client-patron relationship with a South African in order to further their life goals. The thesis reorientates the migration literature on African migration from a focus on the implications of migrant remittances to the home country, to a focus on individual migrants' agency in the host country and the cultural influence of the society of origin. While I acknowledge that my research participants are part of a transnational social field, the focus on one locality and the relatively longitudinal approach of the study grounds the analysis both in the day-to-day lives of these migrants and in their migrant careers in and beyond Muizenberg and South Africa. With this orientation, the thesis is able to reveal that some Congolese migrants are comfortable to create a holding place for themselves in South Africa, while others - ever aware of the Congolese ambition to travel overseas - migrate beyond South African borders. For these Congolese migrants, South Africa is then a transit space. Fundamentally, all of my research participants give expression to Mobutu's edict of on se debrouille (literally, 'one fends for oneself), but some are more able to achieve the ultimate aspiration of settling in the First World -lola.
- Full Text:
- Date Issued: 2011
- Authors: Owen, Joy N
- Date: 2011
- Subjects: Foreign workers, Congolese -- Social aspects -- South Africa -- Muizenberg Social capital (Sociology) Immigrants -- Social networks -- South Africa -- Muizenberg South Africa -- Emigration and immigration -- Social aspects
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:2094 , http://hdl.handle.net/10962/d1002657
- Description: Situated in a Congolese transnational 'community' in Muizenberg, a suburb of Cape Town, South Africa, the thesis focuses on the lives of three middle class Congolese male informants. Their contingent acquaintance with a South African white Christian man gave them access to valuable social capital; social capital that positioned them advantageously to date and eventually marry European white women and thereby further their culturally-defmed economic/material career goals. To demonstrate the socio-economic trajectory of the three, I compare their social positioning with other Congolese men and women resident in Muizenberg. I show how these men and women, like my three main informants, activate their Congolese 'habitus' to secure access to social networks and the social capital therein. The difference between these Congolese men and women and my three main informants, however, is their strategic use of contingency, and the instrumental capitalisation of their cultural capital through the creation of a client-patron relationship with a South African in order to further their life goals. The thesis reorientates the migration literature on African migration from a focus on the implications of migrant remittances to the home country, to a focus on individual migrants' agency in the host country and the cultural influence of the society of origin. While I acknowledge that my research participants are part of a transnational social field, the focus on one locality and the relatively longitudinal approach of the study grounds the analysis both in the day-to-day lives of these migrants and in their migrant careers in and beyond Muizenberg and South Africa. With this orientation, the thesis is able to reveal that some Congolese migrants are comfortable to create a holding place for themselves in South Africa, while others - ever aware of the Congolese ambition to travel overseas - migrate beyond South African borders. For these Congolese migrants, South Africa is then a transit space. Fundamentally, all of my research participants give expression to Mobutu's edict of on se debrouille (literally, 'one fends for oneself), but some are more able to achieve the ultimate aspiration of settling in the First World -lola.
- Full Text:
- Date Issued: 2011
Modelling the relationship between flow and water quality in South African rivers
- Authors: Slaughter, Andrew Robert
- Date: 2011
- Subjects: Water quality -- Measurement -- South Africa Water quality -- Mathematical models -- South Africa Streamflow -- South Africa Stream measurements -- Mathematical models -- South Africa
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:6039 , http://hdl.handle.net/10962/d1006196
- Description: The National Water Act (Act 36 of 1998) provides for an ecological Reserve as the quantity (flow) and quality of water needed to protect aquatic ecosystems. While there are methods available to quantify the ecological Reserve in terms of flow, methods of linking flow to water quality are lacking. Therefore, the research presented in this thesis investigated various modelling techniques to estimate the effect of flow on water quality. The aims of the research presented in this thesis were: Aim 1: Can the relationship between flow and water quality be accurately represented by simple statistical models? Aim 2: Can relatively simple models accurately represent the relationship between flow and water quality? Aim 3: Can the effect of diffuse sources be omitted from a water quality model and still obtain realistic simulations, and if so under what conditions? Aim 4: Can models that solely use historical monitoring data, accurately represent the relationships between flow and water quality? In Chapter 3, simple Q-C regressions of flow and water quality were investigated using Department of Water Affairs (DWA) historical monitoring data. It was found that while flow versus salinity regressions gave good regression fits in many cases, the Q-C regression approach is limited. A mechanistic/statistical model that attempted to estimate the point and diffuse signatures of nutrients in response to flow was developed in Chapter 4 using DWA historical monitoring data. The model was verified as accurate in certain case studies using observed point loading information. In Chapter 5, statistical models that link land cover information to diffuse nutrient signatures in response to flow using DWA historical data were developed. While the model estimations are uncertain due to a lack of data, they do provide an estimation of the diffuse signature within catchments where there is flow and land cover information available. Chapter 6 investigates the extension of an existing mass-balance salinity model to estimate the effect of saline irrigation return flow on in-stream salinity. The model gave accurate salinity estimates for a low order stream with little or no irrigation within its catchment, and for a permanently flowing river within a catchment used extensively for irrigation. Chapter 7 investigated a modelling method to estimate the reaction coefficients involved in nitrification using only DWA historical monitoring data. Here, the model used flow information to estimate the residence time of nutrients within the studied river reaches. While the model obtained good estimations of nitrification for the data it was applied to, very few DWA data sets were suitable for the model. Chapter 8 investigated the ability of the in-stream model QUAL2K to estimate nutrient concentrations downstream of point and diffuse inputs of nutrients. It was found that the QUAL2K model can give accurate results in cases where point sources dominate the total nutrient inputs into a river. However, the QUAL2K simulations are too uncertain in cases where there are large diffuse source inputs of nutrients as the load of the diffuse inputs is difficult to measure in the field. This research highlights the problem of data scarcity in terms of temporal resolution as well as the range of constituents measured within DWA historical monitoring data for water quality. This thesis in addition argues that the approach of applying a number of models is preferable to applying one model to investigate the research aims, as particular models would be suited to particular circumstances, and the development of new models allowed the research aims of this thesis to be explored more thoroughly. It is also argued that simpler models that simulate a few key processes that explain the variation in observed data, are more suitable for implementing Integrated Water Resource Management (IWRM) than large comprehensive water quality models. From this research, it is clear that simple statistical models are not adequate for modelling the relationship between flow and water quality, however, relatively simple mechanistic models that simulate a limited number of processes and water quality variables, can provide accurate representations of this relationship. Under conditions where diffuse sources are not a major factor within a catchment, models that omit diffuse sources can obtain realistic simulations of the relationship between flow and water quality. Most of the models investigated in this thesis demonstrate that accurate simulations of the relationships between flow and water quality can be obtained using solely historical monitoring data.
- Full Text:
- Date Issued: 2011
- Authors: Slaughter, Andrew Robert
- Date: 2011
- Subjects: Water quality -- Measurement -- South Africa Water quality -- Mathematical models -- South Africa Streamflow -- South Africa Stream measurements -- Mathematical models -- South Africa
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:6039 , http://hdl.handle.net/10962/d1006196
- Description: The National Water Act (Act 36 of 1998) provides for an ecological Reserve as the quantity (flow) and quality of water needed to protect aquatic ecosystems. While there are methods available to quantify the ecological Reserve in terms of flow, methods of linking flow to water quality are lacking. Therefore, the research presented in this thesis investigated various modelling techniques to estimate the effect of flow on water quality. The aims of the research presented in this thesis were: Aim 1: Can the relationship between flow and water quality be accurately represented by simple statistical models? Aim 2: Can relatively simple models accurately represent the relationship between flow and water quality? Aim 3: Can the effect of diffuse sources be omitted from a water quality model and still obtain realistic simulations, and if so under what conditions? Aim 4: Can models that solely use historical monitoring data, accurately represent the relationships between flow and water quality? In Chapter 3, simple Q-C regressions of flow and water quality were investigated using Department of Water Affairs (DWA) historical monitoring data. It was found that while flow versus salinity regressions gave good regression fits in many cases, the Q-C regression approach is limited. A mechanistic/statistical model that attempted to estimate the point and diffuse signatures of nutrients in response to flow was developed in Chapter 4 using DWA historical monitoring data. The model was verified as accurate in certain case studies using observed point loading information. In Chapter 5, statistical models that link land cover information to diffuse nutrient signatures in response to flow using DWA historical data were developed. While the model estimations are uncertain due to a lack of data, they do provide an estimation of the diffuse signature within catchments where there is flow and land cover information available. Chapter 6 investigates the extension of an existing mass-balance salinity model to estimate the effect of saline irrigation return flow on in-stream salinity. The model gave accurate salinity estimates for a low order stream with little or no irrigation within its catchment, and for a permanently flowing river within a catchment used extensively for irrigation. Chapter 7 investigated a modelling method to estimate the reaction coefficients involved in nitrification using only DWA historical monitoring data. Here, the model used flow information to estimate the residence time of nutrients within the studied river reaches. While the model obtained good estimations of nitrification for the data it was applied to, very few DWA data sets were suitable for the model. Chapter 8 investigated the ability of the in-stream model QUAL2K to estimate nutrient concentrations downstream of point and diffuse inputs of nutrients. It was found that the QUAL2K model can give accurate results in cases where point sources dominate the total nutrient inputs into a river. However, the QUAL2K simulations are too uncertain in cases where there are large diffuse source inputs of nutrients as the load of the diffuse inputs is difficult to measure in the field. This research highlights the problem of data scarcity in terms of temporal resolution as well as the range of constituents measured within DWA historical monitoring data for water quality. This thesis in addition argues that the approach of applying a number of models is preferable to applying one model to investigate the research aims, as particular models would be suited to particular circumstances, and the development of new models allowed the research aims of this thesis to be explored more thoroughly. It is also argued that simpler models that simulate a few key processes that explain the variation in observed data, are more suitable for implementing Integrated Water Resource Management (IWRM) than large comprehensive water quality models. From this research, it is clear that simple statistical models are not adequate for modelling the relationship between flow and water quality, however, relatively simple mechanistic models that simulate a limited number of processes and water quality variables, can provide accurate representations of this relationship. Under conditions where diffuse sources are not a major factor within a catchment, models that omit diffuse sources can obtain realistic simulations of the relationship between flow and water quality. Most of the models investigated in this thesis demonstrate that accurate simulations of the relationships between flow and water quality can be obtained using solely historical monitoring data.
- Full Text:
- Date Issued: 2011
Biological control of Pereskia aculeata Miller (Cactaceae)
- Authors: Paterson, Iain Douglas
- Date: 2011
- Subjects: Pereskia -- Biological control -- South Africa Cactus -- Biological control -- South Africa Invasive plants -- Biological control -- South Africa Curculionidae -- South Africa Pyralidae -- South Africa Insects as biological pest control agents -- South Africa
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:5825 , http://hdl.handle.net/10962/d1007653
- Description: Pereskia aculeata Miller (Cactaceae) is an environmental weed that is damaging to natural ecosystems in South Africa. The plant is native to Central and South America and was first recorded in South Africa in a botanical garden in 1858. In this thesis, research into the biological control of P. aculeata was conducted with the intention of improving the control of the weed. A pre-release study of the relationship between P. aculeata density and native plant biodiversity indicated that P. aculeata has a negative impact on native biodiversity. The native plant biodiversity associated with different P. aculeata densities was used to determine threshold values and goals for the control of the weed. A threshold value of 50% P. aculeata density was calculated, indicating that P. aculeata density must be maintained below 50% in order to conserve native plant biodiversity. The ultimate goal of the control programme should be to maintain P. aculeata densities below 30%. At these densities there was no significant difference in native plant biodiversity from if the weed were absent from the ecosystem. The biological control agent, Phenrica guérini Bechyne (Chrysomelidae), has been released in South Africa but the potential of the agent to impact P. aculeata is not known and no post release evaluation has been conducted. Impact assessment studies indicate that P. guérini does not impact P. aculeata, even at high densities, but the results of greenhouse experiments should be interpreted with caution because of problems with extrapolation into the field. Although observations in the field suggest that P. guérini has reduced P. aculeata densities at one site, it is clear that new biological control agents are needed to reduce the weed to acceptable levels. Identifying the origin of the South African P. aculeata population was believed to be important to the biological control programme due to the disjunct native distribution and intraspecific variation of the species. Natural enemies associated with plant genotypes in different parts of the native distribution may have developed specialised relationships with certain intraspecific variants of the plant, resulting in differences in agent efficacy on certain host plant genotypes. A molecular study indicated that the closest relatives to the South African weed population found in the native distribution were in Rio de Janeiro Province, Brazil. A bioassay experiment in which fitness related traits of the biological control agent, P. guérini, were measured on various P. aculeata genotypes was conducted to determine the importance of host plant intraspecific variation. There was little variation in fitness traits between genotypes and no evidence of intraspecific host plant specialization. Although intraspecific variation had no effect on agent efficacy in the case of P. guérini, it is possible that other natural enemies may be more specialized. Genotype matching is expected to be more important when natural enemies likely to be specialised to individual genotypes are considered for biological control. Potential biological control agents were prioritized from data collected on surveys in the native distribution. The most promising of these, based on the presence of feeding, incidence, predicted host range, climatic matching, genotype matching and mode of damage, are two species of Curculionidae, the current biological control agent P. guérini and the stem boring moth, Maracayia chiorisalis Walker (Crambidae). The two curculionid species and M. chlorisalis should be considered priorities for host specificity studies. Releases of P. guérini and any new biological control agents should be made at sites where the pre-release study was conducted so that post-release evaluation data can be compared with the pre-release data and the impact of biological control can be evaluated. Retrospective analyses of biological control programmes provide important ways of improving aspects of biological control programmes, such as methods of agent selection. The evaluation of success in biological control programmes is essential for retrospective analyses because factors that have lead to successes or failures can be analysed. Retrospective analyses of biological control programmes, such as this thesis, may improve weed management, thereby contributing to the conservation of natural resources.
