Development and optimisation of a novel Plasmodium falciparum Hsp90-Hop interaction assay
- Authors: Wambua, Lynn
- Date: 2018
- Subjects: Plasmodium falciparum , Molecular chaperones , Heat shock proteins , Protein-protein interactions , Antimalarials
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/62626 , vital:28216
- Description: Protein-protein interactions are involved in a range of disease processes and thus have become the focus of many drug discovery programs. Widespread drug resistance to all currently used antimalarial drugs drives the search for alternative drug targets with novel mechanisms of action that offer new therapeutic options. Molecular chaperones such as heat shock proteins facilitate protein folding, play a role in protein trafficking and prevent protein misfolding in cells under stress. Heat shock protein 90 (Hsp90) is a well-studied chaperone that has been the focus of cancer drug development with moderate success. In Plasmodium falciparum (P. falciparum), heat shock proteins are thought to play a vital role in parasite survival of the physiologically diverse habitats of the parasite lifecycle and because Hsp90 is prominently expressed in P. falciparum, the chaperone is considered a potentially ideal drug target. Hsp90 function in cells is regulated by interactions with co-chaperones, which includes Heat shock protein 70-Heat shock protein 90 organising protein (Hop). As opposed to directly inhibiting Hsp90 activity, targeting Hsp90 interaction with Hop has recently been suggested as an alternative method of Hsp90 inhibition that has not been explored in P. falciparum. The aim of this research project was to demonstrate PfHsp90 and PfHop robustly interact in vitro and to facilitate high-throughput screening of PfHsp90-PfHop inhibitors by developing and optimising a novel plate capture Hsp90-Hop interaction assay. To establish the assay, the respective domains of the proteins that mediate Hsp90-Hop interaction were used (Hsp90 C- terminal domain and Hop TPR2A domain). The human Hsp90 C-terminal domain and glutathione-S-transferase (GST) coding sequences were cloned into pET-28a(+) and murine and P. falciparum TPR2A sequences into pGEX-4T-1 plasmids to enable expression of histidine-tagged and GST fusion proteins, respectively, in Escherichia coli. The P. falciparum Hsp90 C-terminal domain sequence cloned into pET-28a(+) was supplied by GenScript. The constructs were transformed into T7 Express lysYcompetent E. coli cells and subsequent small- scale expression studies showed the recombinant proteins were expressed in a soluble form allowing for subsequent protein purification. Purification of the recombinant proteins was achieved using nickel-NTA and glutathione affinity chromatography for the His-tagged (Hsp90 C-terminal domains and GST) and GST fusion proteins (TPR2A domains), respectively. The purified proteins were used to establish and optimise mammalian and P. falciparum Hsp90- Hop interaction assays on nickel-coated plates by immobilising the His-tagged C-terminal domains on the plates and detecting the binding of the GST-TPR2A domains using a colorimetric GST enzyme assay. Z’-factor values above 0.5 were observed for both assays indicating good separation between the protein interaction signals and negative control background signals, although relatively high background signals were observed for the mammalian interaction due to non-specific binding of murine TPR2A to the plate. Designed human and P. falciparum TPR peptides were observed to be effective inhibitors of the mammalian and P. falciparum interactions, demonstrating the assay’s ability to respond to inhibitor compounds. Comparison of assay performance using GST assay kit reagents and lab- prepared reagents showed the assay was more efficient using lab-prepared reagents, however, lower GST signals were observed when comparing assay performance using a custom prepared Ni-NTA plate to a purchased Ni-NTA plate. The Hsp90-Hop interaction assays were also performed using an alternative assay format in which the GST-TPR2A fusion proteins were immobilised on glutathione-coated plates and binding of the His-tagged C-terminal domains detected with a nickel-horseradish peroxidase (HRP) conjugate and a colorimetric HRP substrate. The assay showed higher interaction signals for the P. falciparum proteins but comparatively low signals for the mammalian proteins. Z’-factor values for the assay were above 0.8 for both protein sets, suggesting this assay format is superior to the GST assay. However, further optimisation of this assay format is required. This study demonstrated direct binding of PfHsp90-PfHop in vitro and established a novel and robust PfHsp90-PfHop interaction assay format that can be used in future screening campaigns.
- Full Text:
- Date Issued: 2018
- Authors: Wambua, Lynn
- Date: 2018
- Subjects: Plasmodium falciparum , Molecular chaperones , Heat shock proteins , Protein-protein interactions , Antimalarials
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/62626 , vital:28216
- Description: Protein-protein interactions are involved in a range of disease processes and thus have become the focus of many drug discovery programs. Widespread drug resistance to all currently used antimalarial drugs drives the search for alternative drug targets with novel mechanisms of action that offer new therapeutic options. Molecular chaperones such as heat shock proteins facilitate protein folding, play a role in protein trafficking and prevent protein misfolding in cells under stress. Heat shock protein 90 (Hsp90) is a well-studied chaperone that has been the focus of cancer drug development with moderate success. In Plasmodium falciparum (P. falciparum), heat shock proteins are thought to play a vital role in parasite survival of the physiologically diverse habitats of the parasite lifecycle and because Hsp90 is prominently expressed in P. falciparum, the chaperone is considered a potentially ideal drug target. Hsp90 function in cells is regulated by interactions with co-chaperones, which includes Heat shock protein 70-Heat shock protein 90 organising protein (Hop). As opposed to directly inhibiting Hsp90 activity, targeting Hsp90 interaction with Hop has recently been suggested as an alternative method of Hsp90 inhibition that has not been explored in P. falciparum. The aim of this research project was to demonstrate PfHsp90 and PfHop robustly interact in vitro and to facilitate high-throughput screening of PfHsp90-PfHop inhibitors by developing and optimising a novel plate capture Hsp90-Hop interaction assay. To establish the assay, the respective domains of the proteins that mediate Hsp90-Hop interaction were used (Hsp90 C- terminal domain and Hop TPR2A domain). The human Hsp90 C-terminal domain and glutathione-S-transferase (GST) coding sequences were cloned into pET-28a(+) and murine and P. falciparum TPR2A sequences into pGEX-4T-1 plasmids to enable expression of histidine-tagged and GST fusion proteins, respectively, in Escherichia coli. The P. falciparum Hsp90 C-terminal domain sequence cloned into pET-28a(+) was supplied by GenScript. The constructs were transformed into T7 Express lysYcompetent E. coli cells and subsequent small- scale expression studies showed the recombinant proteins were expressed in a soluble form allowing for subsequent protein purification. Purification of the recombinant proteins was achieved using nickel-NTA and glutathione affinity chromatography for the His-tagged (Hsp90 C-terminal domains and GST) and GST fusion proteins (TPR2A domains), respectively. The purified proteins were used to establish and optimise mammalian and P. falciparum Hsp90- Hop interaction assays on nickel-coated plates by immobilising the His-tagged C-terminal domains on the plates and detecting the binding of the GST-TPR2A domains using a colorimetric GST enzyme assay. Z’-factor values above 0.5 were observed for both assays indicating good separation between the protein interaction signals and negative control background signals, although relatively high background signals were observed for the mammalian interaction due to non-specific binding of murine TPR2A to the plate. Designed human and P. falciparum TPR peptides were observed to be effective inhibitors of the mammalian and P. falciparum interactions, demonstrating the assay’s ability to respond to inhibitor compounds. Comparison of assay performance using GST assay kit reagents and lab- prepared reagents showed the assay was more efficient using lab-prepared reagents, however, lower GST signals were observed when comparing assay performance using a custom prepared Ni-NTA plate to a purchased Ni-NTA plate. The Hsp90-Hop interaction assays were also performed using an alternative assay format in which the GST-TPR2A fusion proteins were immobilised on glutathione-coated plates and binding of the His-tagged C-terminal domains detected with a nickel-horseradish peroxidase (HRP) conjugate and a colorimetric HRP substrate. The assay showed higher interaction signals for the P. falciparum proteins but comparatively low signals for the mammalian proteins. Z’-factor values for the assay were above 0.8 for both protein sets, suggesting this assay format is superior to the GST assay. However, further optimisation of this assay format is required. This study demonstrated direct binding of PfHsp90-PfHop in vitro and established a novel and robust PfHsp90-PfHop interaction assay format that can be used in future screening campaigns.
- Full Text:
- Date Issued: 2018
Epithermal precious metal deposits physicochemical constraints, classification characteristics and exploration guidelines
- Authors: McIver, Donald A
- Date: 1997
- Subjects: Precious metals , Geothermal resources
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4941 , http://hdl.handle.net/10962/d1005553 , Precious metals , Geothermal resources
- Description: Epithermal deposits include a broad range of precious metal, base metal, mercury, and stibnite deposits. These deposits exhibit a low temperature of formation (180-280°C) at pressures of less than a few hundred bars (equivalent to depths of 1.5 - 2.0lkm). Epithermal gold deposits are the product of large-scale hydrothermal systems which mostly occur in convergent plate margin settings. Associated volcanism is largely of andesitic arc (calcalkaline to alkaline), or rhyolitic back-arc type. Porphyry Cu-Mo-Au deposits form deeper in the same systems. Genetic processes within individual deposits take place in an extremely complex manner. The resultant mineral associations, alteration styles and metal deposition patterns are even more complicated. Many attempts have been made to classify epithermal deposits based on mineralogy and alteration, host rocks, deposit form, genetic models, and standard deposits. For the explorationist, the most useful classification schemes should be brief, simple, descriptive, observationally based, and informative. Ultimately, two distinct styles of epithermal gold deposits are readily recognised: high-sulphidation, acid sulphate and low-sulphidation, adularia-sericite types. The terms high-sulphidation (HS) and low-sulphidation (IS) are based on the sulphidation state of associated sulphide minerals, which, along with characteristic hydrothermal alteration, reflect fundamental chemical differences in the epithermal environment. Highsulphidation-type deposits form in the root zones of volcanic domes from acid waters that contain residual magmatic volatiles. The low-sulphidation-type deposits form in geothermal systems where surficial waters mix with deeper, heated saline waters in a lateral flow regime, where neutral to weakly acidic, alkali chloride waters are dominant. The HSILS classification, combined with a simple description of the form of the deposit, conveys a large amount of information on mineralogy, alteration, and spatial characteristics of the mineralisation, and allows inferences to be drawn regarding likely regional controls, and the characteristics of the ore-forming fluids. The modern understanding of these environments allows us to quite effectively identify the most probable foci of mineral deposition in any given district. Current knowledge of these deposits has been derived from studies of active geothermal systems. Through comparison with alteration zones within these systems, the exploration geologist may determine the potential distribution and types of ore in a fossil geothermal system. Alteration zoning specifically can be used as a guide towards the most prospective part of the system. Epithermal gold deposits of both HS- and LS-styles are nevertheless profoundly difficult exploration targets. Successful exploration must rely on the integration of a variety of exploration techniques, guided by an understanding of the characteristics of the deposits and the processes that form them. There are no simple formulae for success in epithermal exploration: what works best must be determined for each terrain and each prospect. On a regional scale tectonic, igneous and structural settings can be used, together with assessment of the depth of erosion, to select areas for project area scale exploration. Integrated geological-geophysical interpretation derived from airborne geophysics providesa basis of targeting potential ore environments for follow-up. Geology, geochemistry and surface geophysics localise mineral concentrations within these target areas
- Full Text:
- Date Issued: 1997
- Authors: McIver, Donald A
- Date: 1997
- Subjects: Precious metals , Geothermal resources
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4941 , http://hdl.handle.net/10962/d1005553 , Precious metals , Geothermal resources
