Consumer perceptions and microbial quality of meat sold in the informal markets of Nkonkobe and Buffalo City municipalities in the Eastern province, South Africa
- Authors: Mazizi, Bulelani Elvis
- Date: 2016
- Subjects: Meat -- Quality -- South Africa --Eastern Cape
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/15365 , vital:40401
- Description: The main objective of the study was to determine consumer perceptions and microbial quality of meat sold in the informal markets found in Nkonkobe and Buffalo City Municipalities in the Eastern Cape Province, South Africa. To determine consumer perceptions of the quality of the meat and meat products sold in the informal markets in Nkonkobe and Buffalo City Municipalities, a survey was conducted. A total of 160 consumers from two municipalities in the Eastern Cape (EC) Province of South Africa was randomly sampled and interviewed. A questionnaire was used to gather information about consumer perceptions of meat and meat products sold in the informal markets regarding their knowledge about safety, food-borne diseases, hygiene, and the quality of the meat among others. The study showed that Alice Town has a larger (66.25percent) proportion of consumers with knowledge about foodborne diseases while King Williams’s Town had a larger proportion (48.75percent) of respondents who had no knowledge about Food-borne diseases. However, a large proportion of consumers in King Williams’s Town considered vendor (82.5percent) and environmental hygiene (93.75percent) than in Alice Town. Consumers (83.75percent) in King Williams’s Town viewed the meat from street vendors to be of low quality while a small proportion (18.75percent) of consumers in Alice Town viewed it as the meat of good quality. Alice had a large proportion (61.25percent) of consumers, which had knowledge of the meat safety law than King Williams’s Town. More consumers from King Williams’s Town (31.25percent) agreed that government plays a role while Alice had a small proportion (26.25percent) which disagreed. The results also showed that consumer perceptions about the safety of meat and meat products are focused more on hygiene, neglecting other important aspects such as vending infrastructure. However, most consumers do not have enough knowledge concerning meat safety. The second study determined the microbial quality of meat sold by street vendors based in Alice and Kind Williams Town in the Eastern Cape Province South Africa. A total of 48 fresh and uncooked meat samples (beef, pork, and mutton), 48 surface contact plates and 40 water samples was collected from 4 street vendors from each town for microbial analysis (n=48). After collection, all samples were subjected to Aerobic plate count (APC), Salmonella spp, Staphylococcus aureus (Staph) and Escherichia coli (E. coli). The results revealed that Salmonella spp tested negative across all the meat samples used in the study. However, no significant differences were found in the microbial quality of meat sold by street vendors in Alice and King Williams town. Furthermore, there were no significant differences (P>0.05) between the APC of raw beef (4.8 Log CFU/g), mutton (3.7 Log CFU/g) and pork (2.8 Log CFU/g) and also the cooked beef (1.5 Log CFU/g), mutton (1.3 Log CFU/g) and pork (1.9 Log CFU/g) samples. A similar trend was observed in the values of Staphylococcus aureus (Staph) and Escherichia coli (E. coli) counts in raw and cooked meat samples. However, a positive correlation between Aerobic plate counts (APC) and Staphylococcus aureus (Staph) (P<0.001) and Escherichia coli (E. coli) (P<0.01) was found in the study. It can, therefore, be concluded that there were no differences in the microbial counts of raw and cooked meat sold in the informal markets of Nkonkobe and Buffalo City Municipalities in the Eastern Cape Province, South Africa.
- Full Text:
- Date Issued: 2016
- Authors: Mazizi, Bulelani Elvis
- Date: 2016
- Subjects: Meat -- Quality -- South Africa --Eastern Cape
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/15365 , vital:40401
- Description: The main objective of the study was to determine consumer perceptions and microbial quality of meat sold in the informal markets found in Nkonkobe and Buffalo City Municipalities in the Eastern Cape Province, South Africa. To determine consumer perceptions of the quality of the meat and meat products sold in the informal markets in Nkonkobe and Buffalo City Municipalities, a survey was conducted. A total of 160 consumers from two municipalities in the Eastern Cape (EC) Province of South Africa was randomly sampled and interviewed. A questionnaire was used to gather information about consumer perceptions of meat and meat products sold in the informal markets regarding their knowledge about safety, food-borne diseases, hygiene, and the quality of the meat among others. The study showed that Alice Town has a larger (66.25percent) proportion of consumers with knowledge about foodborne diseases while King Williams’s Town had a larger proportion (48.75percent) of respondents who had no knowledge about Food-borne diseases. However, a large proportion of consumers in King Williams’s Town considered vendor (82.5percent) and environmental hygiene (93.75percent) than in Alice Town. Consumers (83.75percent) in King Williams’s Town viewed the meat from street vendors to be of low quality while a small proportion (18.75percent) of consumers in Alice Town viewed it as the meat of good quality. Alice had a large proportion (61.25percent) of consumers, which had knowledge of the meat safety law than King Williams’s Town. More consumers from King Williams’s Town (31.25percent) agreed that government plays a role while Alice had a small proportion (26.25percent) which disagreed. The results also showed that consumer perceptions about the safety of meat and meat products are focused more on hygiene, neglecting other important aspects such as vending infrastructure. However, most consumers do not have enough knowledge concerning meat safety. The second study determined the microbial quality of meat sold by street vendors based in Alice and Kind Williams Town in the Eastern Cape Province South Africa. A total of 48 fresh and uncooked meat samples (beef, pork, and mutton), 48 surface contact plates and 40 water samples was collected from 4 street vendors from each town for microbial analysis (n=48). After collection, all samples were subjected to Aerobic plate count (APC), Salmonella spp, Staphylococcus aureus (Staph) and Escherichia coli (E. coli). The results revealed that Salmonella spp tested negative across all the meat samples used in the study. However, no significant differences were found in the microbial quality of meat sold by street vendors in Alice and King Williams town. Furthermore, there were no significant differences (P>0.05) between the APC of raw beef (4.8 Log CFU/g), mutton (3.7 Log CFU/g) and pork (2.8 Log CFU/g) and also the cooked beef (1.5 Log CFU/g), mutton (1.3 Log CFU/g) and pork (1.9 Log CFU/g) samples. A similar trend was observed in the values of Staphylococcus aureus (Staph) and Escherichia coli (E. coli) counts in raw and cooked meat samples. However, a positive correlation between Aerobic plate counts (APC) and Staphylococcus aureus (Staph) (P<0.001) and Escherichia coli (E. coli) (P<0.01) was found in the study. It can, therefore, be concluded that there were no differences in the microbial counts of raw and cooked meat sold in the informal markets of Nkonkobe and Buffalo City Municipalities in the Eastern Cape Province, South Africa.
- Full Text:
- Date Issued: 2016
Controls on the distribution of manganese in banded iron-formations (BIF) of the palaeoproterozoic transvaal supergroup, South Africa
- Authors: Fryer, Lindi
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/2926 , vital:20343
- Description: The 2.65 to 2.05 Ga Transvaal Supergroup comprises one of the best-preserved and largely continuous successions in the world of Banded Iron-Formation (BIF), a chemical sedimentary rock composed of fine (mm to cm scale) interbanded iron-rich and iron-poor bands, developed atop the Archaean Kaapvaal Craton of southern Africa. The Transvaal BIF sequence contains at its upper stratigraphic part, an intriguing interlayered BIF-Mn association, namely the Hotazel Formation in the Kalahari Manganese Field, which constitutes the largest land-based manganese deposit on record. The genesis of the Hotazel deposits, and their exact significance in terms of atmosphere-hydrosphere-biosphere evolution, remain as elusive as they are challenging. In this thesis, an attempt is made to illuminate the origin and diagenesis of the Hotazel Formation and its post-depositional hydrothermal modification, through a highresolution geochemical study of the narrowest of the three BIF-Mn sedimentary cycles present in the Hotazel stratigraphy. This approach is coupled with a preliminary geochemical study of the distribution of Mn in older BIF of the Transvaal Supergroup as well (Kuruman and Griquatown Formations), so as to test recent models that causally link all BIFs in the Transvaal Supergroup under a common and evolving palaeo-environment of deposition. The results indicate that the cyclic deposition of the Hotazel BIF and enveloped Mn-rich sediments would have taken place in a stratified basin with a well-developed chemocline in terms of the vertical distributions of Mn and Fe, much like recent anoxic stratified basins such as the Orca Basin in the Gulf of Mexico. The increased Mn abundances as Mn-bearing ferrous carbonates in the upper part of the Griquatown BIF predating the Hotazel strata, also seems to lend support to the notion that the two BIFs are temporally interlinked as part of a broader sedimentary continuum. Finally, the largely conservative behaviour of Mn and associated elements during hydrothermal alteration of the Hotazel rocks is re-assessed, and renewed emphasis is placed on the possibility that brine metasomatism may have been a key factor in Mn redistribution and residual enrichment.
- Full Text:
- Date Issued: 2016
- Authors: Fryer, Lindi
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/2926 , vital:20343
- Description: The 2.65 to 2.05 Ga Transvaal Supergroup comprises one of the best-preserved and largely continuous successions in the world of Banded Iron-Formation (BIF), a chemical sedimentary rock composed of fine (mm to cm scale) interbanded iron-rich and iron-poor bands, developed atop the Archaean Kaapvaal Craton of southern Africa. The Transvaal BIF sequence contains at its upper stratigraphic part, an intriguing interlayered BIF-Mn association, namely the Hotazel Formation in the Kalahari Manganese Field, which constitutes the largest land-based manganese deposit on record. The genesis of the Hotazel deposits, and their exact significance in terms of atmosphere-hydrosphere-biosphere evolution, remain as elusive as they are challenging. In this thesis, an attempt is made to illuminate the origin and diagenesis of the Hotazel Formation and its post-depositional hydrothermal modification, through a highresolution geochemical study of the narrowest of the three BIF-Mn sedimentary cycles present in the Hotazel stratigraphy. This approach is coupled with a preliminary geochemical study of the distribution of Mn in older BIF of the Transvaal Supergroup as well (Kuruman and Griquatown Formations), so as to test recent models that causally link all BIFs in the Transvaal Supergroup under a common and evolving palaeo-environment of deposition. The results indicate that the cyclic deposition of the Hotazel BIF and enveloped Mn-rich sediments would have taken place in a stratified basin with a well-developed chemocline in terms of the vertical distributions of Mn and Fe, much like recent anoxic stratified basins such as the Orca Basin in the Gulf of Mexico. The increased Mn abundances as Mn-bearing ferrous carbonates in the upper part of the Griquatown BIF predating the Hotazel strata, also seems to lend support to the notion that the two BIFs are temporally interlinked as part of a broader sedimentary continuum. Finally, the largely conservative behaviour of Mn and associated elements during hydrothermal alteration of the Hotazel rocks is re-assessed, and renewed emphasis is placed on the possibility that brine metasomatism may have been a key factor in Mn redistribution and residual enrichment.