- Full Text:
- Date Issued: 2011
- Authors: Paterson, Iain Douglas
- Date: 2011
- Subjects: Pereskia -- Biological control -- South Africa Cactus -- Biological control -- South Africa Invasive plants -- Biological control -- South Africa Curculionidae -- South Africa Pyralidae -- South Africa Insects as biological pest control agents -- South Africa
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:5825 , http://hdl.handle.net/10962/d1007653
- Description: Pereskia aculeata Miller (Cactaceae) is an environmental weed that is damaging to natural ecosystems in South Africa. The plant is native to Central and South America and was first recorded in South Africa in a botanical garden in 1858. In this thesis, research into the biological control of P. aculeata was conducted with the intention of improving the control of the weed. A pre-release study of the relationship between P. aculeata density and native plant biodiversity indicated that P. aculeata has a negative impact on native biodiversity. The native plant biodiversity associated with different P. aculeata densities was used to determine threshold values and goals for the control of the weed. A threshold value of 50% P. aculeata density was calculated, indicating that P. aculeata density must be maintained below 50% in order to conserve native plant biodiversity. The ultimate goal of the control programme should be to maintain P. aculeata densities below 30%. At these densities there was no significant difference in native plant biodiversity from if the weed were absent from the ecosystem. The biological control agent, Phenrica guérini Bechyne (Chrysomelidae), has been released in South Africa but the potential of the agent to impact P. aculeata is not known and no post release evaluation has been conducted. Impact assessment studies indicate that P. guérini does not impact P. aculeata, even at high densities, but the results of greenhouse experiments should be interpreted with caution because of problems with extrapolation into the field. Although observations in the field suggest that P. guérini has reduced P. aculeata densities at one site, it is clear that new biological control agents are needed to reduce the weed to acceptable levels. Identifying the origin of the South African P. aculeata population was believed to be important to the biological control programme due to the disjunct native distribution and intraspecific variation of the species. Natural enemies associated with plant genotypes in different parts of the native distribution may have developed specialised relationships with certain intraspecific variants of the plant, resulting in differences in agent efficacy on certain host plant genotypes. A molecular study indicated that the closest relatives to the South African weed population found in the native distribution were in Rio de Janeiro Province, Brazil. A bioassay experiment in which fitness related traits of the biological control agent, P. guérini, were measured on various P. aculeata genotypes was conducted to determine the importance of host plant intraspecific variation. There was little variation in fitness traits between genotypes and no evidence of intraspecific host plant specialization. Although intraspecific variation had no effect on agent efficacy in the case of P. guérini, it is possible that other natural enemies may be more specialized. Genotype matching is expected to be more important when natural enemies likely to be specialised to individual genotypes are considered for biological control. Potential biological control agents were prioritized from data collected on surveys in the native distribution. The most promising of these, based on the presence of feeding, incidence, predicted host range, climatic matching, genotype matching and mode of damage, are two species of Curculionidae, the current biological control agent P. guérini and the stem boring moth, Maracayia chiorisalis Walker (Crambidae). The two curculionid species and M. chlorisalis should be considered priorities for host specificity studies. Releases of P. guérini and any new biological control agents should be made at sites where the pre-release study was conducted so that post-release evaluation data can be compared with the pre-release data and the impact of biological control can be evaluated. Retrospective analyses of biological control programmes provide important ways of improving aspects of biological control programmes, such as methods of agent selection. The evaluation of success in biological control programmes is essential for retrospective analyses because factors that have lead to successes or failures can be analysed. Retrospective analyses of biological control programmes, such as this thesis, may improve weed management, thereby contributing to the conservation of natural resources.
- Full Text:
- Date Issued: 2011
Pressurized hot water extraction of nutraceuticals and organic pollutants from medicinal plants
- Authors: Mokgadi, Janes
- Date: 2011
- Subjects: Functional foods Medicinal plants -- Biotechnology Extraction (Chemistry) Goldenseal Botanical pesticides Sorbents Organic solvents
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4338 , http://hdl.handle.net/10962/d1004999
- Description: This thesis explores the robustness and the versatility of pressurized hot water extraction (PHWE) for a variety of analytes and matrices. Applications discussed include: selective extraction of alkaloids in goldenseal followed by their degradation studies; in-cell clean-up of pesticides in medicinal plants employing custom made molecularly imprinted polymers (MIPs) sorbents; in-cell pre-concentration followed by desorption of aflatoxins in plants with MIPs; desorption of pesticides from electrospun nanofiber sorbents; and removal of templates from MIPs sorbents. It was demonstrated that selective extractions could be achieved by just changing the temperature of water while adjusting the pressure. For instance, the alkaloids in goldenseal (hydrastine and berberine), were extracted at 140 °C, 50 bars, 1 mL min⁻¹ in 15 min; organochlorine pesticides from medicinal plants were extracted at 260 °C, 80 bars, 1 mL min-1 in 10 min; while aflatoxins AFG2, AFG1, AFB2 and AFB1 were extracted at 180 °C, 60 bars and a flow rate of 0.5 mL min⁻¹ in 10 min. The selectivity of PHWE was further enhanced by combining it with selective MIPs sorbents at higher temperatutes. In-cell clean-up of interfering chlorophyll was successfully removed from the medicinal plants during pesticides analysis while clean-up of aflatoxins AFG2, AFG1, AFB2 and AFB1 was achieved in two extraction cells connected in series. Ultrasound was also combined with PHWE for extraction of hydrastine and berberine at 80 °C and 40 bars in 30 min. PHWE was further evaluated for removal of templates from quercetin, phthalocynine and chlorophyll MIPs. The templates were thoroughly washed off their MIPs within 70 min with PHWE compared to over 8 h for Soxhlet and ultrasound assisted extraction. Pesticides were also desorbed from electrospun nanofibers at 260 °C, 80 bars in 10 min employing only water at 0.5 mL min⁻¹. In the light of green chemistry, the decrease in the usage of organic solvents was 100%, resulting in no organic solvent waste.
- Full Text:
- Date Issued: 2011
- Authors: Mokgadi, Janes
- Date: 2011
- Subjects: Functional foods Medicinal plants -- Biotechnology Extraction (Chemistry) Goldenseal Botanical pesticides Sorbents Organic solvents
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4338 , http://hdl.handle.net/10962/d1004999
- Description: This thesis explores the robustness and the versatility of pressurized hot water extraction (PHWE) for a variety of analytes and matrices. Applications discussed include: selective extraction of alkaloids in goldenseal followed by their degradation studies; in-cell clean-up of pesticides in medicinal plants employing custom made molecularly imprinted polymers (MIPs) sorbents; in-cell pre-concentration followed by desorption of aflatoxins in plants with MIPs; desorption of pesticides from electrospun nanofiber sorbents; and removal of templates from MIPs sorbents. It was demonstrated that selective extractions could be achieved by just changing the temperature of water while adjusting the pressure. For instance, the alkaloids in goldenseal (hydrastine and berberine), were extracted at 140 °C, 50 bars, 1 mL min⁻¹ in 15 min; organochlorine pesticides from medicinal plants were extracted at 260 °C, 80 bars, 1 mL min-1 in 10 min; while aflatoxins AFG2, AFG1, AFB2 and AFB1 were extracted at 180 °C, 60 bars and a flow rate of 0.5 mL min⁻¹ in 10 min. The selectivity of PHWE was further enhanced by combining it with selective MIPs sorbents at higher temperatutes. In-cell clean-up of interfering chlorophyll was successfully removed from the medicinal plants during pesticides analysis while clean-up of aflatoxins AFG2, AFG1, AFB2 and AFB1 was achieved in two extraction cells connected in series. Ultrasound was also combined with PHWE for extraction of hydrastine and berberine at 80 °C and 40 bars in 30 min. PHWE was further evaluated for removal of templates from quercetin, phthalocynine and chlorophyll MIPs. The templates were thoroughly washed off their MIPs within 70 min with PHWE compared to over 8 h for Soxhlet and ultrasound assisted extraction. Pesticides were also desorbed from electrospun nanofibers at 260 °C, 80 bars in 10 min employing only water at 0.5 mL min⁻¹. In the light of green chemistry, the decrease in the usage of organic solvents was 100%, resulting in no organic solvent waste.