- Description: Epithermal deposits include a broad range of precious metal, base metal, mercury, and stibnite deposits. These deposits exhibit a low temperature of formation (180-280°C) at pressures of less than a few hundred bars (equivalent to depths of 1.5 - 2.0lkm). Epithermal gold deposits are the product of large-scale hydrothermal systems which mostly occur in convergent plate margin settings. Associated volcanism is largely of andesitic arc (calcalkaline to alkaline), or rhyolitic back-arc type. Porphyry Cu-Mo-Au deposits form deeper in the same systems. Genetic processes within individual deposits take place in an extremely complex manner. The resultant mineral associations, alteration styles and metal deposition patterns are even more complicated. Many attempts have been made to classify epithermal deposits based on mineralogy and alteration, host rocks, deposit form, genetic models, and standard deposits. For the explorationist, the most useful classification schemes should be brief, simple, descriptive, observationally based, and informative. Ultimately, two distinct styles of epithermal gold deposits are readily recognised: high-sulphidation, acid sulphate and low-sulphidation, adularia-sericite types. The terms high-sulphidation (HS) and low-sulphidation (IS) are based on the sulphidation state of associated sulphide minerals, which, along with characteristic hydrothermal alteration, reflect fundamental chemical differences in the epithermal environment. Highsulphidation-type deposits form in the root zones of volcanic domes from acid waters that contain residual magmatic volatiles. The low-sulphidation-type deposits form in geothermal systems where surficial waters mix with deeper, heated saline waters in a lateral flow regime, where neutral to weakly acidic, alkali chloride waters are dominant. The HSILS classification, combined with a simple description of the form of the deposit, conveys a large amount of information on mineralogy, alteration, and spatial characteristics of the mineralisation, and allows inferences to be drawn regarding likely regional controls, and the characteristics of the ore-forming fluids. The modern understanding of these environments allows us to quite effectively identify the most probable foci of mineral deposition in any given district. Current knowledge of these deposits has been derived from studies of active geothermal systems. Through comparison with alteration zones within these systems, the exploration geologist may determine the potential distribution and types of ore in a fossil geothermal system. Alteration zoning specifically can be used as a guide towards the most prospective part of the system. Epithermal gold deposits of both HS- and LS-styles are nevertheless profoundly difficult exploration targets. Successful exploration must rely on the integration of a variety of exploration techniques, guided by an understanding of the characteristics of the deposits and the processes that form them. There are no simple formulae for success in epithermal exploration: what works best must be determined for each terrain and each prospect. On a regional scale tectonic, igneous and structural settings can be used, together with assessment of the depth of erosion, to select areas for project area scale exploration. Integrated geological-geophysical interpretation derived from airborne geophysics providesa basis of targeting potential ore environments for follow-up. Geology, geochemistry and surface geophysics localise mineral concentrations within these target areas
- Full Text:
- Date Issued: 1997
A standardised protocol for roadkill detection and the determinants of roadkill in the greater Mapungubwe Transfrontier Conservation Area, Limpopo Province, South Africa
- Authors: Collinson, Wendy Jane
- Date: 2013
- Subjects: Roadkill -- South Africa -- Mapungubwe Site , Traffic safety and wildlife -- South Africa -- Mapungubwe Site
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5606 , http://hdl.handle.net/10962/d1002056 , Roadkill -- South Africa -- Mapungubwe Site , Traffic safety and wildlife -- South Africa -- Mapungubwe Site
- Description: Despite evidence suggesting that road traffic is a major threat to biodiversity loss, very little is known about its actual impact on wildlife populations in South Africa. Globally, road density and traffic volumes are increasing, and although huge budgets are devoted to the construction and upgrading of roads, there is little or no allocation to mitigation measures for protecting fauna in most countries, particularly Africa. Further, no global standardised protocol exists for the rapid assessment of roadkill or the most economical and efficient approach for assessing roadkill rates. Using vehicle field trials, the reliability of detecting artificially deployed roadkill was assessed. Roadkill detection rates decreased significantly at speeds >50 km/h and were also significantly influenced by light conditions (i.e. detection success was greater when the sun was high) and the position of the roadkill on the road (i.e. smaller roadkill on verges were often missed). These results suggest that roadkill sampling was most effective between 1.5 hours after dawn and 1.5 hours before dusk and that driving at slower speeds (<50 km.h⁻ₑ) was required to detect roadkill. This protocol was implemented across three ecological seasons on a 100 km paved road and a 20 km unpaved road in the Greater Mapungubwe Transfrontier Conservation Area, Limpopo Province, South Africa. Driven daily over a 120-day period (three periods consisting each of 40 days), a total of 1,027 roadkill were recorded. These comprised 162 species from all terrestrial vertebrate groups with birds being the most commonly encountered roadkill (50% of all incidents). The high numbers of vertebrates identified as roadkill suggests that road traffic could have potentially unsustainable impacts on wildlife populations and hence the biodiversity of the area. Seventeen variables were identified as possible determinants of roadkill occurrence with season, rainfall, minimum and maximum temperature, habitat type, grass height, grass density, fence type and vehicle type significantly influencing roadkill numbers. Significantly more roadkill were detected on the paved road (9.91/100km) than on the unpaved road (1.8/100km) probably because of greater traffic volumes and the increased speed that vehicles travelled on the paved road. Warmer temperatures and increased rainfall in the preceding 24 hours also increased road mortality numbers as animals tended to become more active during these times. Interestingly, more roadkill was detected in open roadside habitats compared to dense roadside habitats on both the paved and unpaved roads and when grass on the roadside verge was of intermediate height. Open habitat possibly may provide a natural corridor for wildlife which ultimately end up on the road. Roadkill numbers increased when certain other physical barriers, such as cattle fences, were present, probably because these barriers were more penetrable than electric fencing. A series of mitigation measures are proposed to reduce the impacts of roads on wildlife in South Africa. These mitigation measures highlight the need to address the balance between the development of a country’s transport infrastructure and the conservation of its fauna. It is important that research on the impacts of roads becomes standardised to enable robust statistical comparisons which will provide a greater understanding of the potential threats to vertebrate biodiversity
- Full Text:
- Date Issued: 2013
- Authors: Collinson, Wendy Jane
- Date: 2013
- Subjects: Roadkill -- South Africa -- Mapungubwe Site , Traffic safety and wildlife -- South Africa -- Mapungubwe Site
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5606 , http://hdl.handle.net/10962/d1002056 , Roadkill -- South Africa -- Mapungubwe Site , Traffic safety and wildlife -- South Africa -- Mapungubwe Site
- Description: Despite evidence suggesting that road traffic is a major threat to biodiversity loss, very little is known about its actual impact on wildlife populations in South Africa. Globally, road density and traffic volumes are increasing, and although huge budgets are devoted to the construction and upgrading of roads, there is little or no allocation to mitigation measures for protecting fauna in most countries, particularly Africa. Further, no global standardised protocol exists for the rapid assessment of roadkill or the most economical and efficient approach for assessing roadkill rates. Using vehicle field trials, the reliability of detecting artificially deployed roadkill was assessed. Roadkill detection rates decreased significantly at speeds >50 km/h and were also significantly influenced by light conditions (i.e. detection success was greater when the sun was high) and the position of the roadkill on the road (i.e. smaller roadkill on verges were often missed). These results suggest that roadkill sampling was most effective between 1.5 hours after dawn and 1.5 hours before dusk and that driving at slower speeds (<50 km.h⁻ₑ) was required to detect roadkill. This protocol was implemented across three ecological seasons on a 100 km paved road and a 20 km unpaved road in the Greater Mapungubwe Transfrontier Conservation Area, Limpopo Province, South Africa. Driven daily over a 120-day period (three periods consisting each of 40 days), a total of 1,027 roadkill were recorded. These comprised 162 species from all terrestrial vertebrate groups with birds being the most commonly encountered roadkill (50% of all incidents). The high numbers of vertebrates identified as roadkill suggests that road traffic could have potentially unsustainable impacts on wildlife populations and hence the biodiversity of the area. Seventeen variables were identified as possible determinants of roadkill occurrence with season, rainfall, minimum and maximum temperature, habitat type, grass height, grass density, fence type and vehicle type significantly influencing roadkill numbers. Significantly more roadkill were detected on the paved road (9.91/100km) than on the unpaved road (1.8/100km) probably because of greater traffic volumes and the increased speed that vehicles travelled on the paved road. Warmer temperatures and increased rainfall in the preceding 24 hours also increased road mortality numbers as animals tended to become more active during these times. Interestingly, more roadkill was detected in open roadside habitats compared to dense roadside habitats on both the paved and unpaved roads and when grass on the roadside verge was of intermediate height. Open habitat possibly may provide a natural corridor for wildlife which ultimately end up on the road. Roadkill numbers increased when certain other physical barriers, such as cattle fences, were present, probably because these barriers were more penetrable than electric fencing. A series of mitigation measures are proposed to reduce the impacts of roads on wildlife in South Africa. These mitigation measures highlight the need to address the balance between the development of a country’s transport infrastructure and the conservation of its fauna. It is important that research on the impacts of roads becomes standardised to enable robust statistical comparisons which will provide a greater understanding of the potential threats to vertebrate biodiversity
- Full Text:
- Date Issued: 2013
Studies on an autolysin produced by clostridium acetobutylicum
- Authors: Webster, Jocelyn Rowena
- Date: 1981
- Subjects: Clostridium acetobutylicum , Autolysis , Bacteriocins , Proteins -- Synthesis , DNA -- Synthesis , RNA -- Synthesis
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:3893 , http://hdl.handle.net/10962/d1003724
- Description: An extracellular bacteriocin-like substance produced by Clostridium acetobutylicum was detected during studies on an industrial fermentation process. The bacteriocin-like substance was not inducible by either ultraviolet light or mitomycin C, and its production was not associated with the induction of a protease. Studies on the mode of action of the bacteriocin-like substance indicated that it had no significant effect on DNA, RNA, or protein synthesis, and it did not cause the loss of intracellular ATP. However, the bacteriocin-like substance was able to lyse SDS-treated cells and cell walls of C. acetobutylicum and was identified as an autolysin. Some of the characteristics of this extracellular autolysin were determined, and after purification it was shown to be a glycoprotein with a molecular weight of 28 000.
- Full Text:
- Date Issued: 1981
- Authors: Webster, Jocelyn Rowena
- Date: 1981
- Subjects: Clostridium acetobutylicum , Autolysis , Bacteriocins , Proteins -- Synthesis , DNA -- Synthesis , RNA -- Synthesis
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:3893 , http://hdl.handle.net/10962/d1003724
- Description: An extracellular bacteriocin-like substance produced by Clostridium acetobutylicum was detected during studies on an industrial fermentation process. The bacteriocin-like substance was not inducible by either ultraviolet light or mitomycin C, and its production was not associated with the induction of a protease. Studies on the mode of action of the bacteriocin-like substance indicated that it had no significant effect on DNA, RNA, or protein synthesis, and it did not cause the loss of intracellular ATP. However, the bacteriocin-like substance was able to lyse SDS-treated cells and cell walls of C. acetobutylicum and was identified as an autolysin. Some of the characteristics of this extracellular autolysin were determined, and after purification it was shown to be a glycoprotein with a molecular weight of 28 000.
- Full Text:
- Date Issued: 1981
The independent high rate algal pond as a unit operation in tertiary wastewater treatment
- Authors: Clark, Stewart James
- Date: 2002
- Subjects: Algae -- Biotechnology , Sewage -- Purification -- Biological treatment
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4092 , http://hdl.handle.net/10962/d1007805
- Description: The development of the High Rate Algal Pond (HRAP) as an independent tertiary treatment unit operation for phosphate and nitrate removal is reported. A novel Integrated Algal Ponding System (lAPS) design is proposed for nutrient removal from the effluents of both a conventional domestic sewage treatment plant and from an Advanced Integrated Wastewater Ponding System (AIWPS). The viability of an independently operated HRAP has been identified and termed the Independent High Rate Algal Pond (l-HRAP). A 500 m² pilot 1- HRAP was operated in such a way as to facilitate the precipitation of calcium phosphate, known to be controlled by pH (greater than 9.4) and resulting in final phosphate levels of less than 1 mg.L⁻¹ as P0₄-P. The incorporation of the I-HRAP into a denitrification process was also investigated. Continuously fed column reactors, utilising algal biomass as a carbon source, showed that the heterotrophic bacterial community dominant in the anaerobic algal sludge were denitrifying the nitrate in the feed. It was demonstrated that as the cultures were stressed (using increased nitrate concentrations, anaerobiosis and light starvation) total polysaccharide (TPS) concentrations increased, with a notable increase 111 the exopolysaccharide (EPS) fraction. These experiments corroborated the hypothesis that harvested microalgal biomass can be manipulated to produce, and release, exopolymeric substances under stress conditions, and which may serve as carbon source for denitrification. In both batch flask studies and in laboratory-scale reactor systems, harvested microalgal biomass from an HRAP was shown to produce exopolymeric substances under stress conditions. Initial high loading-rates of greater than 20 mg.L⁻¹ NO₃-N resulted in double the amount of exopolysaccharide production than in flasks with initial low loading-rates (less than 5 mg.L⁻¹ NO₃-N). Making use of an upflow anaerobic sludge blanket-type degrading-bed reactor, and an anaerobic, flooded trickle filter (ANTRIC) receiving HRAP effluent, the relationship between denitrification and the changes in polysaccharide content was investigated. This phenomenon has considerable beneficial implications in biological wastewater treatment systems where high nitrate concentration in the final effluent is a potential mitigating factor. Identification of the heterotrophic bacteria active in the denitrification process was attempted. This study presents a first report on the development and operation of the I-HRAP and has been followed by a technical-scale pilot plant evaluation of the process in the tertiary treatment of domestic wastewaters.