- Full Text:
- Date Issued: 2016
Cosmological structure formation using spectral methods
- Authors: Funcke, Michelle
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/2969 , vital:20348
- Description: Numerical simulations are becoming an increasingly important tool for understanding the growth and development of structure in the universe. Common practice is to discretize the space-time using physical variables. The discreteness is embodied by considering the dynamical variables as fields on a fixed spatial and time resolution, or by constructing the matter fields by a large number of particles which interact gravitationally (N-body methods). Recognizing that the physical quantities of interest are related to the spectrum of perturbations, we propose an alternate discretization in the frequency domain, using standard spectral methods. This approach is further aided by periodic boundary conditions which allows a straightforward decomposition of variables in a Fourier basis. Fixed resources require a high-frequency cut-off which lead to aliasing effects in non-linear equations, such as the ones considered here. This thesis describes the implementation of a 3D cosmological model based on Newtonian hydrodynamic equations in an expanding background. Initial data is constructed as a spectrum of perturbations, and evolved in the frequency domain using a pseudo-spectral evolution scheme and an explicit Runge-Kutta time integrator. The code is found to converge for both linear and non-linear evolutions, and the convergence rate is determined. The correct growth rates expected from analytical calculations are recovered in the linear case. In the non-linear model, we observe close correspondence with linear growth and are able to monitor the growth on features associated with the non-linearity. High-frequency aliasing effects were evident in the non-linear evolutions, leading to a study of two potential resolutions to this problem: a boxcar filter which adheres to“Orszag’s two thirds rule” and an exponential window function, the exponential filter suggested by Hou and Li [1], and a shifted version of the exponential filter suggested, which has the potential to alleviate high frequency- ripples resulting from the Gibbs’ phenomenon. We found that the filters were somewhat successful at reducing aliasing effects but that the Gibbs’ phenomenon could not be entirely removed by the choice of filters.
- Full Text:
- Date Issued: 2016
- Authors: Funcke, Michelle
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/2969 , vital:20348
- Description: Numerical simulations are becoming an increasingly important tool for understanding the growth and development of structure in the universe. Common practice is to discretize the space-time using physical variables. The discreteness is embodied by considering the dynamical variables as fields on a fixed spatial and time resolution, or by constructing the matter fields by a large number of particles which interact gravitationally (N-body methods). Recognizing that the physical quantities of interest are related to the spectrum of perturbations, we propose an alternate discretization in the frequency domain, using standard spectral methods. This approach is further aided by periodic boundary conditions which allows a straightforward decomposition of variables in a Fourier basis. Fixed resources require a high-frequency cut-off which lead to aliasing effects in non-linear equations, such as the ones considered here. This thesis describes the implementation of a 3D cosmological model based on Newtonian hydrodynamic equations in an expanding background. Initial data is constructed as a spectrum of perturbations, and evolved in the frequency domain using a pseudo-spectral evolution scheme and an explicit Runge-Kutta time integrator. The code is found to converge for both linear and non-linear evolutions, and the convergence rate is determined. The correct growth rates expected from analytical calculations are recovered in the linear case. In the non-linear model, we observe close correspondence with linear growth and are able to monitor the growth on features associated with the non-linearity. High-frequency aliasing effects were evident in the non-linear evolutions, leading to a study of two potential resolutions to this problem: a boxcar filter which adheres to“Orszag’s two thirds rule” and an exponential window function, the exponential filter suggested by Hou and Li [1], and a shifted version of the exponential filter suggested, which has the potential to alleviate high frequency- ripples resulting from the Gibbs’ phenomenon. We found that the filters were somewhat successful at reducing aliasing effects but that the Gibbs’ phenomenon could not be entirely removed by the choice of filters.
- Full Text:
- Date Issued: 2016
Creation and detection of Vector Bessel Beams
- Omoefe, Idisi David, Forbes, Andrew
- Authors: Omoefe, Idisi David , Forbes, Andrew
- Date: 2016
- Subjects: Vector analysis Quantum theory
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/1785 , vital:27558
- Description: Bessel beams are optical fields which falls into the category of non-diffracting beams. Vector Bessel beams are vector beams possessing cylindrical symmetry. Cylindrically symmetric beams tend to have a tight focal point during propagation. The tight focal beam nature of vector Bessel beams makes them a good potential in various facets of science such as biological optical trapping, wireless communications, remote sensing, microscopy etc. In this research work, vector Bessel beams were generated using the phase of an Axicon that was encoded into a spatial light modulator. Firstly, scalar Bessel beams which possess linear polarization were generated and converted to circularly polarized vector beams by the use of a q-plate. The orbital angular momentum (OAM) modes that are embedded in the vortex beams were detected using modal decomposition technique. This was implemented for both the scalar and vector case using a quarter wave plate. The measure of the degree of non-separability of the vector Bessel beams using tomographic quantum tools was also implemented where the density matrix was reconstructed. The concurrence and fidelity which explore the measure of vectorness of both scalar and vector Bessel beams were calculated from the density matrix. The obtained results show that the spatial modes and polarization are coupled in the vector case as expected.
- Full Text:
- Date Issued: 2016
- Authors: Omoefe, Idisi David , Forbes, Andrew
- Date: 2016
- Subjects: Vector analysis Quantum theory
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/1785 , vital:27558
- Description: Bessel beams are optical fields which falls into the category of non-diffracting beams. Vector Bessel beams are vector beams possessing cylindrical symmetry. Cylindrically symmetric beams tend to have a tight focal point during propagation. The tight focal beam nature of vector Bessel beams makes them a good potential in various facets of science such as biological optical trapping, wireless communications, remote sensing, microscopy etc. In this research work, vector Bessel beams were generated using the phase of an Axicon that was encoded into a spatial light modulator. Firstly, scalar Bessel beams which possess linear polarization were generated and converted to circularly polarized vector beams by the use of a q-plate. The orbital angular momentum (OAM) modes that are embedded in the vortex beams were detected using modal decomposition technique. This was implemented for both the scalar and vector case using a quarter wave plate. The measure of the degree of non-separability of the vector Bessel beams using tomographic quantum tools was also implemented where the density matrix was reconstructed. The concurrence and fidelity which explore the measure of vectorness of both scalar and vector Bessel beams were calculated from the density matrix. The obtained results show that the spatial modes and polarization are coupled in the vector case as expected.
- Full Text:
- Date Issued: 2016
Crop rotation and crop residue management effects under no till on the soil quality of two ecotopes in the Eastern Cape, South Africa
- Authors: Isaac, Gura
- Date: 2016
- Subjects: Crop rotation Crops and soils Soil fertility
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/2934 , vital:28144
- Description: The degradation of soil quality due to undesirable farming practices has reached alarming scales in the Eastern Cape and this has had negative repercussions on soil productivity and the environment in general. There is growing evidence that conservation agriculture (CA) practices involving minimal mechanical disturbance, maintaining permanent surface cover and embracing diverse crop rotations increase soil organic carbon (SOC) and therefore has potential to mitigate soil quality deterioration. A study was carried out at two sites located in two ecotopes to investigate the effects of crop residue retention and crop rotations in a no till system on overall soil quality using the Soil Management Assessment Framework (SMAF) as the soil quality assessment tool. The CA study trials were laid out in 2012 at two different locations, one at the Phandulwazi Agricultural High school within the Phandulwazi Jozini ecotope and the other one at University of Fort Hare Research Farm within the Alice Jozini ecotope. The experiment was laid out as a split-split plot arrangement in a randomized complete block design with three replicates. Tillage treatments were applied on the main plots while crop rotation treatments were applied as subplots. Crop residue retention treatments were applied as sub-sub plots. The rotational treatments were maize-fallow-maize (MFM), maize-fallow-soybean (MFS), maize-wheat-maize (MWM) and maize-wheat-soybean (MWS). The initial assessment of the overall soil quality of the two ecotopes using the SMAF soil quality index (SQI) revealed that the soils at the Alice site were functioning at 80% while the soils at the Phandulwazi site were functioning at 79 percent of their optimum capacity. The slight difference in the soil quality of the two ecotopes could be attributed to their different soil organic C contents where the Alice Jozini ecotope had significantly higher soil organic C contents than the Phandulwazi Jozini ecotope. After 3 years of continuous treatment application, crop residue retention significantly improved most of the measured soil quality parameters. Generally across the sites, more soil organic C, microbial biomass C (MBC), ß-glucosidase (BG) activity, mineral N, extractable P and K, Cu, Zn, Mn, Fe, and macro-aggregates were recorded in treatments where crop residues were retained. Crop rotations alone did not have a significant impact on most of the measured soil quality indicators. The crop rotations influenced significantly the availability of mineral N across the two sites, highlighting the importance of using a legume in rotations on available N for the subsequent crops. Most of the measured soil attributes were not significantly influenced after 3 years of continuously applying combined treatment of CA components. Mineral N (NO3 + NH4), K, Zn and Fe were significantly impacted on by the interactions of CA components at the Phandulwazi site, while N, Cu, Zn and Mn were significantly increased at the Alice site. Low response of SOC to combined CA treatments in the short-term prompted the need to examine treatment effects on individual soil carbon fractions. The interaction of crop rotation and residue management techniques were significant on the fine particulate organic matter – C fractions and microbially respired C. These soil C fractions were more sensitive to short-term treatments of combined CA components than SOC and MBC, therefore they can be used as short-term indicators of CA effects on SOM. Soil organic carbon, MBC, extractable P and K, soil pH, EC, b, AGS (aggregate stability) and BG activity were measured and the Soil Management Assessment Framework (SMAF) used to calculate soil quality index (SQI) values for each treatment. The combination of the crop rotations with crop residue retention showed the potential to significantly improve SQI values in the long term. The highest soil quality improvement at both sites was achieved by the maize-wheat-soybean (MWS) rotation with crop residue retention.
- Full Text:
- Date Issued: 2016
- Authors: Isaac, Gura
- Date: 2016
- Subjects: Crop rotation Crops and soils Soil fertility
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/2934 , vital:28144
- Description: The degradation of soil quality due to undesirable farming practices has reached alarming scales in the Eastern Cape and this has had negative repercussions on soil productivity and the environment in general. There is growing evidence that conservation agriculture (CA) practices involving minimal mechanical disturbance, maintaining permanent surface cover and embracing diverse crop rotations increase soil organic carbon (SOC) and therefore has potential to mitigate soil quality deterioration. A study was carried out at two sites located in two ecotopes to investigate the effects of crop residue retention and crop rotations in a no till system on overall soil quality using the Soil Management Assessment Framework (SMAF) as the soil quality assessment tool. The CA study trials were laid out in 2012 at two different locations, one at the Phandulwazi Agricultural High school within the Phandulwazi Jozini ecotope and the other one at University of Fort Hare Research Farm within the Alice Jozini ecotope. The experiment was laid out as a split-split plot arrangement in a randomized complete block design with three replicates. Tillage treatments were applied on the main plots while crop rotation treatments were applied as subplots. Crop residue retention treatments were applied as sub-sub plots. The rotational treatments were maize-fallow-maize (MFM), maize-fallow-soybean (MFS), maize-wheat-maize (MWM) and maize-wheat-soybean (MWS). The initial assessment of the overall soil quality of the two ecotopes using the SMAF soil quality index (SQI) revealed that the soils at the Alice site were functioning at 80% while the soils at the Phandulwazi site were functioning at 79 percent of their optimum capacity. The slight difference in the soil quality of the two ecotopes could be attributed to their different soil organic C contents where the Alice Jozini ecotope had significantly higher soil organic C contents than the Phandulwazi Jozini ecotope. After 3 years of continuous treatment application, crop residue retention significantly improved most of the measured soil quality parameters. Generally across the sites, more soil organic C, microbial biomass C (MBC), ß-glucosidase (BG) activity, mineral N, extractable P and K, Cu, Zn, Mn, Fe, and macro-aggregates were recorded in treatments where crop residues were retained. Crop rotations alone did not have a significant impact on most of the measured soil quality indicators. The crop rotations influenced significantly the availability of mineral N across the two sites, highlighting the importance of using a legume in rotations on available N for the subsequent crops. Most of the measured soil attributes were not significantly influenced after 3 years of continuously applying combined treatment of CA components. Mineral N (NO3 + NH4), K, Zn and Fe were significantly impacted on by the interactions of CA components at the Phandulwazi site, while N, Cu, Zn and Mn were significantly increased at the Alice site. Low response of SOC to combined CA treatments in the short-term prompted the need to examine treatment effects on individual soil carbon fractions. The interaction of crop rotation and residue management techniques were significant on the fine particulate organic matter – C fractions and microbially respired C. These soil C fractions were more sensitive to short-term treatments of combined CA components than SOC and MBC, therefore they can be used as short-term indicators of CA effects on SOM. Soil organic carbon, MBC, extractable P and K, soil pH, EC, b, AGS (aggregate stability) and BG activity were measured and the Soil Management Assessment Framework (SMAF) used to calculate soil quality index (SQI) values for each treatment. The combination of the crop rotations with crop residue retention showed the potential to significantly improve SQI values in the long term. The highest soil quality improvement at both sites was achieved by the maize-wheat-soybean (MWS) rotation with crop residue retention.