- Full Text:
- Date Issued: 2011
A framework for the application of network telescope sensors in a global IP network
- Authors: Irwin, Barry Vivian William
- Date: 2011
- Subjects: Sensor networks Computer networks TCP/IP (Computer network protocol) Internet Computer security Computers -- Access control Computer networks -- Security measures Computer viruses Malware (Computer software)
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4593 , http://hdl.handle.net/10962/d1004835
- Description: The use of Network Telescope systems has become increasingly popular amongst security researchers in recent years. This study provides a framework for the utilisation of this data. The research is based on a primary dataset of 40 million events spanning 50 months collected using a small (/24) passive network telescope located in African IP space. This research presents a number of differing ways in which the data can be analysed ranging from low level protocol based analysis to higher level analysis at the geopolitical and network topology level. Anomalous traffic and illustrative anecdotes are explored in detail and highlighted. A discussion relating to bogon traffic observed is also presented. Two novel visualisation tools are presented, which were developed to aid in the analysis of large network telescope datasets. The first is a three-dimensional visualisation tool which allows for live, near-realtime analysis, and the second is a two-dimensional fractal based plotting scheme which allows for plots of the entire IPv4 address space to be produced, and manipulated. Using the techniques and tools developed for the analysis of this dataset, a detailed analysis of traffic recorded as destined for port 445/tcp is presented. This includes the evaluation of traffic surrounding the outbreak of the Conficker worm in November 2008. A number of metrics relating to the description and quantification of network telescope configuration and the resultant traffic captures are described, the use of which it is hoped will facilitate greater and easier collaboration among researchers utilising this network security technology. The research concludes with suggestions relating to other applications of the data and intelligence that can be extracted from network telescopes, and their use as part of an organisation’s integrated network security systems
- Full Text:
- Date Issued: 2011
- Authors: Irwin, Barry Vivian William
- Date: 2011
- Subjects: Sensor networks Computer networks TCP/IP (Computer network protocol) Internet Computer security Computers -- Access control Computer networks -- Security measures Computer viruses Malware (Computer software)
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4593 , http://hdl.handle.net/10962/d1004835
- Description: The use of Network Telescope systems has become increasingly popular amongst security researchers in recent years. This study provides a framework for the utilisation of this data. The research is based on a primary dataset of 40 million events spanning 50 months collected using a small (/24) passive network telescope located in African IP space. This research presents a number of differing ways in which the data can be analysed ranging from low level protocol based analysis to higher level analysis at the geopolitical and network topology level. Anomalous traffic and illustrative anecdotes are explored in detail and highlighted. A discussion relating to bogon traffic observed is also presented. Two novel visualisation tools are presented, which were developed to aid in the analysis of large network telescope datasets. The first is a three-dimensional visualisation tool which allows for live, near-realtime analysis, and the second is a two-dimensional fractal based plotting scheme which allows for plots of the entire IPv4 address space to be produced, and manipulated. Using the techniques and tools developed for the analysis of this dataset, a detailed analysis of traffic recorded as destined for port 445/tcp is presented. This includes the evaluation of traffic surrounding the outbreak of the Conficker worm in November 2008. A number of metrics relating to the description and quantification of network telescope configuration and the resultant traffic captures are described, the use of which it is hoped will facilitate greater and easier collaboration among researchers utilising this network security technology. The research concludes with suggestions relating to other applications of the data and intelligence that can be extracted from network telescopes, and their use as part of an organisation’s integrated network security systems
- Full Text:
- Date Issued: 2011
The role of small antelope in ecosystem functioning in the Matobo Hills, Zimbabwe
- Authors: Lunt, Nicola
- Date: 2011
- Subjects: Antelopes -- Zimbabwe -- Rhodes Matopos National Park Ecosystem health -- Zimbabwe -- Rhodes Matopos National Park Forest ecology -- Zimbabwe -- Rhodes Matopos National Park Savanna ecology -- Zimbabwe -- Rhodes Matopos National Park Woody plants -- Effect of fires on -- Zimbabwe -- Rhodes Matopos National Park Duikers -- Zimbabwe -- Rhodes Matopos National Park Bushbuck -- Zimbabwe -- Rhodes Matopos National Park Greater kudu -- Zimbabwe -- Rhodes Matopos National Park
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:5760 , http://hdl.handle.net/10962/d1005448
- Description: The 28-month study assessed the impacts of five syntopic medium-sized mammalian browsers and one fire event in a woodland savanna in the Matobo Hills, Zimbabwe. Aspects of herbivory, mechanical pressures, seed dispersal and nutrient cycling were investigated for three species of small antelope (common duiker [Sylvicapra grimmia]1, klipspringer [Oreotragus oreotragus] and steenbok [Raphicerus campestris]) and two medium-sized species (bushbuck [Tragelaphus scriptus] and greater kudu [T. strepsiceros]). Focusing on Burkea africana2 woodland, in a system that does not include elephant (Loxodonta africana), effects of browsing antelope on woody and herbaceous vegetation development were investigated using exclusion plots. Browsers regulated woody plant cover (measured as basal stem area), with smaller antelope having a greater impact than larger species. This was linked to feeding height, feeding selectivity and mechanical pressures (e.g. twig breakage and trampling). Fire caused an initial reduction in above-ground standing biomass, but in the presence of fauna, pre-fire equilibria were attained within 15 months. In antelope exclosures, herbaceous biomass increased and woody biomass decreased following fire. Responses by woody vegetation to browsing varied among species, with highly palatable species typically exhibiting compensatory regrowth. Woody species richness and abundance (especially of palatable species) increased in the absence of browsers, but species richness of the herbaceous layer was promoted by moderate disturbance (trampling or fire). Faecal deposition behaviour, primarily the use of latrines by small antelope, resulted in localised soil enrichment within defended territories. Decomposition rates (and therefore return of nutrients to the soil) varied among species and seasons, due to defecation site selection, accessibility to decomposers and desiccation rates of faecal pellets. Controlled seed germination experiments indicated that ingestion by small antelope enhances germination rates of large, hard-seeded fruits such as Sclerocarya birrea. However, germination of savanna seeds may require multiple cues. This study demonstrated the critical roles of small antelope in ecosystem functioning, and highlights the importance of the less visible impacts of frequently overlooked smaller mammalian herbivores. Perturbations to the faunal community, especially small antelope, are predicted to have substantial impacts on woody plant cover.
- Full Text:
- Date Issued: 2011
- Authors: Lunt, Nicola
- Date: 2011
- Subjects: Antelopes -- Zimbabwe -- Rhodes Matopos National Park Ecosystem health -- Zimbabwe -- Rhodes Matopos National Park Forest ecology -- Zimbabwe -- Rhodes Matopos National Park Savanna ecology -- Zimbabwe -- Rhodes Matopos National Park Woody plants -- Effect of fires on -- Zimbabwe -- Rhodes Matopos National Park Duikers -- Zimbabwe -- Rhodes Matopos National Park Bushbuck -- Zimbabwe -- Rhodes Matopos National Park Greater kudu -- Zimbabwe -- Rhodes Matopos National Park
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:5760 , http://hdl.handle.net/10962/d1005448
- Description: The 28-month study assessed the impacts of five syntopic medium-sized mammalian browsers and one fire event in a woodland savanna in the Matobo Hills, Zimbabwe. Aspects of herbivory, mechanical pressures, seed dispersal and nutrient cycling were investigated for three species of small antelope (common duiker [Sylvicapra grimmia]1, klipspringer [Oreotragus oreotragus] and steenbok [Raphicerus campestris]) and two medium-sized species (bushbuck [Tragelaphus scriptus] and greater kudu [T. strepsiceros]). Focusing on Burkea africana2 woodland, in a system that does not include elephant (Loxodonta africana), effects of browsing antelope on woody and herbaceous vegetation development were investigated using exclusion plots. Browsers regulated woody plant cover (measured as basal stem area), with smaller antelope having a greater impact than larger species. This was linked to feeding height, feeding selectivity and mechanical pressures (e.g. twig breakage and trampling). Fire caused an initial reduction in above-ground standing biomass, but in the presence of fauna, pre-fire equilibria were attained within 15 months. In antelope exclosures, herbaceous biomass increased and woody biomass decreased following fire. Responses by woody vegetation to browsing varied among species, with highly palatable species typically exhibiting compensatory regrowth. Woody species richness and abundance (especially of palatable species) increased in the absence of browsers, but species richness of the herbaceous layer was promoted by moderate disturbance (trampling or fire). Faecal deposition behaviour, primarily the use of latrines by small antelope, resulted in localised soil enrichment within defended territories. Decomposition rates (and therefore return of nutrients to the soil) varied among species and seasons, due to defecation site selection, accessibility to decomposers and desiccation rates of faecal pellets. Controlled seed germination experiments indicated that ingestion by small antelope enhances germination rates of large, hard-seeded fruits such as Sclerocarya birrea. However, germination of savanna seeds may require multiple cues. This study demonstrated the critical roles of small antelope in ecosystem functioning, and highlights the importance of the less visible impacts of frequently overlooked smaller mammalian herbivores. Perturbations to the faunal community, especially small antelope, are predicted to have substantial impacts on woody plant cover.
- Full Text:
- Date Issued: 2011
Characterization and electrocatalytic applications of metallophthalocyanine-single walled carbon nanotube conjugates
- Authors: Mugadza, Tawanda
- Date: 2011 , 2011-03-30
- Subjects: Phthalocyanines Pesticides Nanotubes Electrocatalysis Electrochemistry Transmission electron microscopy
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4419 , http://hdl.handle.net/10962/d1006855
- Description: Metallophthalocyanine-single walled carbon nanotube conjugates were successfully synthesized and applied in the electrochemical characterizations of pesticides (amitrole and diuron) and 2-mercaptoethanol (2-ME). The formation of conjugates was confirmed through the use of the following analytical techniques: UV-vis, FTIR, Raman and XRD spectroscopies, atomic force and transmission electron microscopies and voltammetry. Chemically linking SWCNT to MPcs created platforms that offered efficient transfer of electrons and this was confirmed through electrochemical impedance studies (EIS) and voltammetry as shown by lower ΔEp values observed in conjugates. Carboxy carrying MPcs have very poor electron transfer kinetics (both tetrasubstituted and low symmetry), but the presence of SWCNTs activates their catalysis. All electrochemical studies were done at pH 4. Cyclic voltammetry, rotating disk linear sweep voltammetry, chronoamperometry and EIS were used in the electrochemical characterization of 2-ME and the pesticides on poly-Ni(OH)TAPc and MPc-SWCNT modified glassy carbon electrodes (GCEs). High Tafel slopes were observed for the pesticides relative to 2-ME, an indication of the passivating nature of their oxidation products. However, conjugates showed very high resistances to passivation and were easily regenerated by shaking in methanol. Improved catalysis of the conjugates is also indicated by the high catalytic rate constants for the analytes, observed on these electrodes. Conjugates of low symmetry MPcs with SWCNTs gave the highest catalytic rate constants, confirming better catalysis on these electrode surfaces. The nature of SWCNT functionalization also affected catalysis, with amine functionalized SWCNTs inducing better catalytic properties into the MPcs than carboxylic acid terminated CNTs. The presence of amine functionalized SWCNTs activates the catalysis of non-catalytic carboxy-carrying MPcs and this is more pronounced in conjugates of tetrasubstituted MPcs relative to those of low symmetry Pcs. Ethylene amine (EA) functionalized SWCNTs reduced redox overpotentials of the MPcs more than the phenyl-amine (PA) functionalized counterparts. Poly-NiTAPc was successfully converted to poly-Ni(OH)TAPc through cyclisation in pH 4 buffer and showed very good catalytic properties towards diuron, relative to the former.
- Full Text:
- Date Issued: 2011
- Authors: Mugadza, Tawanda
- Date: 2011 , 2011-03-30
- Subjects: Phthalocyanines Pesticides Nanotubes Electrocatalysis Electrochemistry Transmission electron microscopy
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4419 , http://hdl.handle.net/10962/d1006855
- Description: Metallophthalocyanine-single walled carbon nanotube conjugates were successfully synthesized and applied in the electrochemical characterizations of pesticides (amitrole and diuron) and 2-mercaptoethanol (2-ME). The formation of conjugates was confirmed through the use of the following analytical techniques: UV-vis, FTIR, Raman and XRD spectroscopies, atomic force and transmission electron microscopies and voltammetry. Chemically linking SWCNT to MPcs created platforms that offered efficient transfer of electrons and this was confirmed through electrochemical impedance studies (EIS) and voltammetry as shown by lower ΔEp values observed in conjugates. Carboxy carrying MPcs have very poor electron transfer kinetics (both tetrasubstituted and low symmetry), but the presence of SWCNTs activates their catalysis. All electrochemical studies were done at pH 4. Cyclic voltammetry, rotating disk linear sweep voltammetry, chronoamperometry and EIS were used in the electrochemical characterization of 2-ME and the pesticides on poly-Ni(OH)TAPc and MPc-SWCNT modified glassy carbon electrodes (GCEs). High Tafel slopes were observed for the pesticides relative to 2-ME, an indication of the passivating nature of their oxidation products. However, conjugates showed very high resistances to passivation and were easily regenerated by shaking in methanol. Improved catalysis of the conjugates is also indicated by the high catalytic rate constants for the analytes, observed on these electrodes. Conjugates of low symmetry MPcs with SWCNTs gave the highest catalytic rate constants, confirming better catalysis on these electrode surfaces. The nature of SWCNT functionalization also affected catalysis, with amine functionalized SWCNTs inducing better catalytic properties into the MPcs than carboxylic acid terminated CNTs. The presence of amine functionalized SWCNTs activates the catalysis of non-catalytic carboxy-carrying MPcs and this is more pronounced in conjugates of tetrasubstituted MPcs relative to those of low symmetry Pcs. Ethylene amine (EA) functionalized SWCNTs reduced redox overpotentials of the MPcs more than the phenyl-amine (PA) functionalized counterparts. Poly-NiTAPc was successfully converted to poly-Ni(OH)TAPc through cyclisation in pH 4 buffer and showed very good catalytic properties towards diuron, relative to the former.