- Full Text:
- Date Issued: 2002
- Authors: Clark, Stewart James
- Date: 2002
- Subjects: Algae -- Biotechnology , Sewage -- Purification -- Biological treatment
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4092 , http://hdl.handle.net/10962/d1007805
- Description: The development of the High Rate Algal Pond (HRAP) as an independent tertiary treatment unit operation for phosphate and nitrate removal is reported. A novel Integrated Algal Ponding System (lAPS) design is proposed for nutrient removal from the effluents of both a conventional domestic sewage treatment plant and from an Advanced Integrated Wastewater Ponding System (AIWPS). The viability of an independently operated HRAP has been identified and termed the Independent High Rate Algal Pond (l-HRAP). A 500 m² pilot 1- HRAP was operated in such a way as to facilitate the precipitation of calcium phosphate, known to be controlled by pH (greater than 9.4) and resulting in final phosphate levels of less than 1 mg.L⁻¹ as P0₄-P. The incorporation of the I-HRAP into a denitrification process was also investigated. Continuously fed column reactors, utilising algal biomass as a carbon source, showed that the heterotrophic bacterial community dominant in the anaerobic algal sludge were denitrifying the nitrate in the feed. It was demonstrated that as the cultures were stressed (using increased nitrate concentrations, anaerobiosis and light starvation) total polysaccharide (TPS) concentrations increased, with a notable increase 111 the exopolysaccharide (EPS) fraction. These experiments corroborated the hypothesis that harvested microalgal biomass can be manipulated to produce, and release, exopolymeric substances under stress conditions, and which may serve as carbon source for denitrification. In both batch flask studies and in laboratory-scale reactor systems, harvested microalgal biomass from an HRAP was shown to produce exopolymeric substances under stress conditions. Initial high loading-rates of greater than 20 mg.L⁻¹ NO₃-N resulted in double the amount of exopolysaccharide production than in flasks with initial low loading-rates (less than 5 mg.L⁻¹ NO₃-N). Making use of an upflow anaerobic sludge blanket-type degrading-bed reactor, and an anaerobic, flooded trickle filter (ANTRIC) receiving HRAP effluent, the relationship between denitrification and the changes in polysaccharide content was investigated. This phenomenon has considerable beneficial implications in biological wastewater treatment systems where high nitrate concentration in the final effluent is a potential mitigating factor. Identification of the heterotrophic bacteria active in the denitrification process was attempted. This study presents a first report on the development and operation of the I-HRAP and has been followed by a technical-scale pilot plant evaluation of the process in the tertiary treatment of domestic wastewaters.
- Full Text:
- Date Issued: 2002
An ecological study of territoriality in four Cichlid species resident on rocky shores near Monkey Bay, Lake Malawi
- Authors: Sharp, Bradley John
- Date: 1982
- Subjects: Cichlids -- Nyasa, Lake , Cichlids -- Behavior
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5340 , http://hdl.handle.net/10962/d1005927 , Cichlids -- Nyasa, Lake , Cichlids -- Behavior
- Description: This study centres on a diverse assemblage of epilithic algal grazing fish (17 cichlids and 2 cyprinids) found on the rocky shores near Monkey Bay, Lake Malawi. Diet overlap among these species is large, but competitive exclusion is apparently avoided by the species having different feeding structures, behaviour and distribution on the shore. In many respects the ecology and behaviour of the cichlid fishes inhabiting the rocky zones of Lake Malawi parallel those of coral reef fish. In both communities there are species which are highly territorial, resulting in resource subdivision and, in some cases, the development of algal gardens. As this behaviour has not been previously reported for cichlid species, this thesis describes the territoriality of the rock-dwelling cichlids of Monkey Bay, Lake Malawi, and poses three specific questions: 1. What is the function of territoriality? 2. How do the territorial species subdivide the space resource? 3. What prevents one species taking over all the available space? It is suggested that interspecific territoriality evolved in response to a shortage of food, and, at present, serves principally to defend an algal garden i.e. a food supply of high standing crop. The species studied are extremely site specific. The rocky shore is subdivided among the four species according to the rock configuration, size, algal mat composition and position on the shore, of the available sites. An experimental study of the space utilization of the two common territorial species, referred to as 'Pseudotropheus orange cheek' and 'Pseudotropheus aggressive', showed that suitable territory sites are in short supply and that these species are in competition for some sites. These results do not support those of Fryer (1959) who suggested that a superabundance of food enabled fish to coexist by sharing the same food resource. Indeed it now appears that a shortage of food may have been a major driving force during the recent evolution of the species studied.
- Full Text:
- Date Issued: 1982
- Authors: Sharp, Bradley John
- Date: 1982
- Subjects: Cichlids -- Nyasa, Lake , Cichlids -- Behavior
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5340 , http://hdl.handle.net/10962/d1005927 , Cichlids -- Nyasa, Lake , Cichlids -- Behavior
- Description: This study centres on a diverse assemblage of epilithic algal grazing fish (17 cichlids and 2 cyprinids) found on the rocky shores near Monkey Bay, Lake Malawi. Diet overlap among these species is large, but competitive exclusion is apparently avoided by the species having different feeding structures, behaviour and distribution on the shore. In many respects the ecology and behaviour of the cichlid fishes inhabiting the rocky zones of Lake Malawi parallel those of coral reef fish. In both communities there are species which are highly territorial, resulting in resource subdivision and, in some cases, the development of algal gardens. As this behaviour has not been previously reported for cichlid species, this thesis describes the territoriality of the rock-dwelling cichlids of Monkey Bay, Lake Malawi, and poses three specific questions: 1. What is the function of territoriality? 2. How do the territorial species subdivide the space resource? 3. What prevents one species taking over all the available space? It is suggested that interspecific territoriality evolved in response to a shortage of food, and, at present, serves principally to defend an algal garden i.e. a food supply of high standing crop. The species studied are extremely site specific. The rocky shore is subdivided among the four species according to the rock configuration, size, algal mat composition and position on the shore, of the available sites. An experimental study of the space utilization of the two common territorial species, referred to as 'Pseudotropheus orange cheek' and 'Pseudotropheus aggressive', showed that suitable territory sites are in short supply and that these species are in competition for some sites. These results do not support those of Fryer (1959) who suggested that a superabundance of food enabled fish to coexist by sharing the same food resource. Indeed it now appears that a shortage of food may have been a major driving force during the recent evolution of the species studied.
- Full Text:
- Date Issued: 1982
Studies on the metabolism of SKF 525 A|
- Authors: Barber, Peter John
- Date: 1978 , 2013-10-14
- Subjects: Drugs -- Metabolism , Cytochrome P-450
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:3835 , http://hdl.handle.net/10962/d1007591 , Drugs -- Metabolism , Cytochrome P-450
- Description: Spectrophotometric studies have been carried out to determine the pH dependence of binding of SKF 525 A, Brietal sodium and carbon monoxide to cytochrome P-450. The optimal pH for metabolic conversion of SKF 525 A has been investigated and this agent and its major metabolite, SKF 8742 A, have been metabolised in vitro by swine and rat hepatic microsomes. A suitable gas liquid chromatography assay has been developed and used to analyse metabolic production. The effects of carbon monoxide, dithiothreitol, n-octylamine and of induction of cytochrome P-450 by phenobarbital on metabolism of SKF 525 A and SKF 8742 A have been investigated. Attempts have been made to synthesise SKF 525 AN-oxide. , KMBT_363 , Adobe Acrobat 9.54 Paper Capture Plug-in
- Full Text:
- Date Issued: 1978
- Authors: Barber, Peter John
- Date: 1978 , 2013-10-14
- Subjects: Drugs -- Metabolism , Cytochrome P-450
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:3835 , http://hdl.handle.net/10962/d1007591 , Drugs -- Metabolism , Cytochrome P-450
- Description: Spectrophotometric studies have been carried out to determine the pH dependence of binding of SKF 525 A, Brietal sodium and carbon monoxide to cytochrome P-450. The optimal pH for metabolic conversion of SKF 525 A has been investigated and this agent and its major metabolite, SKF 8742 A, have been metabolised in vitro by swine and rat hepatic microsomes. A suitable gas liquid chromatography assay has been developed and used to analyse metabolic production. The effects of carbon monoxide, dithiothreitol, n-octylamine and of induction of cytochrome P-450 by phenobarbital on metabolism of SKF 525 A and SKF 8742 A have been investigated. Attempts have been made to synthesise SKF 525 AN-oxide. , KMBT_363 , Adobe Acrobat 9.54 Paper Capture Plug-in
- Full Text:
- Date Issued: 1978
Alkane oxidation using metallophthalocyanine as homogeneous catalysts
- Authors: Grootboom, Natasha Denise
- Date: 2002
- Subjects: Oxidation , Alkanes
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4449 , http://hdl.handle.net/10962/d1007794
- Description: Iron polychlorophthalocyanine (FePc(Cl)₁₆) and tetrasulfophthalocyanine ([M¹¹TSPc]⁴) complexes of iron, cobalt and manganese are employed as catalysts for the oxidation of cyclohexane using tert-butyl hydroperoxide (TBHP), chloroperoxybenzoic acid (CPBA) and hydrogen peroxide as oxidants. Catalysis using the FePc(Cl)₁₆ was performed in a dimethylformamide:dichloromethane (3 :7) solvent mixture. For the [Fe¹¹TSPc]⁴⁻, [Co¹¹TSPc]⁻ and [Mn¹¹TSPc]⁴⁻catalysts, a water:methanol (1:9) mixture was employed. The products of the catalysis are cyclohexanone, cyclohexanol and cyclohexanediol. The relative percentage yields, percentage selectivity and overall percentage conversion of the products depended on types of oxidant, or catalyst, concentrations of substrate or catalysts and temperature. TBHP was found to be the best oxidant since minimal destruction of the catalyst and higher selectivity in the products were observed when this oxidant was employed. Of the four catalysts investigated [Fe¹¹TSPc]⁴⁻ yielded the highest overall percentage conversion of 20%.The mechanism of the oxidation of cyclohexane in the presence of the FePc(Cl)₁₆ and [M¹¹TSPc]⁴⁻ involves the oxidation of these catalysts, forming an Fe(IlI) phthalocyanine species as an intermediate. Electrocatalysis using [Co¹¹TSPc]⁴⁻ as catalyst, employed an aqueous pH 7 buffer medium for electro-oxidation of 4-pentenoic acid. An enone is suggested as the only oxidation product of 4-pentenoic acid. No degradation of [Co¹¹TSPc]⁴⁻ was observed during the electrocatalytic process. In this process water was used as a source of oxygen therefore eliminating the production of by products from oxidant as in the case of TBHP and CPBA. This system was studied In an attempt to set up conditions for alkane electrocatalytic oxidation.