- Full Text:
- Date Issued: 2016
Crop yields from organic and conventional farming systems in South Africa's Southern Cape
- Authors: Mashele, N'wa-Jama
- Date: 2016
- Subjects: Organic farming -- South Africa Sustainable agriculture -- South Africa Agricultural systems -- South Africa
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/11637 , vital:26946
- Description: South Africa (SA) is food secure on a national level, however citizens in rural and marginalised areas face household food insecurity due to lack of access to this food. South Africa has low fertility soils and scarce water resources. Climate change reports of unpredictable weather conditions will further exacerbate these challenges. The majority of the agricultural production methods in SA are industrialised and rely heavily on external inputs. Alternative agricultural production methods which are environmentally less taxing, are affordable and yield nutritious food, need to be investigated and adopted. A long-term trial investigating the differences in yields between conventional and organic farming systems was established at the NMMU George Saasveld campus. A baseline study preceded the cropping seasons to establish pre-treatment soil conditions before the two farming systems were be implemented. The trial was a randomized complete block design split into organic, conventional and control plots. In the first cropping season (summer) three crops cabbage (Brassica oleracea var. capitata), sweet potato (Ipomea batatas) and cowpea (vigna ungucuilata) were planted under the different treatments. Soil fertility changes after application of chemical and organic fertilizer were measured. Soil pH and phosphorus increased whilst potassium and soil carbon decreased from baseline levels. The organic plots were found to have higher soil pH, potassium and carbon, whilst P was higher in the conventional plots. The organic cabbages had a yield 12% lower than conventional cabbages, organic cowpeas were 51% lower than conventional cowpeas. Baboons damaged sweet potato plots before maturity. Broccoli (Brassica oleracea var. italica), radish (Raphanus sativa) and green pea (Pisum sativum) were planted in the second cropping season (winter). Organic broccoli yields were 51% lower than conventional broccoli, organic green peas were 18 % lower than conventional green peas. The organic radish yields were 36% lower than conventional yields and this was statically significant. The yield differences were statically significant between control and conventional cabbages (25%) and broccolis (68%). The results indicate that there is on average an initial 25% yield difference between organic and conventional farming systems. Similar studies have shown that the yield gap can be reduced within three to four years. This study presents preliminary results of trials that are to continue for ten years, during which time the yield differences may vary.
- Full Text:
- Date Issued: 2016
- Authors: Mashele, N'wa-Jama
- Date: 2016
- Subjects: Organic farming -- South Africa Sustainable agriculture -- South Africa Agricultural systems -- South Africa
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/11637 , vital:26946
- Description: South Africa (SA) is food secure on a national level, however citizens in rural and marginalised areas face household food insecurity due to lack of access to this food. South Africa has low fertility soils and scarce water resources. Climate change reports of unpredictable weather conditions will further exacerbate these challenges. The majority of the agricultural production methods in SA are industrialised and rely heavily on external inputs. Alternative agricultural production methods which are environmentally less taxing, are affordable and yield nutritious food, need to be investigated and adopted. A long-term trial investigating the differences in yields between conventional and organic farming systems was established at the NMMU George Saasveld campus. A baseline study preceded the cropping seasons to establish pre-treatment soil conditions before the two farming systems were be implemented. The trial was a randomized complete block design split into organic, conventional and control plots. In the first cropping season (summer) three crops cabbage (Brassica oleracea var. capitata), sweet potato (Ipomea batatas) and cowpea (vigna ungucuilata) were planted under the different treatments. Soil fertility changes after application of chemical and organic fertilizer were measured. Soil pH and phosphorus increased whilst potassium and soil carbon decreased from baseline levels. The organic plots were found to have higher soil pH, potassium and carbon, whilst P was higher in the conventional plots. The organic cabbages had a yield 12% lower than conventional cabbages, organic cowpeas were 51% lower than conventional cowpeas. Baboons damaged sweet potato plots before maturity. Broccoli (Brassica oleracea var. italica), radish (Raphanus sativa) and green pea (Pisum sativum) were planted in the second cropping season (winter). Organic broccoli yields were 51% lower than conventional broccoli, organic green peas were 18 % lower than conventional green peas. The organic radish yields were 36% lower than conventional yields and this was statically significant. The yield differences were statically significant between control and conventional cabbages (25%) and broccolis (68%). The results indicate that there is on average an initial 25% yield difference between organic and conventional farming systems. Similar studies have shown that the yield gap can be reduced within three to four years. This study presents preliminary results of trials that are to continue for ten years, during which time the yield differences may vary.
- Full Text:
- Date Issued: 2016
Design and implementation of a multi-agent opportunistic grid computing platform
- Authors: Muranganwa, Raymond
- Date: 2016
- Subjects: Computational grids (Computer systems)
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/2722 , vital:28064
- Description: Opportunistic Grid Computing involves joining idle computing resources in enterprises into a converged high performance commodity infrastructure. The research described in this dissertation investigates the viability of public resource computing in offering a plethora of possibilities through seamless access to shared compute and storage resources. The research proposes and conceptualizes the Multi-Agent Opportunistic Grid (MAOG) solution in an Information and Communication Technologies for Development (ICT4D) initiative to address some limitations prevalent in traditional distributed system implementations. Proof-of-concept software components based on JADE (Java Agent Development Framework) validated Multi-Agent Systems (MAS) as an important tool for provisioning of Opportunistic Grid Computing platforms. Exploration of agent technologies within the research context identified two key components which improve access to extended computer capabilities. The first component is a Mobile Agent (MA) compute component in which a group of agents interact to pool shared processor cycles. The compute component integrates dynamic resource identification and allocation strategies by incorporating the Contract Net Protocol (CNP) and rule based reasoning concepts. The second service is a MAS based storage component realized through disk mirroring and Google file-system’s chunking with atomic append storage techniques. This research provides a candidate Opportunistic Grid Computing platform design and implementation through the use of MAS. Experiments conducted validated the design and implementation of the compute and storage services. From results, support for processing user applications; resource identification and allocation; and rule based reasoning validated the MA compute component. A MAS based file-system that implements chunking optimizations was considered to be optimum based on evaluations. The findings from the undertaken experiments also validated the functional adequacy of the implementation, and show the suitability of MAS for provisioning of robust, autonomous, and intelligent platforms. The context of this research, ICT4D, provides a solution to optimizing and increasing the utilization of computing resources that are usually idle in these contexts.
- Full Text:
- Date Issued: 2016
- Authors: Muranganwa, Raymond
- Date: 2016
- Subjects: Computational grids (Computer systems)
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/2722 , vital:28064
- Description: Opportunistic Grid Computing involves joining idle computing resources in enterprises into a converged high performance commodity infrastructure. The research described in this dissertation investigates the viability of public resource computing in offering a plethora of possibilities through seamless access to shared compute and storage resources. The research proposes and conceptualizes the Multi-Agent Opportunistic Grid (MAOG) solution in an Information and Communication Technologies for Development (ICT4D) initiative to address some limitations prevalent in traditional distributed system implementations. Proof-of-concept software components based on JADE (Java Agent Development Framework) validated Multi-Agent Systems (MAS) as an important tool for provisioning of Opportunistic Grid Computing platforms. Exploration of agent technologies within the research context identified two key components which improve access to extended computer capabilities. The first component is a Mobile Agent (MA) compute component in which a group of agents interact to pool shared processor cycles. The compute component integrates dynamic resource identification and allocation strategies by incorporating the Contract Net Protocol (CNP) and rule based reasoning concepts. The second service is a MAS based storage component realized through disk mirroring and Google file-system’s chunking with atomic append storage techniques. This research provides a candidate Opportunistic Grid Computing platform design and implementation through the use of MAS. Experiments conducted validated the design and implementation of the compute and storage services. From results, support for processing user applications; resource identification and allocation; and rule based reasoning validated the MA compute component. A MAS based file-system that implements chunking optimizations was considered to be optimum based on evaluations. The findings from the undertaken experiments also validated the functional adequacy of the implementation, and show the suitability of MAS for provisioning of robust, autonomous, and intelligent platforms. The context of this research, ICT4D, provides a solution to optimizing and increasing the utilization of computing resources that are usually idle in these contexts.
- Full Text:
- Date Issued: 2016
Detecting derivative malware samples using deobfuscation-assisted similarity analysis
- Authors: Wrench, Peter Mark
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/383 , vital:19954
- Description: The overwhelming popularity of PHP as a hosting platform has made it the language of choice for developers of Remote Access Trojans (RATs or web shells) and other malicious software. These shells are typically used to compromise and monetise web platforms by providing the attacker with basic remote access to the system, including _le transfer, command execution, network reconnaissance, and database connectivity. Once infected, compromised systems can be used to defraud users by hosting phishing sites, performing Distributed Denial of Service attacks, or serving as anonymous platforms for sending spam or other malfeasance. The vast majority of these threats are largely derivative, incorporating core capabilities found in more established RATs such as c99 and r57. Authors of malicious software routinely produce new shell variants by modifying the behaviours of these ubiquitous RATs, either to add desired functionality or to avoid detection by signature-based detection systems. Once these modified shells are eventually identified (or additional functionality is required), the process of shell adaptation begins again. The end result of this iterative process is a web of separate but related shell variants, many of which are at least partially derived from one of the more popular and influential RATs. In response to the problem outlined above, the author set out to design and implement a system capable of circumventing common obfuscation techniques and identifying derivative malware samples in a given collection. To begin with, a decoder component was developed to syntactically deobfuscate and normalise PHP code by detecting and reversing idiomatic obfuscation constructs, and to apply uniform formatting conventions to all system inputs. A unified malware analysis framework, called Viper, was then extended to create a modular similarity analysis system comprised of individual feature extraction modules, modules responsible for batch processing, a matrix module for comparing sample features, and two visualisation modules capable of generating visual representations of shell similarity. The principal conclusion of the research was that the deobfuscation performed by the decoder component prior to analysis dramatically improved the observed levels of similarity between test samples. This in turn allowed the modular similarity analysis system to identify derivative clusters (or families) within a large collection of shells more accurately. Techniques for isolating and re-rendering these clusters were also developed and demonstrated to be effective at increasing the amount of detail available for evaluating the relative magnitudes of the relationships within each cluster.