- Full Text:
- Date Issued: 2011
Synthesis of novel inhibitors of 1-Deoxy-D-xylulose-5-phosphate reductoisomerase as potential anti-malarial lead compounds
- Authors: Mutorwa, Marius Kudumo
- Date: 2011
- Subjects: Antimalarials -- Development Plasmodium falciparum Malaria -- Chemotherapy Drug development Lead compounds Phosphonates Phosphonic acids Ligands
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4372 , http://hdl.handle.net/10962/d1005037
- Description: This research has focused on the development of novel substrate mimics as potential DXR inhibitors of 1-deoxy-D-xylulose-5-phosphate reductoisomerase (DXR), an essential enzyme in the mevalonate-independent pathway for the biosynthesis of isoprenoids in Plasmodium falciparum. DXR mediates the isomerisation and reduction of 1-deoxy-D-xylulose-5-phosphate (DOXP) into 2C-methyl-D-erithrytol 4-phosphate (MEP) and has been validated as an attractive target for the development of novel anti-malarial chemotherapeutic agents. Reaction of various amines with specially prepared 4-phosphonated crotonic acid in the presence of the peptide coupling reagent, 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide (EDC), has afforded a series of amido-phosphonate esters in moderate to good yields (48% - 73%) which, using a RuCl₃/CeCl₃/NaIO₄ catalyst system, have been dihydroxylated to furnish the dihydroxy-amido phosphonate ester pro-drugs; subsequent hydrolysis under microwave irradiation has afforded the corresponding phosphonic acids. A second series of potential inhibitors viz., 3-substituted aniline-derived phosphonate esters, their corresponding phosphonic acids and mono-sodium salts, have also been successfully synthesised. In these compounds, the essential functional groups are separated by one, two, three or four methylene groups, Deprotonation of the 3-substituted aniline substrates, followed by reaction with the appropriate ω-chloroalkanoyl chloride produced the ω-chloroamide intermediates, which were subjected to the Michaelis-Arbuzov reaction to afford the diethyl phosphonate esters in moderate to good yields (48% - 74%). Microwave-assisted TMSBrmediated cleavage of the phosphonate esters furnished the phosphonic acids, neutralisation of which afforded the mono-sodium salts. Furan-derived phosphate esters and phosphonic acids have been prepared as conformationally-restricted DOXP analogues. Functionalization at C-5 of the trityl-protected furan was achieved using the Vilsmeier-Haack formylation and Friedel-Crafts acylation reactions and, following de-tritylation, phosphorylation and oximation, using hydroxylamine hydrochloride, the novel oxime derivatives have been isolated as a third series of potential DXR inhibitors in very good yields (87% - 96%). Finally, in order to exploit an additional binding pocket in the PƒDXR active site, a series of N-benzylated phosphoramidic derivatives were obtained in seven steps from the starting material, diethyl phosphoramidate. The known inhibitors, fosmidomycin and its acetyl derivative FR900098, were also successfully synthesised as standards for STD-NMR binding and inhibition assays. In all, over 200 compounds (136 novel) have been prepared and appropriately characterised using 1-and 2-D NMR and IR spectroscopic analysis and, where necessary, HRMS or combustion analysis. Saturation Transfer Difference (STD) protein-NMR experiments, undertaken using selected compounds, have revealed binding of most of the ligands examined to EcDXR. Computersimulated docking studies have also been used to explore the preferred ligand-binding conformations and interactions between the ligands and essential DXR active-site residues, while DXR-enzyme inhibition assays of selected synthesised ligands have revealed certain patterns of inhibitory activity.
- Full Text:
- Date Issued: 2011
- Authors: Mutorwa, Marius Kudumo
- Date: 2011
- Subjects: Antimalarials -- Development Plasmodium falciparum Malaria -- Chemotherapy Drug development Lead compounds Phosphonates Phosphonic acids Ligands
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4372 , http://hdl.handle.net/10962/d1005037
- Description: This research has focused on the development of novel substrate mimics as potential DXR inhibitors of 1-deoxy-D-xylulose-5-phosphate reductoisomerase (DXR), an essential enzyme in the mevalonate-independent pathway for the biosynthesis of isoprenoids in Plasmodium falciparum. DXR mediates the isomerisation and reduction of 1-deoxy-D-xylulose-5-phosphate (DOXP) into 2C-methyl-D-erithrytol 4-phosphate (MEP) and has been validated as an attractive target for the development of novel anti-malarial chemotherapeutic agents. Reaction of various amines with specially prepared 4-phosphonated crotonic acid in the presence of the peptide coupling reagent, 1-ethyl-3-(3-dimethylaminopropyl)carbodiimide (EDC), has afforded a series of amido-phosphonate esters in moderate to good yields (48% - 73%) which, using a RuCl₃/CeCl₃/NaIO₄ catalyst system, have been dihydroxylated to furnish the dihydroxy-amido phosphonate ester pro-drugs; subsequent hydrolysis under microwave irradiation has afforded the corresponding phosphonic acids. A second series of potential inhibitors viz., 3-substituted aniline-derived phosphonate esters, their corresponding phosphonic acids and mono-sodium salts, have also been successfully synthesised. In these compounds, the essential functional groups are separated by one, two, three or four methylene groups, Deprotonation of the 3-substituted aniline substrates, followed by reaction with the appropriate ω-chloroalkanoyl chloride produced the ω-chloroamide intermediates, which were subjected to the Michaelis-Arbuzov reaction to afford the diethyl phosphonate esters in moderate to good yields (48% - 74%). Microwave-assisted TMSBrmediated cleavage of the phosphonate esters furnished the phosphonic acids, neutralisation of which afforded the mono-sodium salts. Furan-derived phosphate esters and phosphonic acids have been prepared as conformationally-restricted DOXP analogues. Functionalization at C-5 of the trityl-protected furan was achieved using the Vilsmeier-Haack formylation and Friedel-Crafts acylation reactions and, following de-tritylation, phosphorylation and oximation, using hydroxylamine hydrochloride, the novel oxime derivatives have been isolated as a third series of potential DXR inhibitors in very good yields (87% - 96%). Finally, in order to exploit an additional binding pocket in the PƒDXR active site, a series of N-benzylated phosphoramidic derivatives were obtained in seven steps from the starting material, diethyl phosphoramidate. The known inhibitors, fosmidomycin and its acetyl derivative FR900098, were also successfully synthesised as standards for STD-NMR binding and inhibition assays. In all, over 200 compounds (136 novel) have been prepared and appropriately characterised using 1-and 2-D NMR and IR spectroscopic analysis and, where necessary, HRMS or combustion analysis. Saturation Transfer Difference (STD) protein-NMR experiments, undertaken using selected compounds, have revealed binding of most of the ligands examined to EcDXR. Computersimulated docking studies have also been used to explore the preferred ligand-binding conformations and interactions between the ligands and essential DXR active-site residues, while DXR-enzyme inhibition assays of selected synthesised ligands have revealed certain patterns of inhibitory activity.
- Full Text:
- Date Issued: 2011
Fundamental investigations into the factors affecting the response of laccase-based electrochemical biosensors
- Authors: Fogel, Ronen
- Date: 2011
- Subjects: Laccase Phenols Biosensors
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4073 , http://hdl.handle.net/10962/d1007166
- Description: Given their widespread effects and distribution in both natural and industrial environments, the monitoring of phenolic compounds is of considerable analytical interest. Electrochemical biosensor technologies, in particular those comprising laccase enzymes, afford many potential benefits to address this analytical need. However, several key factors affecting sensor response currently limit their applicability. This Thesis reports on the fabrication and optimisation of an electrochemical laccase-based biosensor towards the application of the monitoring of phenolic compounds. Selected factors considered to affect sensor response were investigated using the optimised biosensor. These included: electrochemical, biochemical and substrate-dependent factors, which were found to intersect in modulating biosensor response signals. Through the application of transducer-dependent and substrate-dependent parameters, the selective and simultaneous detection of a mixture of different phenolic analytes is successfully demonstrated. This Thesis also investigates the use of Quartz-Crystal Microbalance with Dissipation (QCM-D) technology, an analytical technique that measures physical parameters of thin-film structures, towards the successful monitoring of enzyme immobilisation strategies. These strategies are fundamental to the successful fabrication of biosensors, and the real-time monitoring of immobilised film formations is of considerable research interest. In the studies reported on in this Thesis, QCM-D technology was demonstrated to be an effective complementary technology in the prediction of film immobilisation techniques on the resultant biochemical kinetics of immobilised enzymes.
- Full Text:
- Date Issued: 2011
- Authors: Fogel, Ronen
- Date: 2011
- Subjects: Laccase Phenols Biosensors
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4073 , http://hdl.handle.net/10962/d1007166
- Description: Given their widespread effects and distribution in both natural and industrial environments, the monitoring of phenolic compounds is of considerable analytical interest. Electrochemical biosensor technologies, in particular those comprising laccase enzymes, afford many potential benefits to address this analytical need. However, several key factors affecting sensor response currently limit their applicability. This Thesis reports on the fabrication and optimisation of an electrochemical laccase-based biosensor towards the application of the monitoring of phenolic compounds. Selected factors considered to affect sensor response were investigated using the optimised biosensor. These included: electrochemical, biochemical and substrate-dependent factors, which were found to intersect in modulating biosensor response signals. Through the application of transducer-dependent and substrate-dependent parameters, the selective and simultaneous detection of a mixture of different phenolic analytes is successfully demonstrated. This Thesis also investigates the use of Quartz-Crystal Microbalance with Dissipation (QCM-D) technology, an analytical technique that measures physical parameters of thin-film structures, towards the successful monitoring of enzyme immobilisation strategies. These strategies are fundamental to the successful fabrication of biosensors, and the real-time monitoring of immobilised film formations is of considerable research interest. In the studies reported on in this Thesis, QCM-D technology was demonstrated to be an effective complementary technology in the prediction of film immobilisation techniques on the resultant biochemical kinetics of immobilised enzymes.
- Full Text:
- Date Issued: 2011
The role of the mite Orthogalumna terebrantis in the biological control programme for water hyacinth, Eichhornia crassipes, in South Africa
- Authors: Marlin, Danica
- Date: 2011
- Subjects: Water hyacinth -- Biological control -- South Africa Aquatic weeds -- South Africa Invasive plants -- South Africa Mites -- South Africa Mites as biological pest control agents -- South Africa Biological pest control agents -- South Africa
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:5762 , http://hdl.handle.net/10962/d1005450
- Description: Water hyacinth (Eichhornia crassipes) is an aquatic macrophyte originating from the Amazon basin. Due to its beautiful appearance it has been introduced into numerous countries across the world as an ornamental pond plant. It was introduced into South Africa in the early 1900s and has since reached pest proportions in many of the country’s fresh water bodies, causing significant economic and ecological losses. It is now considered to be the worst aquatic weed in South Africa. Efforts to control the spread of the weed began in the early 1970s and there have been some successes. Biological control has been used widely as an alternative to mechanical and chemical controls because it is cost-effective, self-sustaining and environmentally friendly. To date, six biological control agents have been introduced onto water hyacinth in South Africa. However, due to factors such as cold winter temperatures and interference from chemical control, the agent populations are occasionally knocked-down and thus the impact of biological control on the weed population is variable. In addition, many South African water systems are highly eutrophic, and in these systems the plant growth may be accelerated to such an extent that the negative impact of the agents’ herbivory is mitigated. One of the agents established on the weed is the galumnid mite Orthogalumna terebrantis, which originates from Uruguay. In South Africa, the mite was initially discovered on two water hyacinth infestations in the Mpumalanga Province in 1989 and it is now established at 17 sites across the country. Many biological control researchers believe that the mite is a good biological control agent but, prior to this thesis, little quantitative data existed to confirm the belief. Thus, this thesis is a post-release evaluation of O. terebrantis in which various aspects of the mite-plant relationship were investigated to determine the efficacy of the mite and thus better understand the role of the mite in the biological control programme of water hyacinth in South Africa. From laboratory experiments, in which mite densities were lower than densities occurring in the field, it was found that water hyacinth growth is largely unaffected by mite herbivory, except possibly at very high mite densities. When grown in high nutrient conditions the growth of the plant is so great that any affect the mite has is nullified. Plant growth is thus more affected by nutrients than by mite herbivory. However, mite feeding was also influenced by water nutrient levels and mite herbivory was greatest on plants grown in high nutrient conditions. The presence of the mite had a positive effect on the performance of the mirid Eccritotarsus catarinensis, such that the interactions of the two agents together had a greater negative impact on the plant’s growth than the individual agents had alone. Furthermore, water hyacinth physiological parameters, such as the plant’s photosynthetic ability, were negatively impacted by the mite, even at the very low mite densities used in the study. Plant growth rate is dependent on photosynthetic ability i.e. the rate of photosynthesis, and thus a decrease in the plant’s photosynthetic ability will eventually be translated into decreased plant growth rates which would ultimately result in the overall reduction of water hyacinth populations. In addition, temperature tolerance studies showed that the mite was tolerant of low temperatures. The mite already occurs at some of the coldest sites in South Africa. Therefore, the mite should be able to establish at all of the water hyacinth infestations in the country, but because it is a poor disperser it is unlikely to establish at new sites without human intervention. It is suggested that the mite be used as an additional biological control agent at sites where it does not yet occur, specifically at cold sites where some of the other, less cold-tolerant, agents have failed to establish. Finally, conditions of where, how many and how often the mite should be distributed to water hyacinth infestation in South Africa are discussed.