- Full Text:
- Date Issued: 2002
- Authors: Grootboom, Natasha Denise
- Date: 2002
- Subjects: Oxidation , Alkanes
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4449 , http://hdl.handle.net/10962/d1007794
- Description: Iron polychlorophthalocyanine (FePc(Cl)₁₆) and tetrasulfophthalocyanine ([M¹¹TSPc]⁴) complexes of iron, cobalt and manganese are employed as catalysts for the oxidation of cyclohexane using tert-butyl hydroperoxide (TBHP), chloroperoxybenzoic acid (CPBA) and hydrogen peroxide as oxidants. Catalysis using the FePc(Cl)₁₆ was performed in a dimethylformamide:dichloromethane (3 :7) solvent mixture. For the [Fe¹¹TSPc]⁴⁻, [Co¹¹TSPc]⁻ and [Mn¹¹TSPc]⁴⁻catalysts, a water:methanol (1:9) mixture was employed. The products of the catalysis are cyclohexanone, cyclohexanol and cyclohexanediol. The relative percentage yields, percentage selectivity and overall percentage conversion of the products depended on types of oxidant, or catalyst, concentrations of substrate or catalysts and temperature. TBHP was found to be the best oxidant since minimal destruction of the catalyst and higher selectivity in the products were observed when this oxidant was employed. Of the four catalysts investigated [Fe¹¹TSPc]⁴⁻ yielded the highest overall percentage conversion of 20%.The mechanism of the oxidation of cyclohexane in the presence of the FePc(Cl)₁₆ and [M¹¹TSPc]⁴⁻ involves the oxidation of these catalysts, forming an Fe(IlI) phthalocyanine species as an intermediate. Electrocatalysis using [Co¹¹TSPc]⁴⁻ as catalyst, employed an aqueous pH 7 buffer medium for electro-oxidation of 4-pentenoic acid. An enone is suggested as the only oxidation product of 4-pentenoic acid. No degradation of [Co¹¹TSPc]⁴⁻ was observed during the electrocatalytic process. In this process water was used as a source of oxygen therefore eliminating the production of by products from oxidant as in the case of TBHP and CPBA. This system was studied In an attempt to set up conditions for alkane electrocatalytic oxidation.
- Full Text:
- Date Issued: 2002
Investigating the viability and performance of a pilot scale Fly Ash/Lime Filter Tower (FLFT) for greywater treatment and the fate of Triclosan post treatment
- Authors: Nondlazi, Sinoyolo
- Date: 2018
- Subjects: Uncatalogued
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/63704 , vital:28473
- Description: Expected release date-April 2020
- Full Text:
- Date Issued: 2018
- Authors: Nondlazi, Sinoyolo
- Date: 2018
- Subjects: Uncatalogued
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/63704 , vital:28473
- Description: Expected release date-April 2020
- Full Text:
- Date Issued: 2018
A systematic study of Berkheya and allies (Compositae)
- Authors: Phaliso, Ntombifikile
- Date: 2013
- Subjects: Compositae -- Africa, Southern , Daisies -- Africa, Southern , Compositae -- Phylogeny -- Africa, Southern , Compositae -- Geographical distribution -- Africa, Southern , Compositae -- Classification -- Africa, Southern , Cladistic analysis
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4179 , http://hdl.handle.net/10962/d1003054
- Description: Berkheya Ehrh. is a genus of daisies in the tribe Arctotideae, subtribe Gorteriinae with over 80 species, most of which occur in southern Africa. This genus has centres of diversity associated with the montane regions of South Africa, including the Drakensberg Alpine Centre and Mpumalanga escarpment regions. Previous molecular and morphological studies indicate that Berkheya is paraphyletic. I present phylogenies based on nrDNA (ITS; Internal Transcribed Spacer) and cpDNA (psbA-trnH) sequence data analysed with Bayesian Inference and Parsimony. A phylogeny of combined cp- and nrDNA is also presented. These phylogenies are used to assess generic limits and to investigate the biogeographic patterns of Berkheya and its allies. The ITS phylogeny shows five well supported clades of Berkheya, two of which (Clades I and 2) are monophyletic summer rainfall region clades. Clades 3 to 5 are all paraphyletic winter rainfall clades with Cullumia occurring in the third clade, Cuspida occurring in the fourth and Didelta in Clade 5. Both psbA-trnH and combined phylogenies show concordance with the clade distribution shown in the ITS phylogeny. The ITS phylogeny was used to analyse correspondence with Roessler’s (1959) Series. It was found that the phylogeny showed considerable agreement with Roessler’s series, but B. bipinnatifida and B. spinosa of Series Speciosae may require some revision as well as taxa of monotypic series Cruciatae and Angustae. It is suggested that the latter series be merged with Cullumia species to form a single series. Some consideration should be taken to include Didelta species into Series Fruticosae as Didelta occurs in subclade 5b of Clade 5 with other Series Fruticosae taxa. Achene morphology was examined from species from each of the five clades to investigate the relationships of Berkheya and its allies, as well as to determine if there were any consistent achene features for each clade. The structure of surface cells on the fruit, the presence, absence and morphology of twin hairs as well as the structure of the pappus scales were found to be most useful in reflecting phylogenetic relationships within the clades. When compared with the clades of the ITS phylogeny, achene morphology showed consistent characters between taxa occurring in the same clades. As the most comprehensive study involving Berkheya, this phylogenenetic investigation was able to confirm that Berkheya is a paraphyletic genus with Didelta, Cullumia and Cuspida needing to be subsumed into Berkheya. An alternative classification is that taxa of Clade 5 could possibly be erected as an expanded Didelta, separate and sister to Berkheya.
- Full Text:
- Date Issued: 2013
- Authors: Phaliso, Ntombifikile
- Date: 2013
- Subjects: Compositae -- Africa, Southern , Daisies -- Africa, Southern , Compositae -- Phylogeny -- Africa, Southern , Compositae -- Geographical distribution -- Africa, Southern , Compositae -- Classification -- Africa, Southern , Cladistic analysis
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4179 , http://hdl.handle.net/10962/d1003054
- Description: Berkheya Ehrh. is a genus of daisies in the tribe Arctotideae, subtribe Gorteriinae with over 80 species, most of which occur in southern Africa. This genus has centres of diversity associated with the montane regions of South Africa, including the Drakensberg Alpine Centre and Mpumalanga escarpment regions. Previous molecular and morphological studies indicate that Berkheya is paraphyletic. I present phylogenies based on nrDNA (ITS; Internal Transcribed Spacer) and cpDNA (psbA-trnH) sequence data analysed with Bayesian Inference and Parsimony. A phylogeny of combined cp- and nrDNA is also presented. These phylogenies are used to assess generic limits and to investigate the biogeographic patterns of Berkheya and its allies. The ITS phylogeny shows five well supported clades of Berkheya, two of which (Clades I and 2) are monophyletic summer rainfall region clades. Clades 3 to 5 are all paraphyletic winter rainfall clades with Cullumia occurring in the third clade, Cuspida occurring in the fourth and Didelta in Clade 5. Both psbA-trnH and combined phylogenies show concordance with the clade distribution shown in the ITS phylogeny. The ITS phylogeny was used to analyse correspondence with Roessler’s (1959) Series. It was found that the phylogeny showed considerable agreement with Roessler’s series, but B. bipinnatifida and B. spinosa of Series Speciosae may require some revision as well as taxa of monotypic series Cruciatae and Angustae. It is suggested that the latter series be merged with Cullumia species to form a single series. Some consideration should be taken to include Didelta species into Series Fruticosae as Didelta occurs in subclade 5b of Clade 5 with other Series Fruticosae taxa. Achene morphology was examined from species from each of the five clades to investigate the relationships of Berkheya and its allies, as well as to determine if there were any consistent achene features for each clade. The structure of surface cells on the fruit, the presence, absence and morphology of twin hairs as well as the structure of the pappus scales were found to be most useful in reflecting phylogenetic relationships within the clades. When compared with the clades of the ITS phylogeny, achene morphology showed consistent characters between taxa occurring in the same clades. As the most comprehensive study involving Berkheya, this phylogenenetic investigation was able to confirm that Berkheya is a paraphyletic genus with Didelta, Cullumia and Cuspida needing to be subsumed into Berkheya. An alternative classification is that taxa of Clade 5 could possibly be erected as an expanded Didelta, separate and sister to Berkheya.
- Full Text:
- Date Issued: 2013
A study of the vegetation of the Andries Vosloo Kudu Reserve, Cape Provice
- Authors: Palmer, Anthony Riordan
- Date: 1981 , 2013-04-18
- Subjects: Botany -- South Africa -- Eastern Cape , Lubke, R.A.
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4244 , http://hdl.handle.net/10962/d1007284 , Botany -- South Africa -- Eastern Cape
- Description: The plant communities of the Andries Vosloo Kudu Reserve (6493 ha.; Acocks's Valley Bushveld) are classified using the Braun-Blanquet phytosociological technique. A checklist of the flowering plants is presented. The flora of the reserve displays an affinity to five phytochoria (Capensis, Karoo-Namib, Sudano-Zambezian, Afro-montane and Indian Ocean Coastal Belt 1, of which the Karoo-Namib and Indian Ocean Coastal Belt are the most extensive. The flora of the Valley Bushveld is regarded as adequately conserved, but a recommendation is made to consolidate the study area with adjacent farms. A small herbarium, containing specimens of all species listed in the checklist, has been established. The climate of the study area is classified according to the Koppen classification as Cfa. Simultaneous air temperature recording at four separate localities demonstrated that differences exist between local ities of marginally different altitude, aspect and slope. The phenology of 51 plant species, recorded at monthly intervals over a continuous period of 478 days, is presented. These species are classified according to their response to air temperature and rainfall for the initiation of new growth, flowering and fruiting. Species exhibited a spectrum of responses ranging from endogenous to exogenous control over phenological events. , KMBT_363 , Adobe Acrobat 9.53 Paper Capture Plug-in
- Full Text:
- Date Issued: 1981
- Authors: Palmer, Anthony Riordan
- Date: 1981 , 2013-04-18
- Subjects: Botany -- South Africa -- Eastern Cape , Lubke, R.A.
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4244 , http://hdl.handle.net/10962/d1007284 , Botany -- South Africa -- Eastern Cape
- Description: The plant communities of the Andries Vosloo Kudu Reserve (6493 ha.; Acocks's Valley Bushveld) are classified using the Braun-Blanquet phytosociological technique. A checklist of the flowering plants is presented. The flora of the reserve displays an affinity to five phytochoria (Capensis, Karoo-Namib, Sudano-Zambezian, Afro-montane and Indian Ocean Coastal Belt 1, of which the Karoo-Namib and Indian Ocean Coastal Belt are the most extensive. The flora of the Valley Bushveld is regarded as adequately conserved, but a recommendation is made to consolidate the study area with adjacent farms. A small herbarium, containing specimens of all species listed in the checklist, has been established. The climate of the study area is classified according to the Koppen classification as Cfa. Simultaneous air temperature recording at four separate localities demonstrated that differences exist between local ities of marginally different altitude, aspect and slope. The phenology of 51 plant species, recorded at monthly intervals over a continuous period of 478 days, is presented. These species are classified according to their response to air temperature and rainfall for the initiation of new growth, flowering and fruiting. Species exhibited a spectrum of responses ranging from endogenous to exogenous control over phenological events. , KMBT_363 , Adobe Acrobat 9.53 Paper Capture Plug-in
- Full Text:
- Date Issued: 1981
Classification of the difficulty in accelerating problems using GPUs
- Authors: Tristram, Uvedale Roy
- Date: 2014
- Subjects: Graphics processing units , Computer algorithms , Computer programming , Problem solving -- Data processing
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4699 , http://hdl.handle.net/10962/d1012978
- Description: Scientists continually require additional processing power, as this enables them to compute larger problem sizes, use more complex models and algorithms, and solve problems previously thought computationally impractical. General-purpose computation on graphics processing units (GPGPU) can help in this regard, as there is great potential in using graphics processors to accelerate many scientific models and algorithms. However, some problems are considerably harder to accelerate than others, and it may be challenging for those new to GPGPU to ascertain the difficulty of accelerating a particular problem or seek appropriate optimisation guidance. Through what was learned in the acceleration of a hydrological uncertainty ensemble model, large numbers of k-difference string comparisons, and a radix sort, problem attributes have been identified that can assist in the evaluation of the difficulty in accelerating a problem using GPUs. The identified attributes are inherent parallelism, branch divergence, problem size, required computational parallelism, memory access pattern regularity, data transfer overhead, and thread cooperation. Using these attributes as difficulty indicators, an initial problem difficulty classification framework has been created that aids in GPU acceleration difficulty evaluation. This framework further facilitates directed guidance on suggested optimisations and required knowledge based on problem classification, which has been demonstrated for the aforementioned accelerated problems. It is anticipated that this framework, or a derivative thereof, will prove to be a useful resource for new or novice GPGPU developers in the evaluation of potential problems for GPU acceleration.