- Full Text:
- Date Issued: 2016
- Authors: Wrench, Peter Mark
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/383 , vital:19954
- Description: The overwhelming popularity of PHP as a hosting platform has made it the language of choice for developers of Remote Access Trojans (RATs or web shells) and other malicious software. These shells are typically used to compromise and monetise web platforms by providing the attacker with basic remote access to the system, including _le transfer, command execution, network reconnaissance, and database connectivity. Once infected, compromised systems can be used to defraud users by hosting phishing sites, performing Distributed Denial of Service attacks, or serving as anonymous platforms for sending spam or other malfeasance. The vast majority of these threats are largely derivative, incorporating core capabilities found in more established RATs such as c99 and r57. Authors of malicious software routinely produce new shell variants by modifying the behaviours of these ubiquitous RATs, either to add desired functionality or to avoid detection by signature-based detection systems. Once these modified shells are eventually identified (or additional functionality is required), the process of shell adaptation begins again. The end result of this iterative process is a web of separate but related shell variants, many of which are at least partially derived from one of the more popular and influential RATs. In response to the problem outlined above, the author set out to design and implement a system capable of circumventing common obfuscation techniques and identifying derivative malware samples in a given collection. To begin with, a decoder component was developed to syntactically deobfuscate and normalise PHP code by detecting and reversing idiomatic obfuscation constructs, and to apply uniform formatting conventions to all system inputs. A unified malware analysis framework, called Viper, was then extended to create a modular similarity analysis system comprised of individual feature extraction modules, modules responsible for batch processing, a matrix module for comparing sample features, and two visualisation modules capable of generating visual representations of shell similarity. The principal conclusion of the research was that the deobfuscation performed by the decoder component prior to analysis dramatically improved the observed levels of similarity between test samples. This in turn allowed the modular similarity analysis system to identify derivative clusters (or families) within a large collection of shells more accurately. Techniques for isolating and re-rendering these clusters were also developed and demonstrated to be effective at increasing the amount of detail available for evaluating the relative magnitudes of the relationships within each cluster.
- Full Text:
- Date Issued: 2016
Determinants of participation in beekeeping and its contribution to rural household income: the case of O. R. Tambo Municipality, Eastern Cape Province, South Africa
- Authors: Ncetani, Nelisiwe
- Date: 2016
- Subjects: Beekeepers -- South Africa -- Eastern Cape Sustainable living -- South Africa -- Eastern Cape Home economics, Rural -- South Africa -- Eastern Cape
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/1486 , vital:27299
- Description: This dissertation explores determinants and perceptions to participation in beekeeping by households’ as well as its contribution to household income. This is in a context that smallholder farmers’ participation is reported to be very low, despite several claimed benefits of beekeeping. Moreover, despite receiving substantial endorsements as a resilient climate-smart rural livelihood, off-farm, forest, non-timber diversification strategy; the uptake of beekeeping by smallholder farmers in the Eastern Cape Province of South Africa still remains very low. Against this background, this study used cross-sectional survey data to gauge smallholder farmers’ perceptions and factors that influence their participation in beekeeping using a binary regression model; further, it measured the contribution of beekeeping to rural household income using a linear regression model. Descriptive statistics revealed that majority of the people from the study area have positive perceptions regarding beekeeping. Regression estimates further indicate that beekeeping is mostly conditioned by shared perceptions, institutional and socio-economic factors that are worth targeting to promote the uptake of beekeeping as a livelihood. Public policies that influence the institutional framework (extension, credit and market) in favour of beekeeping are more likely to promote participation in beekeeping activities. Also, more research on the documentation and benefits of beekeeping supported by investments targeting educational campaigns towards promoting positive attitudes and dispelling fears and myths surrounding beekeeping as an enterprise, will also promote the participation of smallholder farmers in beekeeping. Regression estimates for determinants of household income revealed a significant positive contribution of beekeeping to household income, education, gender and age. Promotion of beekeeping may therefore address household income that is worth targeting to address rural poverty. The study therefore concludes that to fully unlock the income potential of beekeeping for smallholder farmers, development agencies need to address several negative perceptions and institutional factors that affect beekeeping participation, while more research is required to quantify the claimed benefits of beekeeping, given their positive potential to promote farmers’ interests in beekeeping.
- Full Text:
- Date Issued: 2016
- Authors: Ncetani, Nelisiwe
- Date: 2016
- Subjects: Beekeepers -- South Africa -- Eastern Cape Sustainable living -- South Africa -- Eastern Cape Home economics, Rural -- South Africa -- Eastern Cape
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/1486 , vital:27299
- Description: This dissertation explores determinants and perceptions to participation in beekeeping by households’ as well as its contribution to household income. This is in a context that smallholder farmers’ participation is reported to be very low, despite several claimed benefits of beekeeping. Moreover, despite receiving substantial endorsements as a resilient climate-smart rural livelihood, off-farm, forest, non-timber diversification strategy; the uptake of beekeeping by smallholder farmers in the Eastern Cape Province of South Africa still remains very low. Against this background, this study used cross-sectional survey data to gauge smallholder farmers’ perceptions and factors that influence their participation in beekeeping using a binary regression model; further, it measured the contribution of beekeeping to rural household income using a linear regression model. Descriptive statistics revealed that majority of the people from the study area have positive perceptions regarding beekeeping. Regression estimates further indicate that beekeeping is mostly conditioned by shared perceptions, institutional and socio-economic factors that are worth targeting to promote the uptake of beekeeping as a livelihood. Public policies that influence the institutional framework (extension, credit and market) in favour of beekeeping are more likely to promote participation in beekeeping activities. Also, more research on the documentation and benefits of beekeeping supported by investments targeting educational campaigns towards promoting positive attitudes and dispelling fears and myths surrounding beekeeping as an enterprise, will also promote the participation of smallholder farmers in beekeeping. Regression estimates for determinants of household income revealed a significant positive contribution of beekeeping to household income, education, gender and age. Promotion of beekeeping may therefore address household income that is worth targeting to address rural poverty. The study therefore concludes that to fully unlock the income potential of beekeeping for smallholder farmers, development agencies need to address several negative perceptions and institutional factors that affect beekeeping participation, while more research is required to quantify the claimed benefits of beekeeping, given their positive potential to promote farmers’ interests in beekeeping.
- Full Text:
- Date Issued: 2016
Developing an attractant for monitoring fruit-feeding moths in citrus orchards
- Authors: Goddard, Mathew Keith
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/2981 , vital:20349
- Description: Fruit-piercing moths are a sporadic pest of citrus, especially in the Eastern Cape Province of South Africa, where the adults can cause significant damage in outbreak years. Currently the only way in which to successfully control fruit-feeding moths within the orchards is the use of repellent lights. However, growers confuse fruit-piercing moths with fruit-sucking moths that don‘t cause primary damage, and there is no way of monitoring which moth species are attacking the fruit in the orchards during the night. In a previous study, banana was shown to be the most attractive bait for a variety of fruit-feeding moth species. Therefore the aim of this study was to determine the population dynamics of fruit-feeding moths develop a cost-effective alternative to the use of fresh banana as a bait for fruit-piercing moths. Fresh banana was compared to nine alternative synthetic attractants, frozen banana and a control under field conditions in several orchards in the Eastern Cape Province. Once again, banana was shown to be the most attractive bait. Some 23 species of fruit-feeding moth species were sampled in the traps, but there was only two fruit-piercing species, Serrodes partita (Fabricius) (Lepidoptera: Noctuidae) and Eudocima sp. Surprisingly S. partita, which was thought to be the main pest, comprised only 6.9% of trap catches. Serrodes partita, is a sporadic pest, only becoming problematic every five to 10 years after good rainfall in the Little Karoo region that causes flushes of their larval host, wild plum, Pappea capensis (Ecklon and Zeyher). During these outbreaks, damage to fruit can range from 70 to 90% and this is especially so for soft skinned citrus. A study on the morphology of the proboscis confirmed that only two species of fruit-piercing moths were present. Trap catches over three citrus growing seasons was linked to fruit damage found within several orchards. Once again fruit-piercing moth damage was relatively low in comparison to other types of damage such as mechanical and undefined damage. There was a very weak correlation between S. partita trap catches and damage, but generally damage was recorded two to three weeks after a peak in S. partita trap catches. Climatic conditions were also recorded and compared to weekly trap catches of S. partita, and while temperature and wind direction had no influence on moth populations, precipitation in the orchards was weakly correlated with trap catches. This study has shown that in non-outbreak seasons, the main fruit-piercing moth, S. partita comprises a small percentage of fruit-feeding moths in citrus orchards, but that growers are unable to determine the difference between fruit-piercing species and the harmless fruit-sucking species. Further fresh banana remains the best method for attracting fruit-piecing moths to traps, but this is not cost effective and thus a commercially viable protocol for monitoring these species remains elusive.
- Full Text:
- Date Issued: 2016
- Authors: Goddard, Mathew Keith
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/2981 , vital:20349
- Description: Fruit-piercing moths are a sporadic pest of citrus, especially in the Eastern Cape Province of South Africa, where the adults can cause significant damage in outbreak years. Currently the only way in which to successfully control fruit-feeding moths within the orchards is the use of repellent lights. However, growers confuse fruit-piercing moths with fruit-sucking moths that don‘t cause primary damage, and there is no way of monitoring which moth species are attacking the fruit in the orchards during the night. In a previous study, banana was shown to be the most attractive bait for a variety of fruit-feeding moth species. Therefore the aim of this study was to determine the population dynamics of fruit-feeding moths develop a cost-effective alternative to the use of fresh banana as a bait for fruit-piercing moths. Fresh banana was compared to nine alternative synthetic attractants, frozen banana and a control under field conditions in several orchards in the Eastern Cape Province. Once again, banana was shown to be the most attractive bait. Some 23 species of fruit-feeding moth species were sampled in the traps, but there was only two fruit-piercing species, Serrodes partita (Fabricius) (Lepidoptera: Noctuidae) and Eudocima sp. Surprisingly S. partita, which was thought to be the main pest, comprised only 6.9% of trap catches. Serrodes partita, is a sporadic pest, only becoming problematic every five to 10 years after good rainfall in the Little Karoo region that causes flushes of their larval host, wild plum, Pappea capensis (Ecklon and Zeyher). During these outbreaks, damage to fruit can range from 70 to 90% and this is especially so for soft skinned citrus. A study on the morphology of the proboscis confirmed that only two species of fruit-piercing moths were present. Trap catches over three citrus growing seasons was linked to fruit damage found within several orchards. Once again fruit-piercing moth damage was relatively low in comparison to other types of damage such as mechanical and undefined damage. There was a very weak correlation between S. partita trap catches and damage, but generally damage was recorded two to three weeks after a peak in S. partita trap catches. Climatic conditions were also recorded and compared to weekly trap catches of S. partita, and while temperature and wind direction had no influence on moth populations, precipitation in the orchards was weakly correlated with trap catches. This study has shown that in non-outbreak seasons, the main fruit-piercing moth, S. partita comprises a small percentage of fruit-feeding moths in citrus orchards, but that growers are unable to determine the difference between fruit-piercing species and the harmless fruit-sucking species. Further fresh banana remains the best method for attracting fruit-piecing moths to traps, but this is not cost effective and thus a commercially viable protocol for monitoring these species remains elusive.