- Full Text:
- Date Issued: 2011
- Authors: Marlin, Danica
- Date: 2011
- Subjects: Water hyacinth -- Biological control -- South Africa Aquatic weeds -- South Africa Invasive plants -- South Africa Mites -- South Africa Mites as biological pest control agents -- South Africa Biological pest control agents -- South Africa
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:5762 , http://hdl.handle.net/10962/d1005450
- Description: Water hyacinth (Eichhornia crassipes) is an aquatic macrophyte originating from the Amazon basin. Due to its beautiful appearance it has been introduced into numerous countries across the world as an ornamental pond plant. It was introduced into South Africa in the early 1900s and has since reached pest proportions in many of the country’s fresh water bodies, causing significant economic and ecological losses. It is now considered to be the worst aquatic weed in South Africa. Efforts to control the spread of the weed began in the early 1970s and there have been some successes. Biological control has been used widely as an alternative to mechanical and chemical controls because it is cost-effective, self-sustaining and environmentally friendly. To date, six biological control agents have been introduced onto water hyacinth in South Africa. However, due to factors such as cold winter temperatures and interference from chemical control, the agent populations are occasionally knocked-down and thus the impact of biological control on the weed population is variable. In addition, many South African water systems are highly eutrophic, and in these systems the plant growth may be accelerated to such an extent that the negative impact of the agents’ herbivory is mitigated. One of the agents established on the weed is the galumnid mite Orthogalumna terebrantis, which originates from Uruguay. In South Africa, the mite was initially discovered on two water hyacinth infestations in the Mpumalanga Province in 1989 and it is now established at 17 sites across the country. Many biological control researchers believe that the mite is a good biological control agent but, prior to this thesis, little quantitative data existed to confirm the belief. Thus, this thesis is a post-release evaluation of O. terebrantis in which various aspects of the mite-plant relationship were investigated to determine the efficacy of the mite and thus better understand the role of the mite in the biological control programme of water hyacinth in South Africa. From laboratory experiments, in which mite densities were lower than densities occurring in the field, it was found that water hyacinth growth is largely unaffected by mite herbivory, except possibly at very high mite densities. When grown in high nutrient conditions the growth of the plant is so great that any affect the mite has is nullified. Plant growth is thus more affected by nutrients than by mite herbivory. However, mite feeding was also influenced by water nutrient levels and mite herbivory was greatest on plants grown in high nutrient conditions. The presence of the mite had a positive effect on the performance of the mirid Eccritotarsus catarinensis, such that the interactions of the two agents together had a greater negative impact on the plant’s growth than the individual agents had alone. Furthermore, water hyacinth physiological parameters, such as the plant’s photosynthetic ability, were negatively impacted by the mite, even at the very low mite densities used in the study. Plant growth rate is dependent on photosynthetic ability i.e. the rate of photosynthesis, and thus a decrease in the plant’s photosynthetic ability will eventually be translated into decreased plant growth rates which would ultimately result in the overall reduction of water hyacinth populations. In addition, temperature tolerance studies showed that the mite was tolerant of low temperatures. The mite already occurs at some of the coldest sites in South Africa. Therefore, the mite should be able to establish at all of the water hyacinth infestations in the country, but because it is a poor disperser it is unlikely to establish at new sites without human intervention. It is suggested that the mite be used as an additional biological control agent at sites where it does not yet occur, specifically at cold sites where some of the other, less cold-tolerant, agents have failed to establish. Finally, conditions of where, how many and how often the mite should be distributed to water hyacinth infestation in South Africa are discussed.
- Full Text:
- Date Issued: 2011
An investigation into Grade R teachers' experiences of implementing numeracy in Grade R
- Authors: Barnard, Elna
- Date: 2011
- Subjects: Teachers -- South Africa -- Attitudes Numeracy -- Study and teaching (Elementary) -- South Africa Teachers -- Training of -- South Africa Mathematics teachers -- In-service training -- South Africa Early childhood education -- South Africa -- History Early childhood education -- South Africa -- Political aspects
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:1855 , http://hdl.handle.net/10962/d1004529
- Description: This research study investigates how selected Grade R teachers implement numeracy in their classrooms, based on their experiences, personal beliefs and perceptions. This study adopts the view that a teacher's practice is not only informed on what she believes about her learners, but also on how she organises her classroom environment and her own teaching practice. However, the teacher cannot be divorced from the political and historical background of Early Childhood Development (ECD), as these factors have an impact on her numeracy implementation. Integrated in this research study is thus not only a comprehensive historical analysis of the historical and political background of ECD, but also an in-depth look at the complex curriculum road the Grade R teacher had to travel over the past twelve years. The aim of this case study is to understand and describe what is happening in Grade R classrooms when numeracy is implemented, as well as identifying possible barriers which Grade R teachers may experience in implementing numeracy. The author utilized an adapted Interactive Qualitative Analysis Framework to explore Grade R teachers' views and experiences. Open-ended focus group interviews were used to develop a framework for individual interviews. This interview framework guided the data collection of nine audio-video tapes of classroom activities and nine semi-structured individual interviews. Analysis of the individual interviews revealed each teacher's understanding as well as her perceptions and needs regarding the implementation of numeracy in her classroom. The transcriptions of the individual interviews were compared to the audio-video tapes of what happened in each classroom. This was done in order to determine whether the teachers' practices were consistent with what they said in the interviews. Paradoxes and inconsistencies were documented. The historical and political analysis of ECD illustrates the complex development of ECD in South Africa over the last few decades. It therefore also highlights and brings to the fore the complex journey that Grade R teachers had to navigate in adapting their practice to ever changing curriculum requirements. The empirical results show that there are inconsistencies between what selected teachers know and believe, and what they are implementing. However, "silent themes" which did not come to the fore in the focus group or individual interviews, were identified in the audiovideo tapes of classroom activities. Also, many "silent themes" indicate that there are numerous concerns, such as lack of proficiency in bridging the gap between theory and practice, regarding the implementation of numeracy in Grade R. It was found that many of the selected Grade R teachers struggle to implement numeracy in their classrooms, as they lack the skills and support to teach numeracy in a Grade R context.
- Full Text:
- Date Issued: 2011
- Authors: Barnard, Elna
- Date: 2011
- Subjects: Teachers -- South Africa -- Attitudes Numeracy -- Study and teaching (Elementary) -- South Africa Teachers -- Training of -- South Africa Mathematics teachers -- In-service training -- South Africa Early childhood education -- South Africa -- History Early childhood education -- South Africa -- Political aspects
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:1855 , http://hdl.handle.net/10962/d1004529
- Description: This research study investigates how selected Grade R teachers implement numeracy in their classrooms, based on their experiences, personal beliefs and perceptions. This study adopts the view that a teacher's practice is not only informed on what she believes about her learners, but also on how she organises her classroom environment and her own teaching practice. However, the teacher cannot be divorced from the political and historical background of Early Childhood Development (ECD), as these factors have an impact on her numeracy implementation. Integrated in this research study is thus not only a comprehensive historical analysis of the historical and political background of ECD, but also an in-depth look at the complex curriculum road the Grade R teacher had to travel over the past twelve years. The aim of this case study is to understand and describe what is happening in Grade R classrooms when numeracy is implemented, as well as identifying possible barriers which Grade R teachers may experience in implementing numeracy. The author utilized an adapted Interactive Qualitative Analysis Framework to explore Grade R teachers' views and experiences. Open-ended focus group interviews were used to develop a framework for individual interviews. This interview framework guided the data collection of nine audio-video tapes of classroom activities and nine semi-structured individual interviews. Analysis of the individual interviews revealed each teacher's understanding as well as her perceptions and needs regarding the implementation of numeracy in her classroom. The transcriptions of the individual interviews were compared to the audio-video tapes of what happened in each classroom. This was done in order to determine whether the teachers' practices were consistent with what they said in the interviews. Paradoxes and inconsistencies were documented. The historical and political analysis of ECD illustrates the complex development of ECD in South Africa over the last few decades. It therefore also highlights and brings to the fore the complex journey that Grade R teachers had to navigate in adapting their practice to ever changing curriculum requirements. The empirical results show that there are inconsistencies between what selected teachers know and believe, and what they are implementing. However, "silent themes" which did not come to the fore in the focus group or individual interviews, were identified in the audiovideo tapes of classroom activities. Also, many "silent themes" indicate that there are numerous concerns, such as lack of proficiency in bridging the gap between theory and practice, regarding the implementation of numeracy in Grade R. It was found that many of the selected Grade R teachers struggle to implement numeracy in their classrooms, as they lack the skills and support to teach numeracy in a Grade R context.
- Full Text:
- Date Issued: 2011
Effect of nanoparticles on the photophysicochemical behaviour of metallophthalocyanines
- Moeno, Sharon Keitumetse Gail Mpheletso
- Authors: Moeno, Sharon Keitumetse Gail Mpheletso
- Date: 2011 , 2011-03-30
- Subjects: Phthalocyanines Nanoparticles Photochemistry Quantum dots
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4310 , http://hdl.handle.net/10962/d1004968
- Description: The synthesis, spectroscopic characterization, and studies of the photophysicochemical behaviour of selective anionic, cationic and neutral metallophthallocyanine (MPc) complexes were carried out and the results are presented herein. Studies on the effect of the central metal ion, the solvent used and the presence of nanoparticles on the photophysicochemical properties were conducted. The findings showed that the photophysicochemical parameters were mostly enhanced in the presence of central metal ions of high atomic numbers and also in the presence of nanoparticles. It was also observed that solvents that encouraged the monomericity of the MPc complexes also lead to improved photophysical and photochemical behaviour. CdTe quantum dots (QDs) stabilized with mercaptocarbonic acids were also observed to cause stimulated emission of the MPcs through Förster resonance energy transfer (FRET) thus acting as energy donors while the respective MPc acted as energy acceptors in all the FRET studies. FRET was observed following the photoexcitation of QDs for all monomeric anionic MPcs but it was also shown to occur for some cationic MPcs in organic media. Both the substituent and solvent used were found to exert a strong influence on the occurrence of FRET. Other cationic MPcs however showed different behaviour in the presence of the meraptocarbonic stabilized CdTe QDs; with the cationic porphyrazine giving clear indications of Pc ring reduction. The rest of the cationic MPcs did not give clear evidence of Pc ring reduction, instead they showed signs of aggregate formation possibly from the assembly of electrostatic ion pair complexes which could result in reduction of the quaternized pyridinium ring of the substituent. Both the QDs and the MPc complex emission spectra were significantly quenched for each in the presence of the other. Stern-Volmer quenching studies indicated that both static and dynamic quenching of the QDs in the presence of MPcs took place. The fluorescence lifetimes of the mercaptopropionic acid (MPA) capped CdTe QDs in the presence of various MPc complexes showed quenching of mostly the longer lifetimes of the QDs in the presence of MPcs suggesting that the surface defects and states are involved in the interaction of the QDs and MPcs. An MPc complex terminating in thio tethers was employed in the conjugation to AuNPs. Spectroscopic and microscopic studies confirmed the formation of the MPc-AuNP conjugate which was also shown to exhibit improved photophysicochemical properties compared to the free MPc.