- Full Text:
- Date Issued: 2014
- Authors: Tristram, Uvedale Roy
- Date: 2014
- Subjects: Graphics processing units , Computer algorithms , Computer programming , Problem solving -- Data processing
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4699 , http://hdl.handle.net/10962/d1012978
- Description: Scientists continually require additional processing power, as this enables them to compute larger problem sizes, use more complex models and algorithms, and solve problems previously thought computationally impractical. General-purpose computation on graphics processing units (GPGPU) can help in this regard, as there is great potential in using graphics processors to accelerate many scientific models and algorithms. However, some problems are considerably harder to accelerate than others, and it may be challenging for those new to GPGPU to ascertain the difficulty of accelerating a particular problem or seek appropriate optimisation guidance. Through what was learned in the acceleration of a hydrological uncertainty ensemble model, large numbers of k-difference string comparisons, and a radix sort, problem attributes have been identified that can assist in the evaluation of the difficulty in accelerating a problem using GPUs. The identified attributes are inherent parallelism, branch divergence, problem size, required computational parallelism, memory access pattern regularity, data transfer overhead, and thread cooperation. Using these attributes as difficulty indicators, an initial problem difficulty classification framework has been created that aids in GPU acceleration difficulty evaluation. This framework further facilitates directed guidance on suggested optimisations and required knowledge based on problem classification, which has been demonstrated for the aforementioned accelerated problems. It is anticipated that this framework, or a derivative thereof, will prove to be a useful resource for new or novice GPGPU developers in the evaluation of potential problems for GPU acceleration.
- Full Text:
- Date Issued: 2014
Gold metallogeny of Australia
- Authors: Rankine, Graham M
- Date: 1987
- Subjects: Gold ores -- Geology -- Australia , Gold mines and mining -- Australia , Gold -- Metallurgy -- Australia
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4928 , http://hdl.handle.net/10962/d1004676
- Description: The gold metallogeny of Australia is predominantly confined to the Archaean and Palaeozoic Provinces. The Archaean gold occurrences are predominantly hosted in ultramafic-mafic dominated greenstone belts, with less associated tofelsic-volcanic and sedimentary sequences. Most gold occurrences are confined to shear zones or faults, and adjacent discoveries of economic laterite-hosted deposits, host rocks. Recent are presently under investigation and will supply a significant proportion of production in the future. The Proterozoic gold deposits of Australia , are confined to geosyncinal sequences, commonly turbidites (eg: Telfer), with other hydrothermal deposits associated directly to granites. An important feature of the North Australian Craton deposits, is the spatial association of most deposits to granite bodies, although a genetic link has not been established conclusively. The Roxby Downs deposit in South Australia is a unique occurrence of gold in association to copper, uranium and R.E.E. This deposit is tentatively related to intraplate alkaline-magmatism, with further work necessary. The most significant recent discovery of gold mineralization in Australia is in the Drummond Basin in Queensland. This epithermal is tentatively related to mineralization within the Georgetown Inlier. The latter mineralization is Permo-Carboniferous, in a Proterozoic (and possibly Archaean) sequence of schists. It is tentatively suggested that all the gold mineralization in northern Queensland may be related to single tectonic event, a feature which requires further study . Other mineralization in the Phanerozoic includes the turbidite-hosted metamorphogenic deposits of Victoria, the rift related deposits in New South Wales and magmatic related deposits in Queensland. The gold deposits in Australia may in the future be classified in a tectonogeological framework, similiar to the layout of this dissertation, particularly once further data becomes available on recent discoveries.
- Full Text:
- Date Issued: 1987
- Authors: Rankine, Graham M
- Date: 1987
- Subjects: Gold ores -- Geology -- Australia , Gold mines and mining -- Australia , Gold -- Metallurgy -- Australia
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4928 , http://hdl.handle.net/10962/d1004676
- Description: The gold metallogeny of Australia is predominantly confined to the Archaean and Palaeozoic Provinces. The Archaean gold occurrences are predominantly hosted in ultramafic-mafic dominated greenstone belts, with less associated tofelsic-volcanic and sedimentary sequences. Most gold occurrences are confined to shear zones or faults, and adjacent discoveries of economic laterite-hosted deposits, host rocks. Recent are presently under investigation and will supply a significant proportion of production in the future. The Proterozoic gold deposits of Australia , are confined to geosyncinal sequences, commonly turbidites (eg: Telfer), with other hydrothermal deposits associated directly to granites. An important feature of the North Australian Craton deposits, is the spatial association of most deposits to granite bodies, although a genetic link has not been established conclusively. The Roxby Downs deposit in South Australia is a unique occurrence of gold in association to copper, uranium and R.E.E. This deposit is tentatively related to intraplate alkaline-magmatism, with further work necessary. The most significant recent discovery of gold mineralization in Australia is in the Drummond Basin in Queensland. This epithermal is tentatively related to mineralization within the Georgetown Inlier. The latter mineralization is Permo-Carboniferous, in a Proterozoic (and possibly Archaean) sequence of schists. It is tentatively suggested that all the gold mineralization in northern Queensland may be related to single tectonic event, a feature which requires further study . Other mineralization in the Phanerozoic includes the turbidite-hosted metamorphogenic deposits of Victoria, the rift related deposits in New South Wales and magmatic related deposits in Queensland. The gold deposits in Australia may in the future be classified in a tectonogeological framework, similiar to the layout of this dissertation, particularly once further data becomes available on recent discoveries.
- Full Text:
- Date Issued: 1987
Mesopredator release and the effectiveness of camera traps for estimating mammal abundances in the Eastern Cape, South Africa
- Authors: Taylor, Jonathan Michael
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/3587 , vital:20527
- Description: Remotely operated cameras (camera traps) have become an indispensable tool for many ecologists, particularly those studying rare and elusive animals. A plethora of camera trap makes and models are now commercially available, yet the effects of their varying design features on the quality and quantity of data recorded remains principally unknown. Better understanding of differing camera trap designs is needed before adequate management policies can be implemented, especially when the aim is to protect vulnerable and endangered species such as many carnivores. Habitat loss and human conflict has prompted worldwide declines of apex predator populations. Following this, many smaller predators have undergone population ‘explosions’ due to the lack of top-down forcing, a phenomenon known as mesopredator release. Land use changes in the Eastern Cape of South Africa have caused extensive degradation and fragmentation of the Subtropical Thicket Biome. In addition, coupled with anthropogenic persecution, apex predators including lions (Panthera leo), leopards (P. pardus), and brown hyaenas (Hyaena brunnea) have been extirpated from large areas of their historic range. Removal of these apex predators may provide opportunity for mesopredators, such as black-backed jackals (Canis mesomelas) and caracals (Caracal caracal), to be released from top-down forcing and possibly initiate trophic cascade effects. Therefore, using randomly distributed camera traps, my study aimed to explore the quality and quantity of data collected by different camera trap designs, and to investigate the mesopredator release hypothesis in the Eastern Cape of South Africa. A total of 2,989 trap nights was used to compare camera trap designs. Camera traps with narrow detection zones and fast trigger speeds (≤ 0.25 seconds) recorded a higher diversity of carnivores, but there was no significant difference in the relative abundances of carnivore species recorded by different camera trap models. A total of 19,659 trap nights was used to assess mesopredator relative abundance, occupancy, distribution and daily activity patterns at one site with, and one site without, apex predators. Consistent with the mesopredator release hypothesis, black-backed jackal relative abundance was significantly higher in the absence of apex predators, and this was supported by occupancy analyses. Further, black-backed jackal distribution was significantly concentrated in areas where apex predator activity was low, possibly indicating spatial avoidance. There was no significant difference in caracal relative abundance, occupancy, distribution, or daily activity between sites. These results provide the first indication of mesopredator release of blackbacked jackals in the Eastern Cape. The implications of black-backed jackal release including prey population structure, local extinctions, altered seed dispersal and disease dynamics are discussed.
- Full Text:
- Date Issued: 2016
- Authors: Taylor, Jonathan Michael
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/3587 , vital:20527
- Description: Remotely operated cameras (camera traps) have become an indispensable tool for many ecologists, particularly those studying rare and elusive animals. A plethora of camera trap makes and models are now commercially available, yet the effects of their varying design features on the quality and quantity of data recorded remains principally unknown. Better understanding of differing camera trap designs is needed before adequate management policies can be implemented, especially when the aim is to protect vulnerable and endangered species such as many carnivores. Habitat loss and human conflict has prompted worldwide declines of apex predator populations. Following this, many smaller predators have undergone population ‘explosions’ due to the lack of top-down forcing, a phenomenon known as mesopredator release. Land use changes in the Eastern Cape of South Africa have caused extensive degradation and fragmentation of the Subtropical Thicket Biome. In addition, coupled with anthropogenic persecution, apex predators including lions (Panthera leo), leopards (P. pardus), and brown hyaenas (Hyaena brunnea) have been extirpated from large areas of their historic range. Removal of these apex predators may provide opportunity for mesopredators, such as black-backed jackals (Canis mesomelas) and caracals (Caracal caracal), to be released from top-down forcing and possibly initiate trophic cascade effects. Therefore, using randomly distributed camera traps, my study aimed to explore the quality and quantity of data collected by different camera trap designs, and to investigate the mesopredator release hypothesis in the Eastern Cape of South Africa. A total of 2,989 trap nights was used to compare camera trap designs. Camera traps with narrow detection zones and fast trigger speeds (≤ 0.25 seconds) recorded a higher diversity of carnivores, but there was no significant difference in the relative abundances of carnivore species recorded by different camera trap models. A total of 19,659 trap nights was used to assess mesopredator relative abundance, occupancy, distribution and daily activity patterns at one site with, and one site without, apex predators. Consistent with the mesopredator release hypothesis, black-backed jackal relative abundance was significantly higher in the absence of apex predators, and this was supported by occupancy analyses. Further, black-backed jackal distribution was significantly concentrated in areas where apex predator activity was low, possibly indicating spatial avoidance. There was no significant difference in caracal relative abundance, occupancy, distribution, or daily activity between sites. These results provide the first indication of mesopredator release of blackbacked jackals in the Eastern Cape. The implications of black-backed jackal release including prey population structure, local extinctions, altered seed dispersal and disease dynamics are discussed.