- Full Text:
- Date Issued: 2016
Development of a high-throughput bioassay to determine the rate of antimalarial drug action using fluorescent vitality probes
- Authors: Laming, Dustin
- Date: 2016
- Subjects: Malaria -- Africa , Plasmodium falciparum , Drug development , Fluorescence
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/64434 , vital:28542
- Description: Malaria is one of the most prevalent diseases in Africa and the Plasmodium falciparum species is widely accepted as the most virulent, with a fatality rate of 15 – 20 % of reported cases of infection. While various treatments have been accepted into early stage clinical trials there has been little progress towards a proven vaccine. Pending a long term solution, endemic countries rely heavily on the development of innovative drugs with acute efficacy coupled with rapids mode of action. Until recently the rate of drug action has been measured by light microscopic examination of parasite morphology using blood slides of drug treated parasite cultures at regular time intervals. This technique is tedious and, most importantly, subject to interpretation with regards to distinguishing between viable and comprised parasite cells, thus making it impossible to objectively quantitate the rate of drug action. This study aimed to develop a series of bioassays using the calcein-acetoxymethyl and propidium iodide vitality probes which would allow the rate of drug action on Plasmodium falciparum malaria parasites to be assessed and ranked in relation to each other. A novel bioassay using these fluorescent vitality probes coupled with fluorescence microscopy was developed and optimized and allowed the rate of drug action on malaria parasites to be assessed i) rapidly (in relation to current assay techniques) and ii) in a semi-quantitative manner. Extrapolation to flow cytometry for improved quantification provided favourable rankings of drug killing rates in the pilot study, however, requires further development to increase throughput and approach the ultimate goal of producing a medium-throughput assay for rapidly assessing the rate of action of antimalarial drugs. Attempts to adapt the assay for use in a multiwell plate reader, as well as using ATP measurements as an indication of parasite vitality after drug treatment, was met with erratic results. The viability probes assay as it stands represents an improvement on other assay formats in terms of rapidity and quantification of live/compromised parasites in cultures.
- Full Text:
- Date Issued: 2016
- Authors: Laming, Dustin
- Date: 2016
- Subjects: Malaria -- Africa , Plasmodium falciparum , Drug development , Fluorescence
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/64434 , vital:28542
- Description: Malaria is one of the most prevalent diseases in Africa and the Plasmodium falciparum species is widely accepted as the most virulent, with a fatality rate of 15 – 20 % of reported cases of infection. While various treatments have been accepted into early stage clinical trials there has been little progress towards a proven vaccine. Pending a long term solution, endemic countries rely heavily on the development of innovative drugs with acute efficacy coupled with rapids mode of action. Until recently the rate of drug action has been measured by light microscopic examination of parasite morphology using blood slides of drug treated parasite cultures at regular time intervals. This technique is tedious and, most importantly, subject to interpretation with regards to distinguishing between viable and comprised parasite cells, thus making it impossible to objectively quantitate the rate of drug action. This study aimed to develop a series of bioassays using the calcein-acetoxymethyl and propidium iodide vitality probes which would allow the rate of drug action on Plasmodium falciparum malaria parasites to be assessed and ranked in relation to each other. A novel bioassay using these fluorescent vitality probes coupled with fluorescence microscopy was developed and optimized and allowed the rate of drug action on malaria parasites to be assessed i) rapidly (in relation to current assay techniques) and ii) in a semi-quantitative manner. Extrapolation to flow cytometry for improved quantification provided favourable rankings of drug killing rates in the pilot study, however, requires further development to increase throughput and approach the ultimate goal of producing a medium-throughput assay for rapidly assessing the rate of action of antimalarial drugs. Attempts to adapt the assay for use in a multiwell plate reader, as well as using ATP measurements as an indication of parasite vitality after drug treatment, was met with erratic results. The viability probes assay as it stands represents an improvement on other assay formats in terms of rapidity and quantification of live/compromised parasites in cultures.
- Full Text:
- Date Issued: 2016
Development of a stemmer for the isiXhosa language
- Authors: Nogwina, Mnoneleli
- Date: 2016
- Subjects: Computational linguistics Language and languages Xhosa language
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/2611 , vital:27938
- Description: IsiXhosa language is one of the eleven official languages and the second most widely spoken language in South Africa. However, in terms of computational linguistics, the language did not get attention and natural language related work is almost non-existent. Document retrieval using unstructured queries requires some kind of language processing, and an efficient retrieval of documents can be achieved if we use a technique called stemming. The area that involves document storage and retrieval is called Information Retrieval (IR). Basically, IR systems make use of a Stemmer to index document representations and also terms in users’ queries to retrieve matching documents. In this dissertation, we present the developed Stemmer that can be used in both conditions. The Stemmer is used in IR systems, like Google to retrieve documents written in isiXhosa. In the Eastern Cape Province of South Africa many public schools take isiXhosa as a subject and also a number of Universities in South Africa teach isiXhosa. Therefore, for a language important such as this, it is important to make valuable information that is available online accessible to users through the use of IR systems. In our efforts to develop a Stemmer for the isiXhosa language, an investigation on how others have developed Stemmers for other languages was carried out. From the investigation we came to realize that the Porter stemming algorithm in particular was the main algorithm that many of other Stemmers make use of as a reference. We found that Porter’s algorithm could not be used in its totality in the development of the isiXhosa Stemmer because of the morphological complexity of the language. We developed an affix removal that is embedded with rules that determine which order should be followed in stripping the affixes. The rule is that, the word under consideration is checked against the exceptions, if it’s not in the exceptions list then the stripping continue in the following order; Prefix removal, Suffix removal and finally save the result as stem. The Stemmer was successfully developed and was tested and evaluated in a sample data that was randomly collected from the isiXhosa text books and isiXhosa dictionary. From the results obtained we concluded that the Stemmer can be used in IR systems as it showed 91 percent accuracy. The errors were 9 percent and therefore these results are within the accepted range and therefore the Stemmer can be used to help in retrieval of isiXhosa documents. This is only a noun Stemmer and in the future it can be extended to also stem verbs as well. The Stemmer can also be used in the development of spell-checkers of isiXhosa.
- Full Text:
- Date Issued: 2016
- Authors: Nogwina, Mnoneleli
- Date: 2016
- Subjects: Computational linguistics Language and languages Xhosa language
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/2611 , vital:27938
- Description: IsiXhosa language is one of the eleven official languages and the second most widely spoken language in South Africa. However, in terms of computational linguistics, the language did not get attention and natural language related work is almost non-existent. Document retrieval using unstructured queries requires some kind of language processing, and an efficient retrieval of documents can be achieved if we use a technique called stemming. The area that involves document storage and retrieval is called Information Retrieval (IR). Basically, IR systems make use of a Stemmer to index document representations and also terms in users’ queries to retrieve matching documents. In this dissertation, we present the developed Stemmer that can be used in both conditions. The Stemmer is used in IR systems, like Google to retrieve documents written in isiXhosa. In the Eastern Cape Province of South Africa many public schools take isiXhosa as a subject and also a number of Universities in South Africa teach isiXhosa. Therefore, for a language important such as this, it is important to make valuable information that is available online accessible to users through the use of IR systems. In our efforts to develop a Stemmer for the isiXhosa language, an investigation on how others have developed Stemmers for other languages was carried out. From the investigation we came to realize that the Porter stemming algorithm in particular was the main algorithm that many of other Stemmers make use of as a reference. We found that Porter’s algorithm could not be used in its totality in the development of the isiXhosa Stemmer because of the morphological complexity of the language. We developed an affix removal that is embedded with rules that determine which order should be followed in stripping the affixes. The rule is that, the word under consideration is checked against the exceptions, if it’s not in the exceptions list then the stripping continue in the following order; Prefix removal, Suffix removal and finally save the result as stem. The Stemmer was successfully developed and was tested and evaluated in a sample data that was randomly collected from the isiXhosa text books and isiXhosa dictionary. From the results obtained we concluded that the Stemmer can be used in IR systems as it showed 91 percent accuracy. The errors were 9 percent and therefore these results are within the accepted range and therefore the Stemmer can be used to help in retrieval of isiXhosa documents. This is only a noun Stemmer and in the future it can be extended to also stem verbs as well. The Stemmer can also be used in the development of spell-checkers of isiXhosa.
- Full Text:
- Date Issued: 2016
Development of aptamers against epitopes of the Ebola virus nucleoprotein for future applications in diagnostics
- Mutombwera , Atherton Tiripano
- Authors: Mutombwera , Atherton Tiripano
- Date: 2016
- Subjects: Ebola virus disease Ebola virus disease -- Treatment , Epidemics
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/45931 , vital:39321
- Description: Five different subtypes of the Ebola virus (EBOV) have been described. Either Zaire or Sudan EBOV subtypes has caused all of the EBOV outbreaks to date. The March 2014 Zaire EBOV disease outbreak that ravaged West Africa had a mortality rate of 70%, and resulted in 11 315 deaths. Swift cost effective EBOV detection is required to manage EBOV disease outbreaks as this leads to the interruption of the chain of transmission. Lateral flow diagnostic devices (LFDs) have been designed to provide quick, simple and cost effective diagnosis at the point of care and have great potential at interrupting the chain of EBOV transmission. The target recognition elements used in LFDs are the most important components of an LFD as they determine not only the selectivity and specificity of the device but also the transportation and storage conditions of the devices. Antibodies are the most common biomolecules used as target recognition elements in LFDs. However, the cost of producing antibodies is high and these biomolecules are highly sensitive to changes in the environmental conditions (e.g. temperature, pH and ionic strengths of buffer conditions), which can affect the selectivity and specificity of the LFDs. Aptamers can be used as alternative target recognition elements in LFDs. Aptamers are short single stranded nucleic acid molecules that have the ability to bind to their targets (e.g. whole cells, small molecules, toxins, proteins and peptides) with high affinity and specificity. By replacing antibodies with aptamers, LFDs can be produced that are less expensive, have higher selectivity and specificity. The aim of this study was to generate aptamers against the two highly conserved linear epitope regions (amino acid 421-440 and amino acid 601-620) of the EBOV nuclear protein (NP) using site directed SELEX. Such aptamers can be used as target recognition elements in the development of a LFD for the diagnosis of EBOV infection. Four aptamers that can potentially bind to the linear epitope spanning from amino acid 421 to 440 of the EBOV NP and four aptamers that can potentially bind to the linear epitope spanning from amino acid 601 to 620 of the EBOV NP were identified in this study. An in silico analysis of the predicted secondary structure of the putative aptamers was performed before and after the truncation of nucleotide sequences from the 5’ and 3’ ends of the aptamers to remove excess nucleotide sequences. Although this study did not characterise the interaction between the aptamers and linear epitope regions, the study succeeded in optimising the buffer conditions for future interaction studies using the SPR Biacore 3000 instrument.