- Full Text:
- Date Issued: 2011
- Authors: Moeno, Sharon Keitumetse Gail Mpheletso
- Date: 2011 , 2011-03-30
- Subjects: Phthalocyanines Nanoparticles Photochemistry Quantum dots
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4310 , http://hdl.handle.net/10962/d1004968
- Description: The synthesis, spectroscopic characterization, and studies of the photophysicochemical behaviour of selective anionic, cationic and neutral metallophthallocyanine (MPc) complexes were carried out and the results are presented herein. Studies on the effect of the central metal ion, the solvent used and the presence of nanoparticles on the photophysicochemical properties were conducted. The findings showed that the photophysicochemical parameters were mostly enhanced in the presence of central metal ions of high atomic numbers and also in the presence of nanoparticles. It was also observed that solvents that encouraged the monomericity of the MPc complexes also lead to improved photophysical and photochemical behaviour. CdTe quantum dots (QDs) stabilized with mercaptocarbonic acids were also observed to cause stimulated emission of the MPcs through Förster resonance energy transfer (FRET) thus acting as energy donors while the respective MPc acted as energy acceptors in all the FRET studies. FRET was observed following the photoexcitation of QDs for all monomeric anionic MPcs but it was also shown to occur for some cationic MPcs in organic media. Both the substituent and solvent used were found to exert a strong influence on the occurrence of FRET. Other cationic MPcs however showed different behaviour in the presence of the meraptocarbonic stabilized CdTe QDs; with the cationic porphyrazine giving clear indications of Pc ring reduction. The rest of the cationic MPcs did not give clear evidence of Pc ring reduction, instead they showed signs of aggregate formation possibly from the assembly of electrostatic ion pair complexes which could result in reduction of the quaternized pyridinium ring of the substituent. Both the QDs and the MPc complex emission spectra were significantly quenched for each in the presence of the other. Stern-Volmer quenching studies indicated that both static and dynamic quenching of the QDs in the presence of MPcs took place. The fluorescence lifetimes of the mercaptopropionic acid (MPA) capped CdTe QDs in the presence of various MPc complexes showed quenching of mostly the longer lifetimes of the QDs in the presence of MPcs suggesting that the surface defects and states are involved in the interaction of the QDs and MPcs. An MPc complex terminating in thio tethers was employed in the conjugation to AuNPs. Spectroscopic and microscopic studies confirmed the formation of the MPc-AuNP conjugate which was also shown to exhibit improved photophysicochemical properties compared to the free MPc.
- Full Text:
- Date Issued: 2011
The druggable antimalarial target 1-deoxy-D-xylulose-5-phosphate reductoisomerase: purfication, kinetic characterization and inhibition studies
- Authors: Goble, Jessica Leigh
- Date: 2011
- Subjects: Antimalarials -- Development Plasmodium falciparum Drug development Plasmodium falciparum -- Purification Plasmodium falciparum -- Inhibitors Enzyme kinetics Malaria -- Chemotherapy
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:3949 , http://hdl.handle.net/10962/d1004008
- Description: Plasmodium falciparum 1–deoxy–D–xylulose–5 phosphatereductoisomerase (PfDXR) plays a role in isoprenoid biosynthesis in the malaria parasite and is absent in the human host, making this parasite enzyme an attractive target for antimalarial drug design. To characterize PfDXR, it is necessary to produce large quantities of the enzyme in a soluble and functional form. However, the over–production of malarial proteins in prokaryotic host systems often results in the formation of truncated proteins or insoluble protein aggregates. A heterologous expression system was developed for the production of active PfDXR using codon harmonization and tight control of expression in the presence of lac repressor. Yields of up to 2 mg/l of enzyme were reported using the optimised expression system, which is 8 to 10– fold greater than previously reported yields. The kinetic parameters Km, Vmax and kcat were determined for PfDXR; values reported in this study were consistent with those reported in the literature for other DXR enzymes. A three–dimensional model of the malarial drug target protein PfDXR was generated, and validated using structure–checking programs and protein docking studies. Structural and functional features unique to PfDXR were identified using the model and comparative sequence analyses with apicomplexan and non–apicomplexan DXR proteins. Residues Val44 and Asn45, essential for NADPH binding; and catalytic hatch residues Lys224 and Lys226, which are unique to the species of Plasmodium, were mutated to resemble those of E. coli DXR. Interestingly,these mutations resulted in significant reductions in substrate affinity, when compared to the unmutated PfDXR. Mutant enzymes PfDXR(VN43,44AG) and PfDXR(KK224,226NS) also demonstrated a decreased ability to turnover substrate by 4–fold and 2–fold respectively. This study indicates a difference in the role of the catalytic hatch of PfDXR with regards to the way in which it captures substrates. The study also highlights subtle differences in cofactor binding to PfDXR, compared with the well characterized EcDXR enzyme. The validated PfDXR model was also used to develop a novel efficient in silico screening method for potential tool compounds for use in the rational design of novel DXR inhibitors. Following in silico screening of 46 potential DXR inhibitors, a two–tiered in vitro screening approach was undertaken. DXR inhibition was assessed for the 46 novel compounds using an NADPH– ependant DXP enzyme inhibition assay and antimalarial potential was assessed using P.falciparum–infected erythrocyte growth assays. Select compounds were tested in human cells in order to determine whether they were toxic to the host. From the parallel in silico and in vitro drug screening, it was evident that only a single compound demonstrated reasonable potential binding to DXR (determined using in silico docking), inhibited DXR in vitro and inhibited P. falciparum growth, without being toxic to human cells. Its potential as a lead compound in antimalarial drug development is therefore feasible. Two outcomes were evident from this work. Firstly, analogues of known antimalarial natural products can be screened against malaria, which may then lead towards the rational design of novel compounds that are effective against a specific antimalarial drug target enzyme, such as PfDXR. Secondly, the rational design of novel compounds against a specific antimalarial drug target enzyme can be untaken by adopting a coupled in silico and in vitro approach to drug discovery.
- Full Text:
- Date Issued: 2011
- Authors: Goble, Jessica Leigh
- Date: 2011
- Subjects: Antimalarials -- Development Plasmodium falciparum Drug development Plasmodium falciparum -- Purification Plasmodium falciparum -- Inhibitors Enzyme kinetics Malaria -- Chemotherapy
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:3949 , http://hdl.handle.net/10962/d1004008
- Description: Plasmodium falciparum 1–deoxy–D–xylulose–5 phosphatereductoisomerase (PfDXR) plays a role in isoprenoid biosynthesis in the malaria parasite and is absent in the human host, making this parasite enzyme an attractive target for antimalarial drug design. To characterize PfDXR, it is necessary to produce large quantities of the enzyme in a soluble and functional form. However, the over–production of malarial proteins in prokaryotic host systems often results in the formation of truncated proteins or insoluble protein aggregates. A heterologous expression system was developed for the production of active PfDXR using codon harmonization and tight control of expression in the presence of lac repressor. Yields of up to 2 mg/l of enzyme were reported using the optimised expression system, which is 8 to 10– fold greater than previously reported yields. The kinetic parameters Km, Vmax and kcat were determined for PfDXR; values reported in this study were consistent with those reported in the literature for other DXR enzymes. A three–dimensional model of the malarial drug target protein PfDXR was generated, and validated using structure–checking programs and protein docking studies. Structural and functional features unique to PfDXR were identified using the model and comparative sequence analyses with apicomplexan and non–apicomplexan DXR proteins. Residues Val44 and Asn45, essential for NADPH binding; and catalytic hatch residues Lys224 and Lys226, which are unique to the species of Plasmodium, were mutated to resemble those of E. coli DXR. Interestingly,these mutations resulted in significant reductions in substrate affinity, when compared to the unmutated PfDXR. Mutant enzymes PfDXR(VN43,44AG) and PfDXR(KK224,226NS) also demonstrated a decreased ability to turnover substrate by 4–fold and 2–fold respectively. This study indicates a difference in the role of the catalytic hatch of PfDXR with regards to the way in which it captures substrates. The study also highlights subtle differences in cofactor binding to PfDXR, compared with the well characterized EcDXR enzyme. The validated PfDXR model was also used to develop a novel efficient in silico screening method for potential tool compounds for use in the rational design of novel DXR inhibitors. Following in silico screening of 46 potential DXR inhibitors, a two–tiered in vitro screening approach was undertaken. DXR inhibition was assessed for the 46 novel compounds using an NADPH– ependant DXP enzyme inhibition assay and antimalarial potential was assessed using P.falciparum–infected erythrocyte growth assays. Select compounds were tested in human cells in order to determine whether they were toxic to the host. From the parallel in silico and in vitro drug screening, it was evident that only a single compound demonstrated reasonable potential binding to DXR (determined using in silico docking), inhibited DXR in vitro and inhibited P. falciparum growth, without being toxic to human cells. Its potential as a lead compound in antimalarial drug development is therefore feasible. Two outcomes were evident from this work. Firstly, analogues of known antimalarial natural products can be screened against malaria, which may then lead towards the rational design of novel compounds that are effective against a specific antimalarial drug target enzyme, such as PfDXR. Secondly, the rational design of novel compounds against a specific antimalarial drug target enzyme can be untaken by adopting a coupled in silico and in vitro approach to drug discovery.