- Full Text:
- Date Issued: 2016
A comparative kinetic study of the reaction between chromium nitrate solutions and the carboxyl groups of acetate and collage
- Authors: Russell, Allan Edward
- Date: 1962
- Subjects: Chemical kinetics , Chromium , Spectrophotometry , Electrophoresis
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4493 , http://hdl.handle.net/10962/d1013101
- Description: The kinetics of the coordination reaction between the carboxyl group of the acetate radical and the trivalent chromium ion has been examined by independent methods at a temperature selected to yield reasonably accurate rate data. The study has been extended to an examination of the rate of chromium "fixation" by the carboxyl groups of hide collagen in a series of miniature tannages carried out under similar conditions for comparative purposes. The effect of olation of the chromium ions in solution on the kinetics of t he coordination reaction has also been examined. The rate of coordination of the acetate radical was followed by solvent extraction and spectrophotometric techniques over a range of concentration and pH levels. The rate data revealed a reaction having typical mass-action characteristics, the rate of reaction depending on the concentration levels of the chromium ion and the ionised acetate radical. An attempt made to distinguish a differential reaction rate in the case of a parallel reaction series using boiled and aged chromium nitrate reactant solutions, failed to reveal any significant differences between the series. The reactant solutions gave absorption spectra characteristic of the trivalent chromium ion with maxima in the 420 mµ and 570 mµ wavelength regions. The changes in optical density occurring in the vicinity of the maxima were followed spectrophotometrically, the height of the 570 mµ being found to increase during the course of reaction, while the height of the 420 mµ peak decreased. The variation in optical density at the 570 mµ peak was found to be directly related to the increase in concentration of the product complex in solution in accordance with the Baer-Bougher law, while the decrease in the height of the 420 mµ peak was related to the properties of unolated OH groups associated with the chromium complex as governed by pH and olation changes during the course of reaction. Boiled and aged chromium nitrate solutions gave reactant solutions having initial optical densities greater than those of the correspending fresh reactant solutions at the 570 mµ peak, and less than those of the fresh solutions at the 420 mµ peak. During the course of reaction, however, the two series converged to the same values. The equilibrium reaction solutions were subjected to paper electrophoretic study which indicated that all tho chromium was present in the form of cationic species. This finding was in accordance with stoicheiometric indications in the solvent extraction studies where coordination in a l : 1 ratio was reflected, giving rise to positively charged complex ions only. Making due allowance for band spreading the numbers of species predicted from the kinetic studies correspond with the electrophoretic patterns found. Application of the classical second order kinetic expression to the solvent extraction rate data, yielded plots having two distinctly linear sections, apparently indicating consecutive second order processes occurring in solution, contrary to the findings of previous workers who assign a first order mechanism to the reaction. This finding was consistent with the view that in the case of both the fresh and aged series, reaction consisted of successive coordination of an acetate radical to each chromium atom of a diol complex. Second order rate "constants" were calculated for each step and their dependency on pH level demonstrated. The findings of Hamm et al that these were first order reactions independent of acetate co'ncentration are believed to be due to their use of a large excess of acetate in their experiments. The kinetic study was further extended to an examination of the rate of "fixation"of trivalent chromium by the carboxyl groups of hide collagen under comparable conditions in a series of miniaturv tanning experiments in which the tannage substrate was provided in each of two physical forms:- (a) As hide powder where surface development was large, and (b) as prepared pelt pieces in which the fibrous weave pattern was retained. In view of the heterogeneity of the tannage systems, remarkable similarity was observed in the reaction course when compared with that of the acetate coordination studies, particularly in the case of the hide powder tannages. The dependency of the tannage rate data upon concentration and pH conditions was also found to be the same as in the case of the pure chemical system. The exact correlation between the rate data for the tannage and pure chemical systems was demonstrated by means of correlation plots. Close correlation was revealed in the case of hide powder tannage while the smaller degree of correlation observed in the case of the pelt tannage systems was attributed to the modifying effects of diffusion, particularly on the initial reaction velocity. The effect of using boiled and aged chromium solutions in the tannages was to increase the initial rate of chroniill!l "fixation" apparently due to tho coordination of a dial species at each coordination site. After the initial reaction period, the two series showed a tendency to converge as in the case of the spectrophotometric studies on the acetate reaction. The convergence trend was regarded as indicative of the tendency for the chromium in fresh solutions to under go rapid olation to the ame level as in the boiled and aged solutions. The experimental observations made on the various systems lead to the following conclusions:- (a) The mechanism of coordination of the acetate radical ttrivalent chromium appears to involve the successive coordination of ligand to each of the chromium atoms of a diol complex, both coordination steps proceeding by second order reaction mechanisms. (b) At the pH levels at which the reaction is carried out, the formation of elated bodios is rapid so that reaction in the case of both fresh and aged solutions essentially occurs between an elated species and the ionised acetate radical. (c) Modificati0ns in the absorption spectrum of the reactant solution at the 570 mµ peak are directly related to coordination, while changes at the 420 mµ peak are related to the formation of loosely-bound hydroxo chromium compounds, the concentrations of which depend on the pH level. (d) The mechanism of chromium fixation in hide is essentially similar to that operating in the case of coordination of the acetate radical to chromium, involving attachment of chromium to the side chain acid r sidues of collagen. (e ) The effect of olation is to enhance the rate of chromium fixation by hide protein during the initial reaction stages and to render possible bridge formation between adjacent side chains by secondary coordination during the latter reaction stages. (f) Where pelt pieces are used instead of hide powder, the initial rate of chromium fixation is dominated by the rate of diffusion of chromium into the fibrous structure. It should be stressed that the observations made on the various reaction systems cannot be regarded as exhaustive and the conclusions are subject to further confirmation. Consequently, the present study is essentially of a preliminary nature, but it is felt that the need for further investigation along similar lines has been demonstrated.
- Full Text:
- Date Issued: 1962
- Authors: Russell, Allan Edward
- Date: 1962
- Subjects: Chemical kinetics , Chromium , Spectrophotometry , Electrophoresis
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4493 , http://hdl.handle.net/10962/d1013101
- Description: The kinetics of the coordination reaction between the carboxyl group of the acetate radical and the trivalent chromium ion has been examined by independent methods at a temperature selected to yield reasonably accurate rate data. The study has been extended to an examination of the rate of chromium "fixation" by the carboxyl groups of hide collagen in a series of miniature tannages carried out under similar conditions for comparative purposes. The effect of olation of the chromium ions in solution on the kinetics of t he coordination reaction has also been examined. The rate of coordination of the acetate radical was followed by solvent extraction and spectrophotometric techniques over a range of concentration and pH levels. The rate data revealed a reaction having typical mass-action characteristics, the rate of reaction depending on the concentration levels of the chromium ion and the ionised acetate radical. An attempt made to distinguish a differential reaction rate in the case of a parallel reaction series using boiled and aged chromium nitrate reactant solutions, failed to reveal any significant differences between the series. The reactant solutions gave absorption spectra characteristic of the trivalent chromium ion with maxima in the 420 mµ and 570 mµ wavelength regions. The changes in optical density occurring in the vicinity of the maxima were followed spectrophotometrically, the height of the 570 mµ being found to increase during the course of reaction, while the height of the 420 mµ peak decreased. The variation in optical density at the 570 mµ peak was found to be directly related to the increase in concentration of the product complex in solution in accordance with the Baer-Bougher law, while the decrease in the height of the 420 mµ peak was related to the properties of unolated OH groups associated with the chromium complex as governed by pH and olation changes during the course of reaction. Boiled and aged chromium nitrate solutions gave reactant solutions having initial optical densities greater than those of the correspending fresh reactant solutions at the 570 mµ peak, and less than those of the fresh solutions at the 420 mµ peak. During the course of reaction, however, the two series converged to the same values. The equilibrium reaction solutions were subjected to paper electrophoretic study which indicated that all tho chromium was present in the form of cationic species. This finding was in accordance with stoicheiometric indications in the solvent extraction studies where coordination in a l : 1 ratio was reflected, giving rise to positively charged complex ions only. Making due allowance for band spreading the numbers of species predicted from the kinetic studies correspond with the electrophoretic patterns found. Application of the classical second order kinetic expression to the solvent extraction rate data, yielded plots having two distinctly linear sections, apparently indicating consecutive second order processes occurring in solution, contrary to the findings of previous workers who assign a first order mechanism to the reaction. This finding was consistent with the view that in the case of both the fresh and aged series, reaction consisted of successive coordination of an acetate radical to each chromium atom of a diol complex. Second order rate "constants" were calculated for each step and their dependency on pH level demonstrated. The findings of Hamm et al that these were first order reactions independent of acetate co'ncentration are believed to be due to their use of a large excess of acetate in their experiments. The kinetic study was further extended to an examination of the rate of "fixation"of trivalent chromium by the carboxyl groups of hide collagen under comparable conditions in a series of miniaturv tanning experiments in which the tannage substrate was provided in each of two physical forms:- (a) As hide powder where surface development was large, and (b) as prepared pelt pieces in which the fibrous weave pattern was retained. In view of the heterogeneity of the tannage systems, remarkable similarity was observed in the reaction course when compared with that of the acetate coordination studies, particularly in the case of the hide powder tannages. The dependency of the tannage rate data upon concentration and pH conditions was also found to be the same as in the case of the pure chemical system. The exact correlation between the rate data for the tannage and pure chemical systems was demonstrated by means of correlation plots. Close correlation was revealed in the case of hide powder tannage while the smaller degree of correlation observed in the case of the pelt tannage systems was attributed to the modifying effects of diffusion, particularly on the initial reaction velocity. The effect of using boiled and aged chromium solutions in the tannages was to increase the initial rate of chroniill!l "fixation" apparently due to tho coordination of a dial species at each coordination site. After the initial reaction period, the two series showed a tendency to converge as in the case of the spectrophotometric studies on the acetate reaction. The convergence trend was regarded as indicative of the tendency for the chromium in fresh solutions to under go rapid olation to the ame level as in the boiled and aged solutions. The experimental observations made on the various systems lead to the following conclusions:- (a) The mechanism of coordination of the acetate radical ttrivalent chromium appears to involve the successive coordination of ligand to each of the chromium atoms of a diol complex, both coordination steps proceeding by second order reaction mechanisms. (b) At the pH levels at which the reaction is carried out, the formation of elated bodios is rapid so that reaction in the case of both fresh and aged solutions essentially occurs between an elated species and the ionised acetate radical. (c) Modificati0ns in the absorption spectrum of the reactant solution at the 570 mµ peak are directly related to coordination, while changes at the 420 mµ peak are related to the formation of loosely-bound hydroxo chromium compounds, the concentrations of which depend on the pH level. (d) The mechanism of chromium fixation in hide is essentially similar to that operating in the case of coordination of the acetate radical to chromium, involving attachment of chromium to the side chain acid r sidues of collagen. (e ) The effect of olation is to enhance the rate of chromium fixation by hide protein during the initial reaction stages and to render possible bridge formation between adjacent side chains by secondary coordination during the latter reaction stages. (f) Where pelt pieces are used instead of hide powder, the initial rate of chromium fixation is dominated by the rate of diffusion of chromium into the fibrous structure. It should be stressed that the observations made on the various reaction systems cannot be regarded as exhaustive and the conclusions are subject to further confirmation. Consequently, the present study is essentially of a preliminary nature, but it is felt that the need for further investigation along similar lines has been demonstrated.
- Full Text:
- Date Issued: 1962
A comparison of nesting behaviour and prey selection in some Southern African species of Ammophila (Hymenoptera : Sphecidae)
- Authors: Weaving, Alan James Shelley
- Date: 1987
- Subjects: Hymenoptera
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5600 , http://hdl.handle.net/10962/d1002050
- Description: Nesting behaviour and prey selection was compared in eight species of Ammophila. The frequent sympatry of these species was a central point of interest in the study. Nest siting differed markedly in several species. A. ferrugineipes, A. dolichodera, A. dolichocephala and, probably, A. conifera nested mostly in open habitats, this being regarded as the most common situation for the majority of Ammophila. A. beniniensis was unusual in nesting in well vegetated habitats, A. vulcania doing so amongst small clumps of vegetation in otherwise open habitats. A. insignis nested in vertical banks or old animal burrows and A. braunsi utilised abandoned burrows of other wasps situated in non-friable clay soils. This is the first time such nest siting has been reported for Ammophila and each of these two species is consequently unique. Many aspects of nest construction behaviour, in particular methods of soil waste disposal, sealing of nests and their final coverage, differed interspecifically, in some cases intraspecifically, but often apparently in response to the habitat. With regard to nest provisioning strategies, all species hunted after digging their nests, except A. dolichodera which is the first Afrotropical Ammophila reported to hunt before excavating its nest. This brings the total number of the world's species of Ammophila showing this behaviour to three. This species, A. beniniensis, A. braunsi and A. vulcania provided one caterpillar per nest; the others supplied several, A. insignis being the only mass provisioner. A. ferrugineipes showed a form of progressive provisioning and maintained several nests at a time; it is the only Afrotropical species known so far to do so. Only two extra-limital species have been reported showing similar behaviour. The observed variations in provisioning strategies can most easily be explained in relation to the habitat. Investigation of prey selection showed that there was very little interspecific overlap in the species of caterpillars used for provisioning nests. This was shown to be due mainly to differing hunting habitat preferences. The various overall patterns of nesting behaviour, and variations in the different components within these patterns, were considered most likely to have resulted from allopatric speciation in different types of vegetation, the more advanced patterns arising in open habitats. The frequent occurrence of sympatry appears to be a reflection of a shifting distribution of mosaic patterns of vegetation types and the post-speciation spread of species. This influence of habitat on behaviour and prey selection has emphasised the need for caution in drawing phylogenetic conclusions from ethology. Further, these considerations provide an alternative to competition in attempting to explain the observed behaviour patterns and distribution of these wasps.