- Full Text:
- Date Issued: 2016
- Authors: Mutombwera , Atherton Tiripano
- Date: 2016
- Subjects: Ebola virus disease Ebola virus disease -- Treatment , Epidemics
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/45931 , vital:39321
- Description: Five different subtypes of the Ebola virus (EBOV) have been described. Either Zaire or Sudan EBOV subtypes has caused all of the EBOV outbreaks to date. The March 2014 Zaire EBOV disease outbreak that ravaged West Africa had a mortality rate of 70%, and resulted in 11 315 deaths. Swift cost effective EBOV detection is required to manage EBOV disease outbreaks as this leads to the interruption of the chain of transmission. Lateral flow diagnostic devices (LFDs) have been designed to provide quick, simple and cost effective diagnosis at the point of care and have great potential at interrupting the chain of EBOV transmission. The target recognition elements used in LFDs are the most important components of an LFD as they determine not only the selectivity and specificity of the device but also the transportation and storage conditions of the devices. Antibodies are the most common biomolecules used as target recognition elements in LFDs. However, the cost of producing antibodies is high and these biomolecules are highly sensitive to changes in the environmental conditions (e.g. temperature, pH and ionic strengths of buffer conditions), which can affect the selectivity and specificity of the LFDs. Aptamers can be used as alternative target recognition elements in LFDs. Aptamers are short single stranded nucleic acid molecules that have the ability to bind to their targets (e.g. whole cells, small molecules, toxins, proteins and peptides) with high affinity and specificity. By replacing antibodies with aptamers, LFDs can be produced that are less expensive, have higher selectivity and specificity. The aim of this study was to generate aptamers against the two highly conserved linear epitope regions (amino acid 421-440 and amino acid 601-620) of the EBOV nuclear protein (NP) using site directed SELEX. Such aptamers can be used as target recognition elements in the development of a LFD for the diagnosis of EBOV infection. Four aptamers that can potentially bind to the linear epitope spanning from amino acid 421 to 440 of the EBOV NP and four aptamers that can potentially bind to the linear epitope spanning from amino acid 601 to 620 of the EBOV NP were identified in this study. An in silico analysis of the predicted secondary structure of the putative aptamers was performed before and after the truncation of nucleotide sequences from the 5’ and 3’ ends of the aptamers to remove excess nucleotide sequences. Although this study did not characterise the interaction between the aptamers and linear epitope regions, the study succeeded in optimising the buffer conditions for future interaction studies using the SPR Biacore 3000 instrument.
- Full Text:
- Date Issued: 2016
Development of Palladium selective reagents and materials
- Authors: Moyo, Cyprian Bertrand
- Date: 2016
- Subjects: Palladium Palladium compounds -- Industrial applications Chemistry, Inorganic
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/12231 , vital:27046
- Description: The adsorption and separation of Pd(II) from Pt(IV), Ir(IV) and Rh(III) by silica microparticles functionalized with triethylenetetramine (TETA), 2-(2-aminoethylthio)ethanamine (NSN) and 2-(2-(2-aminoethyl)ethylthio)ethanamine (NSSN) in 1 M hydrochloric acid medium was investigated by continuous column studies. The functionalized sorbent materials were characterized by microanalysis, SEM-EDS and FT-IR. Palladium selectivity of the sorbent materials was achieved by stripping of rhodium, iridium and platinum chlorido species with 0.5 M of NaClO4 in 1 M HCl while [PdCl4]2 was eluted with 3% w/v thiourea. The desorption efficiency of thiourea was confirmed by the SEM-EDS analysis of the materials after Pd(II) elution. Palladium loading capacity of the sorbents were in the order S-NSSN (23.85 mg/g) > S-NSN (12.70 mg/g) > S-TETA (4.97 mg/g). The extraction patterns on the sorbent materials were explained by considering the coordination chemistry of the ligand with [PdCl4]2ˉ and ionic interactions of [PtCl6]2ˉ and [IrCl5(H2O]ˉ. The square planar complexes, [Pd(HNSSNH)Cl2]Cl2 and [Pd(NSNH)Cl2][PdCl4]2, were isolated, analyzed by spectroscopy and single crystal X-ray, whereas evidence of the fraction of Pd(II)-TETA complex was obtained by HPLC studies. This provided proof of the inner sphere coordination mechanism as the mode of interaction of these ligands with [PdCl4]2ˉ. Trace amounts of Brˉ anions in ligands resulted in the inadvertent isolation of bromide coordinated Pd(II) NSN and NSSN complexes. The ion-pair salts of [TETAH4]4+ with [PtCl6]2ˉ, [IrCl6]3ˉ and [RhCl6]3ˉ were also isolated and characterized by microanalysis and IR to further explain the extraction patterns.
- Full Text:
- Date Issued: 2016
- Authors: Moyo, Cyprian Bertrand
- Date: 2016
- Subjects: Palladium Palladium compounds -- Industrial applications Chemistry, Inorganic
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/12231 , vital:27046
- Description: The adsorption and separation of Pd(II) from Pt(IV), Ir(IV) and Rh(III) by silica microparticles functionalized with triethylenetetramine (TETA), 2-(2-aminoethylthio)ethanamine (NSN) and 2-(2-(2-aminoethyl)ethylthio)ethanamine (NSSN) in 1 M hydrochloric acid medium was investigated by continuous column studies. The functionalized sorbent materials were characterized by microanalysis, SEM-EDS and FT-IR. Palladium selectivity of the sorbent materials was achieved by stripping of rhodium, iridium and platinum chlorido species with 0.5 M of NaClO4 in 1 M HCl while [PdCl4]2 was eluted with 3% w/v thiourea. The desorption efficiency of thiourea was confirmed by the SEM-EDS analysis of the materials after Pd(II) elution. Palladium loading capacity of the sorbents were in the order S-NSSN (23.85 mg/g) > S-NSN (12.70 mg/g) > S-TETA (4.97 mg/g). The extraction patterns on the sorbent materials were explained by considering the coordination chemistry of the ligand with [PdCl4]2ˉ and ionic interactions of [PtCl6]2ˉ and [IrCl5(H2O]ˉ. The square planar complexes, [Pd(HNSSNH)Cl2]Cl2 and [Pd(NSNH)Cl2][PdCl4]2, were isolated, analyzed by spectroscopy and single crystal X-ray, whereas evidence of the fraction of Pd(II)-TETA complex was obtained by HPLC studies. This provided proof of the inner sphere coordination mechanism as the mode of interaction of these ligands with [PdCl4]2ˉ. Trace amounts of Brˉ anions in ligands resulted in the inadvertent isolation of bromide coordinated Pd(II) NSN and NSSN complexes. The ion-pair salts of [TETAH4]4+ with [PtCl6]2ˉ, [IrCl6]3ˉ and [RhCl6]3ˉ were also isolated and characterized by microanalysis and IR to further explain the extraction patterns.
- Full Text:
- Date Issued: 2016
Development of part-of-speech tagger for Xhosa
- Authors: Delman, Xolani
- Date: 2016
- Subjects: Computational linguistics -- Methodology Natural language processing (Computer science) Linguistic models
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/11872 , vital:39114
- Description: Part-of-Speech (POS) tagging is a process of assigning an appropriate part of speech or lexical category to each word in a given sentence of a particular natural language. Natural languages are languages that human beings use to communicate with one another be it Xhosa, Zulu, English etc. POS tagging plays a huge and important role in natural language processing applications. The main applications of POS tagging include machine translation, parsing, text chunking, spell checkiXhosa (sometimes referred to as isiXhosa) is one of the eleven official languages of South Africa and is spoken by over 8 million South Africans. The language is mainly spoken in the Eastern Cape and Western Cape provinces of the country. It is the second most widely spoken native language in South Africa after Zulu (sometimes called isiZulu). Although the number of speakers might seem to be high, Xhosa is considerably under-resourced. There are very few publications in Xhosa, very few books have been published in the language and also the domains that use the language as a medium of instruction are very limited. However, the language is finding momentum nowadays. An Oxford approved Xhosa dictionary has been developed recently, and Xhosa newspapers that did not exist in the recent past are now published. Text from previously mentioned sources can then be combined to formulate a larger text that can be used to train the tagger. This work aims to develop an effective POS tagger for Xhosa. g and grammar. This thesis presents/describes the work that needed to be done to produce an automatic POS tagger for Xhosa. A tagset consisting of 36 POS tags/labels for the language were used for this purpose. These are listed. A total of 5000 words were manually tagged/labelled for the purpose of training the tagger. Another 3000 words were used for testing the tagger and these were disjoint from the manually tagged training data. The open source Stanford CoreNLP toolkit was used to create the tagger. The toolkit implements a Maximum Entropy machine learning model which was applied in the development of the tagger presented in this thesis. The thesis describes the implementation and testing processes of the model in detail. The results show that the development of the Xhosa POS tagging model was successful. This model managed to obtain a tagging accuracy of 87.71 percent.
- Full Text:
- Date Issued: 2016
- Authors: Delman, Xolani
- Date: 2016
- Subjects: Computational linguistics -- Methodology Natural language processing (Computer science) Linguistic models
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/11872 , vital:39114
- Description: Part-of-Speech (POS) tagging is a process of assigning an appropriate part of speech or lexical category to each word in a given sentence of a particular natural language. Natural languages are languages that human beings use to communicate with one another be it Xhosa, Zulu, English etc. POS tagging plays a huge and important role in natural language processing applications. The main applications of POS tagging include machine translation, parsing, text chunking, spell checkiXhosa (sometimes referred to as isiXhosa) is one of the eleven official languages of South Africa and is spoken by over 8 million South Africans. The language is mainly spoken in the Eastern Cape and Western Cape provinces of the country. It is the second most widely spoken native language in South Africa after Zulu (sometimes called isiZulu). Although the number of speakers might seem to be high, Xhosa is considerably under-resourced. There are very few publications in Xhosa, very few books have been published in the language and also the domains that use the language as a medium of instruction are very limited. However, the language is finding momentum nowadays. An Oxford approved Xhosa dictionary has been developed recently, and Xhosa newspapers that did not exist in the recent past are now published. Text from previously mentioned sources can then be combined to formulate a larger text that can be used to train the tagger. This work aims to develop an effective POS tagger for Xhosa. g and grammar. This thesis presents/describes the work that needed to be done to produce an automatic POS tagger for Xhosa. A tagset consisting of 36 POS tags/labels for the language were used for this purpose. These are listed. A total of 5000 words were manually tagged/labelled for the purpose of training the tagger. Another 3000 words were used for testing the tagger and these were disjoint from the manually tagged training data. The open source Stanford CoreNLP toolkit was used to create the tagger. The toolkit implements a Maximum Entropy machine learning model which was applied in the development of the tagger presented in this thesis. The thesis describes the implementation and testing processes of the model in detail. The results show that the development of the Xhosa POS tagging model was successful. This model managed to obtain a tagging accuracy of 87.71 percent.