- Full Text:
- Date Issued: 2011
Regional application of the Pitman monthly rainfall-runoff model in Southern Africa incorporating uncertainty
- Authors: Kapangaziwiri, Evison
- Date: 2011
- Subjects: Water supply -- Africa, Southern Water supply -- Measurement -- Africa, Southern Hydrology -- Mathematical models -- Africa, Southern Hydrologic models Rain and rainfall -- Mathematical models -- Africa, Southern Runoff -- Mathematical models
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:6037 , http://hdl.handle.net/10962/d1006178
- Description: Climate change and a growing demand for freshwater resources due to population increases and socio-economic changes will make water a limiting factor (in terms of both quantity and quality) in development. The need for reliable quantitative estimates of water availability cannot be over-emphasised. However, there is frequently a paucity of the data required for this quantification as many basins, especially in the developing world, are inadequately equipped with monitoring networks. Existing networks are also shrinking due mainly to shortages in human and financial resources. Over the past few decades mathematical models have been used to bridge the data gap by generating datasets for use in management and policy making. In southern Africa, the Pitman monthly rainfall-runoff model has enjoyed relatively popular use as a water resources estimation tool. However, it is acknowledged that models are abstractions of reality and the data used to drive them is imperfect, making the model outputs uncertain. While there is acknowledgement of the limitations of modelled data in the southern African region among water practitioners, there has been little effort to explicitly quantify and account for this uncertainty in water resources estimation tools and explore how it affects the decision making process. Uncertainty manifests itself in three major areas of the modelling chain; the input data used to force the model, the parameter estimation process and the model structural errors. A previous study concluded that the parameter estimation process for the Pitman model contributed more to the global uncertainty of the model than other sources. While the literature abounds with uncertainty estimation techniques, many of these are dependent on observations and are therefore unlikely to be easily applicable to the southern African region where there is an acute shortage of such data. This study focuses on two aspects of making hydrologic predictions in ungauged basins. Firstly, the study advocates the development of an a priori parameter estimation process for the Pitman model and secondly, uses indices of hydrological functional behaviour to condition and reduce predictive uncertainty in both gauged and ungauged basins. In this approach all the basins are treated as ungauged, while the historical records in the gauged basins are used to develop regional indices of expected hydrological behaviour and assess the applicability of these methods. Incorporating uncertainty into the hydrologic estimation tools used in southern Africa entails rethinking the way the uncertain results can be used in further analysis and how they will be interpreted by stakeholders. An uncertainty framework is proposed. The framework is made up of a number of components related to the estimation of the prior distribution of the parameters, used to generate output ensembles which are then assessed and constrained using regionalised indices of basin behavioural responses. This is premised on such indices being based on the best available knowledge covering different regions. This framework is flexible enough to be used with any model structure to ensure consistent and comparable results. While the aim is to eventually apply the uncertainty framework in the southern African region, this study reports on the preliminary work on the development and testing of the framework components based on South African basins. This is necessitated by the variations in the availability and quality of the data across the region. Uncertainty in the parameter estimation process was incorporated by assuming uncertainty in the physical and hydro-meteorological data used to directly quantify the parameter. This uncertainty was represented by the range of variability of these basin characteristics and probability distribution functions were developed to account for this uncertainty and propagate it through the estimation process to generate posterior distributions for the parameters. The results show that the framework has a great deal of potential but can still be improved. In general, the estimated uncertain parameters managed to produce hydrologically realistic model outputs capturing the expected regimes across the different hydro-climatic and geo-physical gradients examined. The regional relationships for the three indices developed and tested in this study were in general agreement with existing knowledge and managed to successfully provide a multi-criteria conditioning of the model output ensembles. The feedback loop included in the framework enabled a systematic re-examination of the estimation procedures for both the parameters and the indices when inconsistencies in the results were identified. This improved results. However, there is need to carefully examine the issues and problems that may arise within other basins outside South Africa and develop guidelines for the use of the framework. , iText 1.4.6 (by lowagie.com)
- Full Text:
- Date Issued: 2011
- Authors: Kapangaziwiri, Evison
- Date: 2011
- Subjects: Water supply -- Africa, Southern Water supply -- Measurement -- Africa, Southern Hydrology -- Mathematical models -- Africa, Southern Hydrologic models Rain and rainfall -- Mathematical models -- Africa, Southern Runoff -- Mathematical models
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:6037 , http://hdl.handle.net/10962/d1006178
- Description: Climate change and a growing demand for freshwater resources due to population increases and socio-economic changes will make water a limiting factor (in terms of both quantity and quality) in development. The need for reliable quantitative estimates of water availability cannot be over-emphasised. However, there is frequently a paucity of the data required for this quantification as many basins, especially in the developing world, are inadequately equipped with monitoring networks. Existing networks are also shrinking due mainly to shortages in human and financial resources. Over the past few decades mathematical models have been used to bridge the data gap by generating datasets for use in management and policy making. In southern Africa, the Pitman monthly rainfall-runoff model has enjoyed relatively popular use as a water resources estimation tool. However, it is acknowledged that models are abstractions of reality and the data used to drive them is imperfect, making the model outputs uncertain. While there is acknowledgement of the limitations of modelled data in the southern African region among water practitioners, there has been little effort to explicitly quantify and account for this uncertainty in water resources estimation tools and explore how it affects the decision making process. Uncertainty manifests itself in three major areas of the modelling chain; the input data used to force the model, the parameter estimation process and the model structural errors. A previous study concluded that the parameter estimation process for the Pitman model contributed more to the global uncertainty of the model than other sources. While the literature abounds with uncertainty estimation techniques, many of these are dependent on observations and are therefore unlikely to be easily applicable to the southern African region where there is an acute shortage of such data. This study focuses on two aspects of making hydrologic predictions in ungauged basins. Firstly, the study advocates the development of an a priori parameter estimation process for the Pitman model and secondly, uses indices of hydrological functional behaviour to condition and reduce predictive uncertainty in both gauged and ungauged basins. In this approach all the basins are treated as ungauged, while the historical records in the gauged basins are used to develop regional indices of expected hydrological behaviour and assess the applicability of these methods. Incorporating uncertainty into the hydrologic estimation tools used in southern Africa entails rethinking the way the uncertain results can be used in further analysis and how they will be interpreted by stakeholders. An uncertainty framework is proposed. The framework is made up of a number of components related to the estimation of the prior distribution of the parameters, used to generate output ensembles which are then assessed and constrained using regionalised indices of basin behavioural responses. This is premised on such indices being based on the best available knowledge covering different regions. This framework is flexible enough to be used with any model structure to ensure consistent and comparable results. While the aim is to eventually apply the uncertainty framework in the southern African region, this study reports on the preliminary work on the development and testing of the framework components based on South African basins. This is necessitated by the variations in the availability and quality of the data across the region. Uncertainty in the parameter estimation process was incorporated by assuming uncertainty in the physical and hydro-meteorological data used to directly quantify the parameter. This uncertainty was represented by the range of variability of these basin characteristics and probability distribution functions were developed to account for this uncertainty and propagate it through the estimation process to generate posterior distributions for the parameters. The results show that the framework has a great deal of potential but can still be improved. In general, the estimated uncertain parameters managed to produce hydrologically realistic model outputs capturing the expected regimes across the different hydro-climatic and geo-physical gradients examined. The regional relationships for the three indices developed and tested in this study were in general agreement with existing knowledge and managed to successfully provide a multi-criteria conditioning of the model output ensembles. The feedback loop included in the framework enabled a systematic re-examination of the estimation procedures for both the parameters and the indices when inconsistencies in the results were identified. This improved results. However, there is need to carefully examine the issues and problems that may arise within other basins outside South Africa and develop guidelines for the use of the framework. , iText 1.4.6 (by lowagie.com)
- Full Text:
- Date Issued: 2011
Systematics, morphology, phylogeny and historical biogeography of the Mayfly family Prosopistomatidae (Ephemeroptera: Insecta) of the world
- Barber-James, Helen Margaret
- Authors: Barber-James, Helen Margaret
- Date: 2011
- Subjects: Mayflies Mayflies -- Classification Mayflies -- Morphology Mayflies -- Phylogeny Mayflies -- Geographical distribution Ephemeridae
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:5785 , http://hdl.handle.net/10962/d1005473
- Description: The diversity, classification and historical biogeography of the mayfly family Prosopistomatidae are explored. First, the higher classification of the Ephemeroptera is reviewed, focussing on the phylogenetic placement of the Prosopistomatidae relative to other mayfly families. All relevant literature from 1762 to 2010 is synthesized. Baetiscidae are established as the probable sister lineage of Prosopistomatidae, the two constituting the superfamily Baetiscoidea. Next, qualitative morphological variation within the Prosopistomatidae is reviewed and revised, emphasizing nymphs because imaginal specimens are few. The labium and associated structures and the hypopharynx of nymphs, and the highly-derived wing venation of the imaginal stages, are re-interpreted. The structure of the male tarsal claws changes considerably between subimago and imago, which, together with deeply scalloped ridges on male imaginal forelegs and unusual pits on the female thorax, are interpreted as providing an unusual mating mechanism. These structures provide morphological characters for species definition and phylogenetic analyses. Two approaches to species delimitation are explored. First, morphometric variation is analysed using Principal Component Analysis, revealing groupings that can be interpreted as species, although there is some overlap between them. Discriminant Function Analysis shows that head width and carapace shape have the most value in identifying nymphs of different species. The carapace of Prosopistoma nymphs is shown to grow allometrically and gradually, in contrast with that of Baetisca, indicating a difference in early ontogeny. Second, an Artificial Neural Network algorithm applied to nymphal morphological characters accurately identified species. This computer-driven artificial intelligence method has power to provide future easy-to-use electronic identification aids. Phylogenetic analysis of nymphal morphology using the parsimony method shows two clades of Prosopistomatidae, one sharing characters with the type species, Prosopistoma variegatum and the other predominating in Africa, although also occurring in Asia; these clades are named the “P. variegatum” and “African” clades, respectively. Parsimony analysis of adult morphology supports these two clades, but supertree analysis obscures the relationships, nesting the “P. variegatum” lineage within the other clade. Preliminary molecular phylogenetic analysis of the 16S rRNA, (mitochondrial) 18S rRNA and Histone-3 genes using Bayesian Inference methods does not support the two clades shown by morphology. Instead, there is a strong relationship between the European species and one African species, with the single Asian representative being most distantly related. These results are limited by lack of fresh material, patchy taxon sampling, and problems with finding suitable primers. A molecular clock program, BEAST, calibrated using fossils, suggests divergence times for the oldest crown-group Prosopistoma clade, represented by the Asian P. wouterae, of about 131 Ma, with the youngest species, the African P. crassi, of 1.21 Ma. Stem-group relationships are analysed using parsimony analysis, focussing on wing characters of the Baetiscoidea, other extant mayfly lineages, and extinct stem-group lineages. This suggests that the Baetiscoidea diverged from main-line Ephemeroptera earlier than any other extant mayfly lineage. This approach expands upon ideas hinted at by earlier scientists. Finally, historical biogeographical analysis of the distribution of known Baetiscoidea s.s. stem-group fossils implies a once Pangean distribution of the lineage. Changing palaeo-climate, catastrophic extinction events and plate tectonic movements in relation to the distribution of crown-group species are reviewed. Other approaches to historical biogeography that build on both morphological and molecular phylogenies are used to interpret disperalist and vacarianist arguments. Distribution patterns of eight unrelated freshwater organisms which share a similar distribution pattern are compared, assuming that shared patterns indicate similar historic biogeographic processes. The distribution of recent Prosopistoma species is seen to be the product of evolution resulting from both vicariance and dispersal. In conclusion, this thesis encompasses a variety of disciplines. It successfully recognises new characters and distinguishes previously unknown species. It uses new approaches to delimiting species and known methods to determine phylogeny from several angles. The analysis of stem-group relationships offers an insight into possible early lineage splitting within Ephemeroptera. Interpretation of historical biogeography allows for both a Gondwanan origin of Prosopistomatidae, with rafting of species on the Deccan plate to Asia, and for subsequent dispersal from Asia down to Australia and across to Europe, and possibly back to Africa.
- Full Text:
- Date Issued: 2011
- Authors: Barber-James, Helen Margaret
- Date: 2011
- Subjects: Mayflies Mayflies -- Classification Mayflies -- Morphology Mayflies -- Phylogeny Mayflies -- Geographical distribution Ephemeridae
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:5785 , http://hdl.handle.net/10962/d1005473
- Description: The diversity, classification and historical biogeography of the mayfly family Prosopistomatidae are explored. First, the higher classification of the Ephemeroptera is reviewed, focussing on the phylogenetic placement of the Prosopistomatidae relative to other mayfly families. All relevant literature from 1762 to 2010 is synthesized. Baetiscidae are established as the probable sister lineage of Prosopistomatidae, the two constituting the superfamily Baetiscoidea. Next, qualitative morphological variation within the Prosopistomatidae is reviewed and revised, emphasizing nymphs because imaginal specimens are few. The labium and associated structures and the hypopharynx of nymphs, and the highly-derived wing venation of the imaginal stages, are re-interpreted. The structure of the male tarsal claws changes considerably between subimago and imago, which, together with deeply scalloped ridges on male imaginal forelegs and unusual pits on the female thorax, are interpreted as providing an unusual mating mechanism. These structures provide morphological characters for species definition and phylogenetic analyses. Two approaches to species delimitation are explored. First, morphometric variation is analysed using Principal Component Analysis, revealing groupings that can be interpreted as species, although there is some overlap between them. Discriminant Function Analysis shows that head width and carapace shape have the most value in identifying nymphs of different species. The carapace of Prosopistoma nymphs is shown to grow allometrically and gradually, in contrast with that of Baetisca, indicating a difference in early ontogeny. Second, an Artificial Neural Network algorithm applied to nymphal morphological characters accurately identified species. This computer-driven artificial intelligence method has power to provide future easy-to-use electronic identification aids. Phylogenetic analysis of nymphal morphology using the parsimony method shows two clades of Prosopistomatidae, one sharing characters with the type species, Prosopistoma variegatum and the other predominating in Africa, although also occurring in Asia; these clades are named the “P. variegatum” and “African” clades, respectively. Parsimony analysis of adult morphology supports these two clades, but supertree analysis obscures the relationships, nesting the “P. variegatum” lineage within the other clade. Preliminary molecular phylogenetic analysis of the 16S rRNA, (mitochondrial) 18S rRNA and Histone-3 genes using Bayesian Inference methods does not support the two clades shown by morphology. Instead, there is a strong relationship between the European species and one African species, with the single Asian representative being most distantly related. These results are limited by lack of fresh material, patchy taxon sampling, and problems with finding suitable primers. A molecular clock program, BEAST, calibrated using fossils, suggests divergence times for the oldest crown-group Prosopistoma clade, represented by the Asian P. wouterae, of about 131 Ma, with the youngest species, the African P. crassi, of 1.21 Ma. Stem-group relationships are analysed using parsimony analysis, focussing on wing characters of the Baetiscoidea, other extant mayfly lineages, and extinct stem-group lineages. This suggests that the Baetiscoidea diverged from main-line Ephemeroptera earlier than any other extant mayfly lineage. This approach expands upon ideas hinted at by earlier scientists. Finally, historical biogeographical analysis of the distribution of known Baetiscoidea s.s. stem-group fossils implies a once Pangean distribution of the lineage. Changing palaeo-climate, catastrophic extinction events and plate tectonic movements in relation to the distribution of crown-group species are reviewed. Other approaches to historical biogeography that build on both morphological and molecular phylogenies are used to interpret disperalist and vacarianist arguments. Distribution patterns of eight unrelated freshwater organisms which share a similar distribution pattern are compared, assuming that shared patterns indicate similar historic biogeographic processes. The distribution of recent Prosopistoma species is seen to be the product of evolution resulting from both vicariance and dispersal. In conclusion, this thesis encompasses a variety of disciplines. It successfully recognises new characters and distinguishes previously unknown species. It uses new approaches to delimiting species and known methods to determine phylogeny from several angles. The analysis of stem-group relationships offers an insight into possible early lineage splitting within Ephemeroptera. Interpretation of historical biogeography allows for both a Gondwanan origin of Prosopistomatidae, with rafting of species on the Deccan plate to Asia, and for subsequent dispersal from Asia down to Australia and across to Europe, and possibly back to Africa.