- Full Text:
- Date Issued: 1987
- Authors: Weaving, Alan James Shelley
- Date: 1987
- Subjects: Hymenoptera
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5600 , http://hdl.handle.net/10962/d1002050
- Description: Nesting behaviour and prey selection was compared in eight species of Ammophila. The frequent sympatry of these species was a central point of interest in the study. Nest siting differed markedly in several species. A. ferrugineipes, A. dolichodera, A. dolichocephala and, probably, A. conifera nested mostly in open habitats, this being regarded as the most common situation for the majority of Ammophila. A. beniniensis was unusual in nesting in well vegetated habitats, A. vulcania doing so amongst small clumps of vegetation in otherwise open habitats. A. insignis nested in vertical banks or old animal burrows and A. braunsi utilised abandoned burrows of other wasps situated in non-friable clay soils. This is the first time such nest siting has been reported for Ammophila and each of these two species is consequently unique. Many aspects of nest construction behaviour, in particular methods of soil waste disposal, sealing of nests and their final coverage, differed interspecifically, in some cases intraspecifically, but often apparently in response to the habitat. With regard to nest provisioning strategies, all species hunted after digging their nests, except A. dolichodera which is the first Afrotropical Ammophila reported to hunt before excavating its nest. This brings the total number of the world's species of Ammophila showing this behaviour to three. This species, A. beniniensis, A. braunsi and A. vulcania provided one caterpillar per nest; the others supplied several, A. insignis being the only mass provisioner. A. ferrugineipes showed a form of progressive provisioning and maintained several nests at a time; it is the only Afrotropical species known so far to do so. Only two extra-limital species have been reported showing similar behaviour. The observed variations in provisioning strategies can most easily be explained in relation to the habitat. Investigation of prey selection showed that there was very little interspecific overlap in the species of caterpillars used for provisioning nests. This was shown to be due mainly to differing hunting habitat preferences. The various overall patterns of nesting behaviour, and variations in the different components within these patterns, were considered most likely to have resulted from allopatric speciation in different types of vegetation, the more advanced patterns arising in open habitats. The frequent occurrence of sympatry appears to be a reflection of a shifting distribution of mosaic patterns of vegetation types and the post-speciation spread of species. This influence of habitat on behaviour and prey selection has emphasised the need for caution in drawing phylogenetic conclusions from ethology. Further, these considerations provide an alternative to competition in attempting to explain the observed behaviour patterns and distribution of these wasps.
- Full Text:
- Date Issued: 1987
Quantification of pre-competitive sleep/wake behaviour in a sample of South African cyclists
- Authors: Steenekamp, Travis
- Date: 2018
- Subjects: Sleep deprivation , Cyclists Health and hygiene South Africa , Sleep Physiological aspects , Performance , Performance anxiety
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/59015 , vital:27408
- Description: The quantification of athlete pre-competitive sleep behaviour is of interest owing to the possibility that sleep loss may have a negative effect on health and performance. The purpose of this study was to monitor and quantify the sleep/wake patterns of South African cyclists prior to competitive races. A total of 336 cyclists, male and female and of differing competition levels, cycling in either the 2015 Tsogo Sun Amashova or the 2016 Telkom 94.7 Cycle Challenge completed an altered version of the Competitive Sports and Sleep Questionnaire. The questionnaire asked cyclists to report on precompetitive sleep over the past year. A subset of 92 cyclists also recorded a Core Consensus Sleep Diary for the three nights leading up to the races. The questionnaire showed that 67% of the cyclists reported worsened sleep at least once prior to competition within the past 12 months. The sleep diary found that the cyclists’ average sleep duration the night before the races was 6h19min (±1h38min), which was significantly less than two and three nights prior to the races. Sleep quality was also shown to deteriorate significantly the night before the races. The contributing factors leading to worsened pre-competitive sleep were the time the cyclists had to wake-up as well as perceived increases in sleep latency and awakenings after sleep onset. Anxiety was found to be the major cause of sleep disturbances. While females were found to be significantly more likely to report having experienced poorer sleep before competition in the past year, the sleep diary showed no difference in sleep the night before the races between the sexes. Females were significantly more likely to report instances of unpleasant dreams and waking up during the night. Again, the sleep diary data did not corroborate these findings. Females were also found to report significantly more accounts of nervousness or thoughts about competition as being the cause of sleep problems. There was no difference in sleep loss the night before competition when comparing competition-level groups. The only significant difference was that recreational cyclists were more likely to report sleeping in foreign environments as a cause of sleep disturbances. Despite a large percentage of cyclists experiencing pre-competitive sleep loss, over half (55%) perceived sleep loss to have no impact on their performance. Analysis of pre-sleep behaviour also revealed that the cyclists engaged in several practices that may have a negative effect on subsequent sleep. The vast majority of the cyclists (61%) indicated having no specific strategy to help them sleep the night before competition. Fifteen percent of cyclists reporting using media devices to help them fall asleep, a practice that has been shown to disrupt sleep. In conclusion, most cyclists, regardless of sex and level of competition experience precompetitive sleep loss attributed largely to anxiety but with the perception that this loss in sleep does not negatively impact their performance.
- Full Text:
- Date Issued: 2018
- Authors: Steenekamp, Travis
- Date: 2018
- Subjects: Sleep deprivation , Cyclists Health and hygiene South Africa , Sleep Physiological aspects , Performance , Performance anxiety
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/59015 , vital:27408
- Description: The quantification of athlete pre-competitive sleep behaviour is of interest owing to the possibility that sleep loss may have a negative effect on health and performance. The purpose of this study was to monitor and quantify the sleep/wake patterns of South African cyclists prior to competitive races. A total of 336 cyclists, male and female and of differing competition levels, cycling in either the 2015 Tsogo Sun Amashova or the 2016 Telkom 94.7 Cycle Challenge completed an altered version of the Competitive Sports and Sleep Questionnaire. The questionnaire asked cyclists to report on precompetitive sleep over the past year. A subset of 92 cyclists also recorded a Core Consensus Sleep Diary for the three nights leading up to the races. The questionnaire showed that 67% of the cyclists reported worsened sleep at least once prior to competition within the past 12 months. The sleep diary found that the cyclists’ average sleep duration the night before the races was 6h19min (±1h38min), which was significantly less than two and three nights prior to the races. Sleep quality was also shown to deteriorate significantly the night before the races. The contributing factors leading to worsened pre-competitive sleep were the time the cyclists had to wake-up as well as perceived increases in sleep latency and awakenings after sleep onset. Anxiety was found to be the major cause of sleep disturbances. While females were found to be significantly more likely to report having experienced poorer sleep before competition in the past year, the sleep diary showed no difference in sleep the night before the races between the sexes. Females were significantly more likely to report instances of unpleasant dreams and waking up during the night. Again, the sleep diary data did not corroborate these findings. Females were also found to report significantly more accounts of nervousness or thoughts about competition as being the cause of sleep problems. There was no difference in sleep loss the night before competition when comparing competition-level groups. The only significant difference was that recreational cyclists were more likely to report sleeping in foreign environments as a cause of sleep disturbances. Despite a large percentage of cyclists experiencing pre-competitive sleep loss, over half (55%) perceived sleep loss to have no impact on their performance. Analysis of pre-sleep behaviour also revealed that the cyclists engaged in several practices that may have a negative effect on subsequent sleep. The vast majority of the cyclists (61%) indicated having no specific strategy to help them sleep the night before competition. Fifteen percent of cyclists reporting using media devices to help them fall asleep, a practice that has been shown to disrupt sleep. In conclusion, most cyclists, regardless of sex and level of competition experience precompetitive sleep loss attributed largely to anxiety but with the perception that this loss in sleep does not negatively impact their performance.
- Full Text:
- Date Issued: 2018
Aspects of the geochemistry of the Karroo dolerites and basalts of the north-eastern Cape
- Authors: Robey, Julian van Aardt
- Date: 1976
- Subjects: Diabase -- South Africa -- Cape of Good Hope , Basalt -- South Africa -- Cape of Good Hope , Geochemistry -- South Africa -- Cape of Good Hope
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5060 , http://hdl.handle.net/10962/d1013070
- Description: The Birds River Gabbro Complex is intruded into sediments of the Karroo Stormberg Group in the area SW of Dordrecht in the northeastern Cape. A geochemical investigation, restricted to the igneous rock suite, gabbro-ferrogabbro-ferrotholeiite, presents new major-element data as well as data for twelve trace elements - Ba, Sr, Rb, Zr, Y, Nb , Zn, Cu, Ni, Co, V and Cr. The strong degree of differentiation of Kokstad-type tholeiitic magma in the Birds River intrusion, as noted by previous investigators, is revealed in variation diagrams in which data are plotted against a simple index of fractionation. Later differentiates are strongly enriched in Si, Ti, Fe, Na, K, P, Ba, Rb, Zr, Y, Nb, Zn and Cu but depleted in Mg, Ca, AI, Ni, Co and Cr. Extreme differentiation resulted in a strong depletion of Ti, Fe, P, Cu and V in the most highly evolved ferrotholeiites. Field evidence suggests the initial emplacement of strongly fractionated magmatic residua derived from fractional crystallization processes in a magma chamber at depth during cauldron subsidence of a mass of sediments within an annular fracture. These porphyritic, in part glassy, ferrotholeiites are enriched in Si, Na, K, Ba, Zr, Rb, Y, Nb and Zn and were engulfed by a later episode of renewed hypabyssal intrusive activity from the original source area. The younger gabbro was emplaced in a series of closely-spaced heaves or pulses of relatively undifferentiated Kokstad-type magma. The gabbro differentiated in place to form ferrogabbros which chemically closely approximate ferrotholeiite compositions. toidal facies. Residual liquids crystallized as a pegmatoidal facies. A simple fractional crystallization path, modelled on the assumption that the gabbro and ferrotholeiite form a continuous series, indicates that the least evolved ferrotholeiite can be derived from the initial gabbro composition by the fractionation of major amounts of plagioclase and pyroxene but lesser amounts of olivine. Crystallization and removal of magnetite and other Fe-oxides were relatively more important during the later stages of differentiation. The variation of major- and trace-elements in tholeiitic Karroo magma under conditions of strong differentiation at Birds River serves as a framework for the regional study of the geochemistry of other Karroo dolerites and volcanics of the north-eastern Cape. New geochemical data are presented for a sample of thirty chilled and coarse-grained Karroo dolerites collected throughout the north eastern Cape. For the most part, the chilled dolerites are relatively undifferentiated and the average composition differs only slightly from that determined by Walker and Poldervaart (1949). Variation diagrams reveal the steady increase in Si, Al, Ca, Na, K and P and the residual trace elements Ba, Zr, Rb, Y, Nb and Zn with increasing differentiation of the dolerites from more basic types. The concentrations of K, Ba and Rb are highly variable in some Karroo dolerites while new data suggest that Nb levels in the dolerites are low, being generally less than 10 ppm. The strong variation of the K-related elements (K, Ba and Rb) as well as the large ranges determined for certain inter-element ratios, such as K/Rb, Zr/Nb and K/Zr in the chilled Karroo dolerites, suggest that factors other than fractional crystallization processes need to be considered to account for individual variations. Little correlation exists between petrographic type as defined by Walker and Poldervaart (1949) and geochemical character. New geochemical data are also presented for ten Karroo basaltic lavas from the lowermost horizons of the lava sequence exposed in the Barkly East area. Major- and trace-element data indicate that these earliest Karroo extrusives are on average enriched in Si and Rb but depleted in Co and Ni when compared with the averaged chilled Karroo dolerite. Compared with basalts from Lesotho, the Barkly East basalts are enriched in Si but depleted in Ni and possibly Nb, Cu and V. The andesite is markedly enriched in Si, Na, K, Ba, Sr, Rb, Zr and Nb but depleted in Mg, Ca, V, Ni , Cu, Co and Cr. The subdued rate of Ni depletion and the absence of olivine as a major phenocryst phase in the series basalt to andesite, in the Barkly East area, suggests that differentiation trends may be controlled by the fractional crystallization of orthopyroxene and plagioclase, the two common phenocrysts present in these volcanics. The strong depletion of V and Cu in the andesite may indicate some magnetite removal during fractional crystallization.