- Full Text:
- Date Issued: 2016
Do differences in personality traits affect how drivers experience music at different intensities?
- Authors: Tlhoaele, Kebaabetswe
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/3695 , vital:20536
- Description: Various researchers have investigated contributing factors towards the number of acute traffic incidences in and around Southern Africa. Some of these contributing factors include: the skills component of the driver predominately attributed to driving experience as well as the behavioural component influenced by the driver’s natural predisposition, individual differences and personality traits. In order to manage these factors drivers have developed varying coping mechanisms. One of these coping mechanisms is listening to music while driving, which is readily available in most cars and extensively used predominately during long duration driving. Listening to music neither increases one’s driving duration (as opposed to taking several breaks), nor does it interfere with the physical movements of driving (in the manner that eating and drinking may), but it might impact the concentration and attention of some drivers. This is based on the notion that music is assumed to impact arousal and cognitive ability. While there are several studies on the effect of music on driving performance and personality traits very few studies have looked at whether music has a positive or negative effect on driving performance based on differences in personality traits; and whether the extent of this effect might differ for different intensities of music? Consequently, this study aims to understand and determine the extent to which different personality traits predict the effect that listening to different music intensities has on driving performance. The impact of differing music conditions on the different personality traits used a repeated measures design and a between group design with respect to the personality traits with a sample size of (n=25)-16 females and 9 males-and their ages ranged between 19-35 years of age. The average age and standard deviation for this sample size was 22 years±2. A low-fidelity driving simulator task was utilised in order to provide a controllable, repeatable and a safe environment as compared to a real road situation. Personality was assessed using an online Big-Five Inventory scale (extraversion, agreeableness, conscientiousness, neuroticism, openness). All the different personality groups completed three conditions (45 minutes each) in a randomised order (without music, moderately loud music and loud music). Psychophysiological parameters i.e. heart rate frequency (HRF), heart rate variability (HRV) and eye movements (pupil diameter, eye speeds, fixation duration, blink frequency and blink duration) and driving performance were measured continuously. Subjective performance Multidimensional Driving Style Inventory was measured once-off prior to completion of the testing sessions, whilst the NASA-Task Load Index scale and Perceived control of participants were assessed after each condition. The expected outcomes revealed that music had an effect on objective driving performance (tracking deviation and reaction time) and psychophysiological measures only for participants of certain personality types while other personality types were unaffected by music. The subjective performance measures did not follow the same trend as objective performance measures. The conditions did not reveal an effect on driving performance, for most of the psychophysiological parameters and subjective measures. There was mainly a significant time on task effect and interactional effects on the psychophysiological measures (physiological and oculomotor) parameters at (p<0.05), but not on the subjective measures as anticipated. The study illustrated that the there are differences between personality traits. There was difficulty in the interpretation of the results based on the complexity of the findings for which each hypothesis was partially accepted. The research may establish practical implications for traffic safety campaigns in South Africa, as well as influence driving education for citizens. Assessing the personality trait would help to form an understanding as to which of the personality traits might be affected negatively from listening to music while driving and those that might benefit. Moreover, this study may assist motorists in understanding the implications of listening to music while driving as this may sometimes elicit risky driving behaviour and possibly cause an accident that may result in death.
- Full Text:
- Date Issued: 2016
- Authors: Tlhoaele, Kebaabetswe
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/3695 , vital:20536
- Description: Various researchers have investigated contributing factors towards the number of acute traffic incidences in and around Southern Africa. Some of these contributing factors include: the skills component of the driver predominately attributed to driving experience as well as the behavioural component influenced by the driver’s natural predisposition, individual differences and personality traits. In order to manage these factors drivers have developed varying coping mechanisms. One of these coping mechanisms is listening to music while driving, which is readily available in most cars and extensively used predominately during long duration driving. Listening to music neither increases one’s driving duration (as opposed to taking several breaks), nor does it interfere with the physical movements of driving (in the manner that eating and drinking may), but it might impact the concentration and attention of some drivers. This is based on the notion that music is assumed to impact arousal and cognitive ability. While there are several studies on the effect of music on driving performance and personality traits very few studies have looked at whether music has a positive or negative effect on driving performance based on differences in personality traits; and whether the extent of this effect might differ for different intensities of music? Consequently, this study aims to understand and determine the extent to which different personality traits predict the effect that listening to different music intensities has on driving performance. The impact of differing music conditions on the different personality traits used a repeated measures design and a between group design with respect to the personality traits with a sample size of (n=25)-16 females and 9 males-and their ages ranged between 19-35 years of age. The average age and standard deviation for this sample size was 22 years±2. A low-fidelity driving simulator task was utilised in order to provide a controllable, repeatable and a safe environment as compared to a real road situation. Personality was assessed using an online Big-Five Inventory scale (extraversion, agreeableness, conscientiousness, neuroticism, openness). All the different personality groups completed three conditions (45 minutes each) in a randomised order (without music, moderately loud music and loud music). Psychophysiological parameters i.e. heart rate frequency (HRF), heart rate variability (HRV) and eye movements (pupil diameter, eye speeds, fixation duration, blink frequency and blink duration) and driving performance were measured continuously. Subjective performance Multidimensional Driving Style Inventory was measured once-off prior to completion of the testing sessions, whilst the NASA-Task Load Index scale and Perceived control of participants were assessed after each condition. The expected outcomes revealed that music had an effect on objective driving performance (tracking deviation and reaction time) and psychophysiological measures only for participants of certain personality types while other personality types were unaffected by music. The subjective performance measures did not follow the same trend as objective performance measures. The conditions did not reveal an effect on driving performance, for most of the psychophysiological parameters and subjective measures. There was mainly a significant time on task effect and interactional effects on the psychophysiological measures (physiological and oculomotor) parameters at (p<0.05), but not on the subjective measures as anticipated. The study illustrated that the there are differences between personality traits. There was difficulty in the interpretation of the results based on the complexity of the findings for which each hypothesis was partially accepted. The research may establish practical implications for traffic safety campaigns in South Africa, as well as influence driving education for citizens. Assessing the personality trait would help to form an understanding as to which of the personality traits might be affected negatively from listening to music while driving and those that might benefit. Moreover, this study may assist motorists in understanding the implications of listening to music while driving as this may sometimes elicit risky driving behaviour and possibly cause an accident that may result in death.
- Full Text:
- Date Issued: 2016
Dynamic service orchestration in heterogeneous internet of things environments
- Authors: Chindenga, Edmore
- Date: 2016
- Subjects: Internet of things
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/8001 , vital:31457
- Description: Internet of Things (IoT) presents a dynamic global revolution in the Internet where physical and virtual “things” will communicate and share information. As the number of devices increases, there is a need for a plug-and–interoperate approach of deploying “things” to the existing network with less or no human need for configuration. The plug-and-interoperate approach allows heterogeneous “things” to seamlessly interoperate, interact and exchange information and subsequently share services. Services are represented as functionalities that are offered by the “things”. Service orchestration provides an approach to integration and interoperability that decouples applications from each other, enhancing capabilities to centrally manage and monitor components. This work investigated requirements for semantic interoperability and exposed current challenges in IoT interoperability as a means of facilitating services orchestration in IoT. The research proposes a platform that allows heterogeneous devices to collaborate thereby enabling dynamic service orchestration. The platform provides a common framework for representing semantics allowing for a consistent information exchange format. The information is stored and presented in an ontology thereby preserving semantics and making the information comprehensible to machines allowing for automated addressing, tracking and discovery as well as information representation, storage, and exchange. Process mining techniques were used to discover service orchestrations. Process mining techniques enabled the analysis of runtime behavior of service orchestrations and the semantic breakdown of the service request and creation in real time. This enabled the research to draw observations that led to conclusions presented in this work. The research noted that the use of semantic technologies facilitates interoperability in heterogeneous devices and can be implemented as a means to bypass challenges presented by differences in IoT “things”.
- Full Text:
- Date Issued: 2016
- Authors: Chindenga, Edmore
- Date: 2016
- Subjects: Internet of things
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10353/8001 , vital:31457
- Description: Internet of Things (IoT) presents a dynamic global revolution in the Internet where physical and virtual “things” will communicate and share information. As the number of devices increases, there is a need for a plug-and–interoperate approach of deploying “things” to the existing network with less or no human need for configuration. The plug-and-interoperate approach allows heterogeneous “things” to seamlessly interoperate, interact and exchange information and subsequently share services. Services are represented as functionalities that are offered by the “things”. Service orchestration provides an approach to integration and interoperability that decouples applications from each other, enhancing capabilities to centrally manage and monitor components. This work investigated requirements for semantic interoperability and exposed current challenges in IoT interoperability as a means of facilitating services orchestration in IoT. The research proposes a platform that allows heterogeneous devices to collaborate thereby enabling dynamic service orchestration. The platform provides a common framework for representing semantics allowing for a consistent information exchange format. The information is stored and presented in an ontology thereby preserving semantics and making the information comprehensible to machines allowing for automated addressing, tracking and discovery as well as information representation, storage, and exchange. Process mining techniques were used to discover service orchestrations. Process mining techniques enabled the analysis of runtime behavior of service orchestrations and the semantic breakdown of the service request and creation in real time. This enabled the research to draw observations that led to conclusions presented in this work. The research noted that the use of semantic technologies facilitates interoperability in heterogeneous devices and can be implemented as a means to bypass challenges presented by differences in IoT “things”.
- Full Text:
- Date Issued: 2016
Ecological engineering on rocky shores: grazing, predation, nutrient availability and their influence on epifaunal communities
- Authors: Ndhlovu, Aldwin
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/3453 , vital:20500
- Description: “Ecosystem engineers modify, create/destroy habitat and directly/indirectly modulate availability of resources to other species by causing physical state changes to biotic and abiotic materials” (Jones et al, 1994, page 1). Previous studies have analysed top-down and bottom-up relationships to determine which form of regulation is key in controlling community composition. This study assessed the direct and indirect effects of top down and bottom up factors on the epifaunal communities of macro-algae. Epifauna are subject to the direct top-down effects of predation and bottom up effects of habitat availability. Habitat availability in turn experiences the direct top down effects of grazing and bottom up effects of nutrient availability due to upwelling. Grazing and upwelling may therefore have indirect effects on macro-algal epifauna. Four treatments (Procedural controls, Controls, Predator or Grazer exclusion) set out in a block design (n = 5) were monitored monthly for algal cover of the substratum for 12 months with the surface area of algal plants and epifaunal species composition and abundances assessed at the end of the experiment. The red alga Gelidium pristoides was selected as the ecosystem engineer as it is common, supports a diverse community of epiphytic animals and acts as a nursery for small epifaunal organisms. The experiment was run at two upwelling sites interspersed with two non-upwelling sites. Sites were separated on scales of 100km along approximately 500km of coastline. Dipping whole algae in dish washing liquid provided a strong relationship between their surface area and the weight of the film of dish washing liquid covering them. Surface area was strongly correlated to dry weight but neither surface area nor dry weight was correlated to algal cover of the substratum. Algal cover was influenced by the interactions of treatment with site (nested in upwelling) and upwelling. At all sites, treatments that allowed access to grazers, Grazer + and Control treatments, showed no significant differences and these two treatments had lower algal cover than Predator + and Closed treatments which did not differ from one another 3 [Grazer + = Control < Predator + = Closed]. A total of 44 epifaunal species were identified, with the predominant orders being Amphipoda and Isopoda. Primer results showed that only site had a significant effect on species composition, with sites that were further apart being more different. Site (nested in upwelling) had an effect on total epifaunal abundances when data were non-normalised. When total epifaunal abundances were normalised for algal cover of the substratum or algal surface area to provide density data, predation had no significant effect. Grazing did have a significant effect, but only when data were normalised to algal surface area, not cover, leading to the conclusion that indirect top-down factors through grazing of the sea weed are important in structuring epifaunal communities depending on how habitat availability is measured.