- Full Text:
- Date Issued: 2011
"But what story?": a narrative-discursive analysis of "white" Afrikaners' accounts of male involvement in parenthood decision-making
- Authors: Morison, Tracy
- Date: 2011
- Subjects: Family planning -- South Africa -- Psychological aspects Family size Birth intervals Men -- South Africa -- Attitudes Men -- South Africa -- Psychology Couples -- South Africa -- Psychology Afrikaners -- Attitudes
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:3025 , http://hdl.handle.net/10962/d1002534
- Description: Despite the increased focus on men in reproductive research, little is known about male involvement in the initial decision/s regarding parenthood (i.e., to become a parent or not) and the subsequent decision-making that may ensue (e.g., choices about timing or spacing of births). In particular, the parenthood decision-making of “White”, heterosexual men from the middle class has been understudied, as indicated in the existing literature. In South Africa, this oversight has been exacerbated by the tendency for researchers to concentrate on “problematic” men, to the exclusion of the “boring, normal case”. I argue that this silence in the literature is a result of the taken for granted nature of parenthood in the “normal” heterosexual life course. In this study, I have turned the spotlight onto the norm of “Whiteness” and heterosexuality by studying those who have previously been overlooked by researchers. I focus on “White” Afrikaans men’s involvement in parenthood decision-making. My aim was to explore how constructions of gender inform male involvement in decision-making, especially within the South African context where social transformation has challenged traditional conceptions of male selfhood giving rise to new and contested masculine identities and new discourses of manhood and fatherhood. In an effort to ensure that women’s voices are not marginalised in the research, as is often the case in studies of men and masculinity, I conducted in-depth, semi-structured interviews about male involvement in decision-making with both “White” Afrikaans women and men. There were 23 participants in total, who all identified as heterosexual and middle-class. The participants were divided into two age cohorts (21 – 30 years and >40 years), which were then differentiated according to gender, reproductive status, and relationship status. Treating the interviews as jointly produced narratives, I analysed them by means of a performativity/performance lens. This dual analytic lens focuses on how particular narrative performances are simultaneously shaped by the interview setting and the broader discursive context. The lens was fashioned by synthesising Butler’s theory of performativity with Taylor’s narrative-discursive method. This synthesis (1) allows for Butler’s notion of “performativity” to be supplemented with that of “performance”; (2) provides a concrete analytical strategy in the form of positioning analysis; and (3) draws attention to both the micro politics of the interview conversation and the operation of power on the macro level, including the possibility of making “gender trouble”. The findings of the study suggest that the participants experienced difficulty narrating about male involvement in parenthood decision-making, owing to the taken for granted nature of parenthood for heterosexual adults. This was evident in participants’ sidelining of issues of “deciding” and “planning” and their alternate construal of childbearing as a non-choice, which, significantly served to bolster hetero-patriarchal norms. A central rhetorical tool for accomplishing these purposes was found in the construction of the “sacralised” child. In discursively manoeuvring around the central problematic, the participants ultimately produced a “silence” in the data that repeats the one in the research literature.
- Full Text:
- Date Issued: 2011
- Authors: Morison, Tracy
- Date: 2011
- Subjects: Family planning -- South Africa -- Psychological aspects Family size Birth intervals Men -- South Africa -- Attitudes Men -- South Africa -- Psychology Couples -- South Africa -- Psychology Afrikaners -- Attitudes
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:3025 , http://hdl.handle.net/10962/d1002534
- Description: Despite the increased focus on men in reproductive research, little is known about male involvement in the initial decision/s regarding parenthood (i.e., to become a parent or not) and the subsequent decision-making that may ensue (e.g., choices about timing or spacing of births). In particular, the parenthood decision-making of “White”, heterosexual men from the middle class has been understudied, as indicated in the existing literature. In South Africa, this oversight has been exacerbated by the tendency for researchers to concentrate on “problematic” men, to the exclusion of the “boring, normal case”. I argue that this silence in the literature is a result of the taken for granted nature of parenthood in the “normal” heterosexual life course. In this study, I have turned the spotlight onto the norm of “Whiteness” and heterosexuality by studying those who have previously been overlooked by researchers. I focus on “White” Afrikaans men’s involvement in parenthood decision-making. My aim was to explore how constructions of gender inform male involvement in decision-making, especially within the South African context where social transformation has challenged traditional conceptions of male selfhood giving rise to new and contested masculine identities and new discourses of manhood and fatherhood. In an effort to ensure that women’s voices are not marginalised in the research, as is often the case in studies of men and masculinity, I conducted in-depth, semi-structured interviews about male involvement in decision-making with both “White” Afrikaans women and men. There were 23 participants in total, who all identified as heterosexual and middle-class. The participants were divided into two age cohorts (21 – 30 years and >40 years), which were then differentiated according to gender, reproductive status, and relationship status. Treating the interviews as jointly produced narratives, I analysed them by means of a performativity/performance lens. This dual analytic lens focuses on how particular narrative performances are simultaneously shaped by the interview setting and the broader discursive context. The lens was fashioned by synthesising Butler’s theory of performativity with Taylor’s narrative-discursive method. This synthesis (1) allows for Butler’s notion of “performativity” to be supplemented with that of “performance”; (2) provides a concrete analytical strategy in the form of positioning analysis; and (3) draws attention to both the micro politics of the interview conversation and the operation of power on the macro level, including the possibility of making “gender trouble”. The findings of the study suggest that the participants experienced difficulty narrating about male involvement in parenthood decision-making, owing to the taken for granted nature of parenthood for heterosexual adults. This was evident in participants’ sidelining of issues of “deciding” and “planning” and their alternate construal of childbearing as a non-choice, which, significantly served to bolster hetero-patriarchal norms. A central rhetorical tool for accomplishing these purposes was found in the construction of the “sacralised” child. In discursively manoeuvring around the central problematic, the participants ultimately produced a “silence” in the data that repeats the one in the research literature.
- Full Text:
- Date Issued: 2011
Molecular analysis of genetic diversity in dometicated pigeonpea (Cajanus cajan (L.) Millsp.) and wild relatives
- Authors: Kassa, Mulualem Tamiru
- Date: 2011
- Subjects: Pigeon pea -- Variation Cajanus -- Variation Pigeon pea -- Genetics Cajanus -- Genetics Biodiversity Pigeon pea -- Phylogeny Cajanus -- Phylogeny Plant hybridization Plant diversity Transgenic plants
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4204 , http://hdl.handle.net/10962/d1003773
- Description: Cajanus cajan (L.) Millsp. (Pigeonpea) belongs to the Leguminosae genus Cajanus which is composed of 34 species. Pigeonpea is the only cultivated member of the genus, while the remaining species are wild relatives belonging mainly to the secondary gene pool. DNA sequence data from the nuclear ITS region and the chloroplast trnL-F spacer were utilized to investigate the phylogenetic relationships between Cajanus and five other allied genera in the subtribe Cajaninae. This study revealed the non-monophyly of Cajanus and Rhynchosia and supported the monophyly of Eriosema and Flemingia, but more sampling ,especially from the large genera of Rhynchosia and Eriosema, is recommend to adequately test the hypothesis of generic monophyly. The phylogenetic relationships within the genus Cajanus resolved Cajanus scarabaeoides (L.) Thouars as the most basal species in the Cajanus clade. The study also utilized Single Nucleotide Polymorphism (SNP) markers derived from low copy orthologous genes and genotyped using the high throughput SNP-OPA Illumina golden gate assay. The aim was to understand phylogenetic and domestication history, genetic structure, patterns of genetic diversity, gene flow and historical hybridization between Cajanus cajan (pigeonpea) and wild relatives. The neighbor-joining tree resolved well-supported clusters, which reflect the distinctiveness of species and congruence with their geographical origin. It supported the ITS based phylogeny and resolved C. scarabaeoides as basal to the Cajanus clade. The phylogenetic signal and genetic signatures revealed insights into the domestication history of pigeonpea. Our results supported Cajanus cajanifolius as the presumed progenitor of pigeonpea and we speculate that for pigeonpea there was a single major domestication event in India. Genetic admixture and historical hybridization were evident between pigeonpea and wild relatives. Abundant allelic variation and genetic diversity was found in the wild relatives, with the exception of wild species from Australia, as compared to the domesticated pigeonpea. There was a reduction of about 75% in genetic polymorphism in domesticated pigeonpea as compared to the wild relatives, indicating a severe “domestication bottleneck” during pigeonpea domestication. We discovered SNP markers associated with disease resistance (NBS-LRR) loci. The SNPs were mined in a comparison of BAC-end sequences (BES) of C. cajan and amplicons of the wild species, C. scarabaeoides. A total of ~3000 SNPs were identified from 304 BES. These SNPs could potentially be used in constructing a genetic map and for marker assisted breeding.
- Full Text:
- Date Issued: 2011
- Authors: Kassa, Mulualem Tamiru
- Date: 2011
- Subjects: Pigeon pea -- Variation Cajanus -- Variation Pigeon pea -- Genetics Cajanus -- Genetics Biodiversity Pigeon pea -- Phylogeny Cajanus -- Phylogeny Plant hybridization Plant diversity Transgenic plants
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4204 , http://hdl.handle.net/10962/d1003773
- Description: Cajanus cajan (L.) Millsp. (Pigeonpea) belongs to the Leguminosae genus Cajanus which is composed of 34 species. Pigeonpea is the only cultivated member of the genus, while the remaining species are wild relatives belonging mainly to the secondary gene pool. DNA sequence data from the nuclear ITS region and the chloroplast trnL-F spacer were utilized to investigate the phylogenetic relationships between Cajanus and five other allied genera in the subtribe Cajaninae. This study revealed the non-monophyly of Cajanus and Rhynchosia and supported the monophyly of Eriosema and Flemingia, but more sampling ,especially from the large genera of Rhynchosia and Eriosema, is recommend to adequately test the hypothesis of generic monophyly. The phylogenetic relationships within the genus Cajanus resolved Cajanus scarabaeoides (L.) Thouars as the most basal species in the Cajanus clade. The study also utilized Single Nucleotide Polymorphism (SNP) markers derived from low copy orthologous genes and genotyped using the high throughput SNP-OPA Illumina golden gate assay. The aim was to understand phylogenetic and domestication history, genetic structure, patterns of genetic diversity, gene flow and historical hybridization between Cajanus cajan (pigeonpea) and wild relatives. The neighbor-joining tree resolved well-supported clusters, which reflect the distinctiveness of species and congruence with their geographical origin. It supported the ITS based phylogeny and resolved C. scarabaeoides as basal to the Cajanus clade. The phylogenetic signal and genetic signatures revealed insights into the domestication history of pigeonpea. Our results supported Cajanus cajanifolius as the presumed progenitor of pigeonpea and we speculate that for pigeonpea there was a single major domestication event in India. Genetic admixture and historical hybridization were evident between pigeonpea and wild relatives. Abundant allelic variation and genetic diversity was found in the wild relatives, with the exception of wild species from Australia, as compared to the domesticated pigeonpea. There was a reduction of about 75% in genetic polymorphism in domesticated pigeonpea as compared to the wild relatives, indicating a severe “domestication bottleneck” during pigeonpea domestication. We discovered SNP markers associated with disease resistance (NBS-LRR) loci. The SNPs were mined in a comparison of BAC-end sequences (BES) of C. cajan and amplicons of the wild species, C. scarabaeoides. A total of ~3000 SNPs were identified from 304 BES. These SNPs could potentially be used in constructing a genetic map and for marker assisted breeding.
- Full Text:
- Date Issued: 2011