- Full Text:
- Date Issued: 1976
- Authors: Robey, Julian van Aardt
- Date: 1976
- Subjects: Diabase -- South Africa -- Cape of Good Hope , Basalt -- South Africa -- Cape of Good Hope , Geochemistry -- South Africa -- Cape of Good Hope
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5060 , http://hdl.handle.net/10962/d1013070
- Description: The Birds River Gabbro Complex is intruded into sediments of the Karroo Stormberg Group in the area SW of Dordrecht in the northeastern Cape. A geochemical investigation, restricted to the igneous rock suite, gabbro-ferrogabbro-ferrotholeiite, presents new major-element data as well as data for twelve trace elements - Ba, Sr, Rb, Zr, Y, Nb , Zn, Cu, Ni, Co, V and Cr. The strong degree of differentiation of Kokstad-type tholeiitic magma in the Birds River intrusion, as noted by previous investigators, is revealed in variation diagrams in which data are plotted against a simple index of fractionation. Later differentiates are strongly enriched in Si, Ti, Fe, Na, K, P, Ba, Rb, Zr, Y, Nb, Zn and Cu but depleted in Mg, Ca, AI, Ni, Co and Cr. Extreme differentiation resulted in a strong depletion of Ti, Fe, P, Cu and V in the most highly evolved ferrotholeiites. Field evidence suggests the initial emplacement of strongly fractionated magmatic residua derived from fractional crystallization processes in a magma chamber at depth during cauldron subsidence of a mass of sediments within an annular fracture. These porphyritic, in part glassy, ferrotholeiites are enriched in Si, Na, K, Ba, Zr, Rb, Y, Nb and Zn and were engulfed by a later episode of renewed hypabyssal intrusive activity from the original source area. The younger gabbro was emplaced in a series of closely-spaced heaves or pulses of relatively undifferentiated Kokstad-type magma. The gabbro differentiated in place to form ferrogabbros which chemically closely approximate ferrotholeiite compositions. toidal facies. Residual liquids crystallized as a pegmatoidal facies. A simple fractional crystallization path, modelled on the assumption that the gabbro and ferrotholeiite form a continuous series, indicates that the least evolved ferrotholeiite can be derived from the initial gabbro composition by the fractionation of major amounts of plagioclase and pyroxene but lesser amounts of olivine. Crystallization and removal of magnetite and other Fe-oxides were relatively more important during the later stages of differentiation. The variation of major- and trace-elements in tholeiitic Karroo magma under conditions of strong differentiation at Birds River serves as a framework for the regional study of the geochemistry of other Karroo dolerites and volcanics of the north-eastern Cape. New geochemical data are presented for a sample of thirty chilled and coarse-grained Karroo dolerites collected throughout the north eastern Cape. For the most part, the chilled dolerites are relatively undifferentiated and the average composition differs only slightly from that determined by Walker and Poldervaart (1949). Variation diagrams reveal the steady increase in Si, Al, Ca, Na, K and P and the residual trace elements Ba, Zr, Rb, Y, Nb and Zn with increasing differentiation of the dolerites from more basic types. The concentrations of K, Ba and Rb are highly variable in some Karroo dolerites while new data suggest that Nb levels in the dolerites are low, being generally less than 10 ppm. The strong variation of the K-related elements (K, Ba and Rb) as well as the large ranges determined for certain inter-element ratios, such as K/Rb, Zr/Nb and K/Zr in the chilled Karroo dolerites, suggest that factors other than fractional crystallization processes need to be considered to account for individual variations. Little correlation exists between petrographic type as defined by Walker and Poldervaart (1949) and geochemical character. New geochemical data are also presented for ten Karroo basaltic lavas from the lowermost horizons of the lava sequence exposed in the Barkly East area. Major- and trace-element data indicate that these earliest Karroo extrusives are on average enriched in Si and Rb but depleted in Co and Ni when compared with the averaged chilled Karroo dolerite. Compared with basalts from Lesotho, the Barkly East basalts are enriched in Si but depleted in Ni and possibly Nb, Cu and V. The andesite is markedly enriched in Si, Na, K, Ba, Sr, Rb, Zr and Nb but depleted in Mg, Ca, V, Ni , Cu, Co and Cr. The subdued rate of Ni depletion and the absence of olivine as a major phenocryst phase in the series basalt to andesite, in the Barkly East area, suggests that differentiation trends may be controlled by the fractional crystallization of orthopyroxene and plagioclase, the two common phenocrysts present in these volcanics. The strong depletion of V and Cu in the andesite may indicate some magnetite removal during fractional crystallization.
- Full Text:
- Date Issued: 1976
The use of Landsat ETM imagery as a suitable data capture source for alien acacia species for the WFW programme
- Authors: Cobbing, Benedict Louis
- Date: 2007
- Subjects: Geographic information systems , Global Positioning System , Landsat satellites , Agriculture -- Remote sensing , Geography -- Remote sensing
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4856 , http://hdl.handle.net/10962/d1005532 , Geographic information systems , Global Positioning System , Landsat satellites , Agriculture -- Remote sensing , Geography -- Remote sensing
- Description: Geographic Information System technology today allows for the rapid analysis of vast amounts of spatial and non-spatial data. The power of a GIS can only be effected with the rapid collection of accurate input data. This is particularly true in the case of the South African National Working for Water (WFW) Programme where large volumes of spatial data on alien vegetation infestations are captured throughout the country. Alien vegetation clearing contracts cannot be generated, for WFW, without this data, so that the accurate capture of such data is crucial to the success of the programme. Mapping Invasive Alien Plant (IAP) data within WFW is a perennial problem (Coetzee, pers com, 2002), because not enough mapping is being done to meet the annual requirements of the programme in the various provinces. This is re-iterated by Richardson, 2004, who states that there is a shortage of accurate data on IAP abundance in South Africa. Therefore there is a need to investigate alternate methods of data capture; such as remote sensing, whilst working within the existing WFW data capture standards. The aim of this research was to investigate the use of Landsat ETM imagery as a data capture source for mapping alien vegetation for the WFW Programme in terms of their approved mapping methods, for both automated and manual classification techniques. The automated and manual classification results were compared to control data captured by differential Global Positioning Systems (DGPS). The research tested the various methods of data capture using Landsat ETM images over a range of study sites of varying complexity: a simple grassland area, a medium complexity grassy fynbos site and a complicated indigenous forest site. An important component of the research was to develop a mapping (classification) Ranking System based upon variables identified by WFW as fundamental in data capture decision making: spatial and positional accuracy, time constraints and cost constraints for three typical alien invaded areas. The mapping Ranking System compared the results of the various mapping methods for each factor for the study sites against each other. This provided an indication of which mapping method is the most efficient or suitable for a particular area.
- Full Text:
- Date Issued: 2007
- Authors: Cobbing, Benedict Louis
- Date: 2007
- Subjects: Geographic information systems , Global Positioning System , Landsat satellites , Agriculture -- Remote sensing , Geography -- Remote sensing
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4856 , http://hdl.handle.net/10962/d1005532 , Geographic information systems , Global Positioning System , Landsat satellites , Agriculture -- Remote sensing , Geography -- Remote sensing
- Description: Geographic Information System technology today allows for the rapid analysis of vast amounts of spatial and non-spatial data. The power of a GIS can only be effected with the rapid collection of accurate input data. This is particularly true in the case of the South African National Working for Water (WFW) Programme where large volumes of spatial data on alien vegetation infestations are captured throughout the country. Alien vegetation clearing contracts cannot be generated, for WFW, without this data, so that the accurate capture of such data is crucial to the success of the programme. Mapping Invasive Alien Plant (IAP) data within WFW is a perennial problem (Coetzee, pers com, 2002), because not enough mapping is being done to meet the annual requirements of the programme in the various provinces. This is re-iterated by Richardson, 2004, who states that there is a shortage of accurate data on IAP abundance in South Africa. Therefore there is a need to investigate alternate methods of data capture; such as remote sensing, whilst working within the existing WFW data capture standards. The aim of this research was to investigate the use of Landsat ETM imagery as a data capture source for mapping alien vegetation for the WFW Programme in terms of their approved mapping methods, for both automated and manual classification techniques. The automated and manual classification results were compared to control data captured by differential Global Positioning Systems (DGPS). The research tested the various methods of data capture using Landsat ETM images over a range of study sites of varying complexity: a simple grassland area, a medium complexity grassy fynbos site and a complicated indigenous forest site. An important component of the research was to develop a mapping (classification) Ranking System based upon variables identified by WFW as fundamental in data capture decision making: spatial and positional accuracy, time constraints and cost constraints for three typical alien invaded areas. The mapping Ranking System compared the results of the various mapping methods for each factor for the study sites against each other. This provided an indication of which mapping method is the most efficient or suitable for a particular area.
- Full Text:
- Date Issued: 2007
Application of the Baylis-Hillman methodology in the construction of novel heterocyclic derivatives
- Authors: Nyoni, Dubekile
- Date: 2008
- Subjects: Heterocyclic compounds -- Derivatives
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4402 , http://hdl.handle.net/10962/d1006704
- Description: Baylis-Hillman reactions of 2,2’-dithiodibenzaldehyde with the acyclic alkenes, methyl vinyl ketone (MVK) and methyl acrylate have afforded the thiochromene derivatives in moderate yields, and this approach has been extended to the use of the cyclic alkenes, 2-cyclohexenone and 2-cyclopentenone to afford the tricyclic analogues. In all cases, reduction of the disulphide link and intramolecular cyclisation occurred in situ, and a preliminary kinetic study of this reaction using the acyclic substrates MVK and methyl acrylate was undertaken with the aim of elucidating the mechanism involved. The results obtained showed that the consumption of both 2,2’-dithiodibenzaldehyde and MVK and/or methyl acrylate followed 1st-order kinetics during the initial stages of the reaction, but then deviated from 1st-order linearity. The reaction with methyl acrylate was much slower than with MVK, and the kinetic data indicates the mechanism to be more complex than anticipated. Conjugate addition reactions of methyl acrylate-derived 2-nitrobenzaldehyde Baylis-Hillman adducts with the amines, piperidine and benzylamine, afforded a range of conjugate addition products as diastereomeric mixtures in excellent yield (80-100%). Catalytic hydrogenation of the conjugate addition products using a Pd-C catalyst in ethanol, has afforded the corresponding, novel 3-amino-2-quinolone derivatives in lower yield (22-37%).The application of [superscript 13]C NMR prediction programmes to selected compounds synthesized in this study has revealed reasonable correlations between the experimental and predicted values.
- Full Text:
- Date Issued: 2008
- Authors: Nyoni, Dubekile
- Date: 2008
- Subjects: Heterocyclic compounds -- Derivatives
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:4402 , http://hdl.handle.net/10962/d1006704
- Description: Baylis-Hillman reactions of 2,2’-dithiodibenzaldehyde with the acyclic alkenes, methyl vinyl ketone (MVK) and methyl acrylate have afforded the thiochromene derivatives in moderate yields, and this approach has been extended to the use of the cyclic alkenes, 2-cyclohexenone and 2-cyclopentenone to afford the tricyclic analogues. In all cases, reduction of the disulphide link and intramolecular cyclisation occurred in situ, and a preliminary kinetic study of this reaction using the acyclic substrates MVK and methyl acrylate was undertaken with the aim of elucidating the mechanism involved. The results obtained showed that the consumption of both 2,2’-dithiodibenzaldehyde and MVK and/or methyl acrylate followed 1st-order kinetics during the initial stages of the reaction, but then deviated from 1st-order linearity. The reaction with methyl acrylate was much slower than with MVK, and the kinetic data indicates the mechanism to be more complex than anticipated. Conjugate addition reactions of methyl acrylate-derived 2-nitrobenzaldehyde Baylis-Hillman adducts with the amines, piperidine and benzylamine, afforded a range of conjugate addition products as diastereomeric mixtures in excellent yield (80-100%). Catalytic hydrogenation of the conjugate addition products using a Pd-C catalyst in ethanol, has afforded the corresponding, novel 3-amino-2-quinolone derivatives in lower yield (22-37%).The application of [superscript 13]C NMR prediction programmes to selected compounds synthesized in this study has revealed reasonable correlations between the experimental and predicted values.
- Full Text:
- Date Issued: 2008