- Full Text:
- Date Issued: 2016
- Authors: Ndhlovu, Aldwin
- Date: 2016
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/3453 , vital:20500
- Description: “Ecosystem engineers modify, create/destroy habitat and directly/indirectly modulate availability of resources to other species by causing physical state changes to biotic and abiotic materials” (Jones et al, 1994, page 1). Previous studies have analysed top-down and bottom-up relationships to determine which form of regulation is key in controlling community composition. This study assessed the direct and indirect effects of top down and bottom up factors on the epifaunal communities of macro-algae. Epifauna are subject to the direct top-down effects of predation and bottom up effects of habitat availability. Habitat availability in turn experiences the direct top down effects of grazing and bottom up effects of nutrient availability due to upwelling. Grazing and upwelling may therefore have indirect effects on macro-algal epifauna. Four treatments (Procedural controls, Controls, Predator or Grazer exclusion) set out in a block design (n = 5) were monitored monthly for algal cover of the substratum for 12 months with the surface area of algal plants and epifaunal species composition and abundances assessed at the end of the experiment. The red alga Gelidium pristoides was selected as the ecosystem engineer as it is common, supports a diverse community of epiphytic animals and acts as a nursery for small epifaunal organisms. The experiment was run at two upwelling sites interspersed with two non-upwelling sites. Sites were separated on scales of 100km along approximately 500km of coastline. Dipping whole algae in dish washing liquid provided a strong relationship between their surface area and the weight of the film of dish washing liquid covering them. Surface area was strongly correlated to dry weight but neither surface area nor dry weight was correlated to algal cover of the substratum. Algal cover was influenced by the interactions of treatment with site (nested in upwelling) and upwelling. At all sites, treatments that allowed access to grazers, Grazer + and Control treatments, showed no significant differences and these two treatments had lower algal cover than Predator + and Closed treatments which did not differ from one another 3 [Grazer + = Control < Predator + = Closed]. A total of 44 epifaunal species were identified, with the predominant orders being Amphipoda and Isopoda. Primer results showed that only site had a significant effect on species composition, with sites that were further apart being more different. Site (nested in upwelling) had an effect on total epifaunal abundances when data were non-normalised. When total epifaunal abundances were normalised for algal cover of the substratum or algal surface area to provide density data, predation had no significant effect. Grazing did have a significant effect, but only when data were normalised to algal surface area, not cover, leading to the conclusion that indirect top-down factors through grazing of the sea weed are important in structuring epifaunal communities depending on how habitat availability is measured.
- Full Text:
- Date Issued: 2016
Ecological principles for honeybush (Cyclopia spp.) conservation and cultivation
- Authors: Beyers, Andrea
- Date: 2016
- Subjects: Fynbos -- South Africa , Rooibos tea industry -- South Africa , Herbal teas -- South Africa
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/5723 , vital:20975
- Description: Market demand for the fynbos-derived honeybush (Cyclopia spp.) tea is on the rise, and there is an urgent need for better conservation of wild Cyclopia populations and for a shift to sustainable cultivation. Rooibos is another popular fynbos product that underwent exponential market growth over the last two decades but this resulted in large-scale conversion of pristine mountain fynbos to intensively-used crop lands. Adopting a conservation agriculture approach in expanding indigenous products will help in conserving biodiversity and ecosystem processes in this global biodiversity hotspot. Conservation agriculture of indigenous fynbos products grown in the Cape Floristic Region (CFR) should follow five main principles in order to maximise biodiversity conservation alongside agriculture. These principles are: 1) maintain high diversity at all levels, 2) conserve soil structure and processes, 3) conserve and restore natural ecosystem processes, 4) promote ecosystem stability and self-perpetuation, and 5) maintain natural areas as sources of ecosystem components. Given the negative ecological consequences of the industrialisation of the rooibos industry, it would be in the interest of biodiversity conservation, and even of agriculture, to apply these principles to honeybush cultivation. In order to prevent further fynbos habitat loss, cultivation of honeybush could be catalysed on old fields rather than in ploughed or cleared fynbos. Here I compare germination, growth and survival of two species (Cyclopia intermedia E.Mey. and C. subternata Vogel) between different land use types (ploughed lands, old fields and intact fynbos) and treatments (cleared and uncleared) in the Langkloof, Eastern Cape, over one year. Plots of each land use type were subject to each of these two treatments, although the ploughed plot constituted only a cleared treatment. Growth was highest on ploughed land, while survival and growth were lowest in uncleared fynbos. Cleared fynbos had the lowest germination success in both species, with the other sites and treatments coming out roughly the same. These results show that although ploughed lands give highest yields, growth and survival on old fields without ploughing is comparable with that on ploughed lands and is therefore a feasible alternative. Understanding the recruitment dynamics of honeybush is imperative for adequate conservation of wild populations. Furthermore, understanding this ecological aspect of the genus will help in developing the honeybush industry as a sustainable, agroecological market that uses semi-natural populations for production. Although Cyclopia species are early-successional species that germinate after fire, recruitment of Cyclopia pubescens Eckl. & Zeyh. continues throughout the inter-fire period. Cyclopia pubescens populations near Port Elizabeth were described according to their age structure and plant densities to discern possible density-dependent recruitment effects. Results showed that dense stands for the most part do not support high post-fire recruitment. This gives insight into suitable planting densities for new or restore populations and into management guidelines for remnant populations of threatened species. This thesis highlights important issues facing the honeybush industry. Mainstreaming biodiversity conservation into honeybush production is achievable, given that the industry is still relatively young, but this will require further research and strong market leadership.
- Full Text:
- Date Issued: 2016
- Authors: Beyers, Andrea
- Date: 2016
- Subjects: Fynbos -- South Africa , Rooibos tea industry -- South Africa , Herbal teas -- South Africa
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10948/5723 , vital:20975
- Description: Market demand for the fynbos-derived honeybush (Cyclopia spp.) tea is on the rise, and there is an urgent need for better conservation of wild Cyclopia populations and for a shift to sustainable cultivation. Rooibos is another popular fynbos product that underwent exponential market growth over the last two decades but this resulted in large-scale conversion of pristine mountain fynbos to intensively-used crop lands. Adopting a conservation agriculture approach in expanding indigenous products will help in conserving biodiversity and ecosystem processes in this global biodiversity hotspot. Conservation agriculture of indigenous fynbos products grown in the Cape Floristic Region (CFR) should follow five main principles in order to maximise biodiversity conservation alongside agriculture. These principles are: 1) maintain high diversity at all levels, 2) conserve soil structure and processes, 3) conserve and restore natural ecosystem processes, 4) promote ecosystem stability and self-perpetuation, and 5) maintain natural areas as sources of ecosystem components. Given the negative ecological consequences of the industrialisation of the rooibos industry, it would be in the interest of biodiversity conservation, and even of agriculture, to apply these principles to honeybush cultivation. In order to prevent further fynbos habitat loss, cultivation of honeybush could be catalysed on old fields rather than in ploughed or cleared fynbos. Here I compare germination, growth and survival of two species (Cyclopia intermedia E.Mey. and C. subternata Vogel) between different land use types (ploughed lands, old fields and intact fynbos) and treatments (cleared and uncleared) in the Langkloof, Eastern Cape, over one year. Plots of each land use type were subject to each of these two treatments, although the ploughed plot constituted only a cleared treatment. Growth was highest on ploughed land, while survival and growth were lowest in uncleared fynbos. Cleared fynbos had the lowest germination success in both species, with the other sites and treatments coming out roughly the same. These results show that although ploughed lands give highest yields, growth and survival on old fields without ploughing is comparable with that on ploughed lands and is therefore a feasible alternative. Understanding the recruitment dynamics of honeybush is imperative for adequate conservation of wild populations. Furthermore, understanding this ecological aspect of the genus will help in developing the honeybush industry as a sustainable, agroecological market that uses semi-natural populations for production. Although Cyclopia species are early-successional species that germinate after fire, recruitment of Cyclopia pubescens Eckl. & Zeyh. continues throughout the inter-fire period. Cyclopia pubescens populations near Port Elizabeth were described according to their age structure and plant densities to discern possible density-dependent recruitment effects. Results showed that dense stands for the most part do not support high post-fire recruitment. This gives insight into suitable planting densities for new or restore populations and into management guidelines for remnant populations of threatened species. This thesis highlights important issues facing the honeybush industry. Mainstreaming biodiversity conservation into honeybush production is achievable, given that the industry is still relatively young, but this will require further research and strong market leadership.
- Full Text:
- Date Issued: 2016
Effect of lipid inclusion levels in aquafeed on carcass composition, quality change during storage and nutrient excretion in dusky kob (Argyrosomus japonicus)
- Authors: Ginindza, Nhlanhla Joseph
- Date: 2016
- Subjects: Aquaculture
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5387 , http://hdl.handle.net/10962/d1020854
- Description: Dusky kob, Argyrosomus japonicus, is an aquaculture species in South Africa that is in pilot commercial production. While the major nutrient requirements of the species are known, the advantages of incorporating formulated feeds into the diet of the species has yet to be fully explored. Research on formulated feed composition is required to: minimise input costs; improve the organoleptic properties and meat quality; and minimise nutrient loss, which contributes to environmental pollution. This study sought to test the impact of different lipid levels in aquafeeds fed to dusky kob juveniles by determining: (i) growth performance, feeding efficiency, proximate and fatty acid composition; (ii) chemical changes and shelf-life of refrigerated fish fillets; and (iii) metabolic rates and nitrogen excretion of juvenile dusky kob. And more...
- Full Text:
- Date Issued: 2016
- Authors: Ginindza, Nhlanhla Joseph
- Date: 2016
- Subjects: Aquaculture
- Language: English
- Type: Thesis , Masters , MSc
- Identifier: vital:5387 , http://hdl.handle.net/10962/d1020854
- Description: Dusky kob, Argyrosomus japonicus, is an aquaculture species in South Africa that is in pilot commercial production. While the major nutrient requirements of the species are known, the advantages of incorporating formulated feeds into the diet of the species has yet to be fully explored. Research on formulated feed composition is required to: minimise input costs; improve the organoleptic properties and meat quality; and minimise nutrient loss, which contributes to environmental pollution. This study sought to test the impact of different lipid levels in aquafeeds fed to dusky kob juveniles by determining: (i) growth performance, feeding efficiency, proximate and fatty acid composition; (ii) chemical changes and shelf-life of refrigerated fish fillets; and (iii) metabolic rates and nitrogen excretion of juvenile dusky kob. And more...
- Full Text:
- Date Issued: 2016