The taxonomy of the topminnows (Teleostei: Cyprinodontiformes) (Procatopodidae: Procatopodinae) of southern Africa
- Authors: Van Zeeventer, Ryan Matthew
- Date: 2020
- Subjects: Cyprinodontiformes -- Africa, Southern , Killifishes -- Africa, Southern
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/145559 , vital:38449
- Description: Taxonomy is a tool that plays a crucial role in the implementation of effective management assessments, the ability to identify different fish species and their life stages, and create effective conservation strategies. Recent years have seen an increase in the discovery of cryptic species which could have an effect on how we implement conservation strategies, increasing the importance of accurate taxonomic assessments. The southern African topminnows of the genera Micropanchax and Lacustricola (Family Procatopodidae) include several species of egg-laying fishes that live in the marginal areas of rivers and lakes throughout the river systems of southern Africa in separated and connected populations. It was recently discovered that these populations showed subtle differences in their morphology and colouration, which led to the belief that new and cryptic species may be present. Previous studies of the Procatopodidae relied heavily on phylogenetic analyses that drew on morphological traits without reliance on molecular methods of analysis. A few of the taxonomic issues were resolved through these limited studies but ultimately the taxonomic status of the Procatopodidae remained poorly understood. Furthermore, these studies had not been updated in recent years and hence the benefits of new technology had not been brought to bear on the issues. A multi-gene analysis using standard phylogenetic methods and five molecular markers (mitochondrial cytochrome C oxidase (COI), mitochondrial cytochrome b (cytb), mitochondrial 16S ribosomal RNA (16S rRNA), nuclear 28S ribosomal RNA (28S rRNA) and mitochondrial Tyrosine Kinase (X-src) (TyrK)) allowed phylogenetic trees to be made which demonstrated clear relationships within Micropanchax and Lacustricola of southern Africa and the out-groups used in the analysis. The inference trees showed that Micropanchax johnstoni was represented by three clades and was shown to be polyphyletic while Micropanchax hutereaui, which was represented by two clades, and Micropanchax katangae, which was represented by one clade, were monophyletic. The two species of Lacustricola, L. myaposae and L. macrurus showed very close relationships to Micropanchax and it is suggested that these two species be transferred to Micropanchax, leaving Lacustricola to only be found in central Africa.
- Full Text:
- Date Issued: 2020
- Authors: Van Zeeventer, Ryan Matthew
- Date: 2020
- Subjects: Cyprinodontiformes -- Africa, Southern , Killifishes -- Africa, Southern
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/145559 , vital:38449
- Description: Taxonomy is a tool that plays a crucial role in the implementation of effective management assessments, the ability to identify different fish species and their life stages, and create effective conservation strategies. Recent years have seen an increase in the discovery of cryptic species which could have an effect on how we implement conservation strategies, increasing the importance of accurate taxonomic assessments. The southern African topminnows of the genera Micropanchax and Lacustricola (Family Procatopodidae) include several species of egg-laying fishes that live in the marginal areas of rivers and lakes throughout the river systems of southern Africa in separated and connected populations. It was recently discovered that these populations showed subtle differences in their morphology and colouration, which led to the belief that new and cryptic species may be present. Previous studies of the Procatopodidae relied heavily on phylogenetic analyses that drew on morphological traits without reliance on molecular methods of analysis. A few of the taxonomic issues were resolved through these limited studies but ultimately the taxonomic status of the Procatopodidae remained poorly understood. Furthermore, these studies had not been updated in recent years and hence the benefits of new technology had not been brought to bear on the issues. A multi-gene analysis using standard phylogenetic methods and five molecular markers (mitochondrial cytochrome C oxidase (COI), mitochondrial cytochrome b (cytb), mitochondrial 16S ribosomal RNA (16S rRNA), nuclear 28S ribosomal RNA (28S rRNA) and mitochondrial Tyrosine Kinase (X-src) (TyrK)) allowed phylogenetic trees to be made which demonstrated clear relationships within Micropanchax and Lacustricola of southern Africa and the out-groups used in the analysis. The inference trees showed that Micropanchax johnstoni was represented by three clades and was shown to be polyphyletic while Micropanchax hutereaui, which was represented by two clades, and Micropanchax katangae, which was represented by one clade, were monophyletic. The two species of Lacustricola, L. myaposae and L. macrurus showed very close relationships to Micropanchax and it is suggested that these two species be transferred to Micropanchax, leaving Lacustricola to only be found in central Africa.
- Full Text:
- Date Issued: 2020
The time course changes in selected fatigue indicators in moderately trained participants
- Authors: Maduna, Bongani Cyprian
- Date: 2019
- Subjects: Athletes -- Health and hygiene , Fatigue , Athletes -- Physiology
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/76354 , vital:30553
- Description: Background: During daily physical activities, individuals will encounter some level of fatigue. This is especially true for athletes who exert their bodies to achieve superior performance and attempt to delay the onset of fatigue as far as possible. However, fatigue is a progressive process that is part of physical exercise. It is therefore, important to understand the various factors associated with fatigue. Objective: The purpose of this research project was to observe the changes in perceptual, physiological responses, and workload while participants performed a fatiguing cycling exercise task. In order to observe the aforementioned changes, one of the three variables, either perceptual, physiological responses or workload was kept constant, while the other two were observed as dependent variables. There were three test conditions, which permitted each variable to be kept constant in at least one of the three test conditions. Methods: Thirty-six apparently healthy university students were recruited for the study. The exercise was of 35 minute duration for each condition, with the data collection for HR (physiological response), RPE (perceptual response), and power output (workload) occurring at two minute intervals from the eighth minute until the thirtieth minute. The participants were required to perform a peak-power-output test in order set the relative performance ranges for each participant in order to elicit an observable fatigue response from all the participants. The three conditions included constant HR response, constant workload, and constant RPE response where each participant performed all of the above conditions on separate days.Results: The perceptual (RPE) response increased significantly (p<0.05) over time in all three test conditions, even under the constant RPE condition where it was expected to remain unchanged throughout the test duration. The HR response only demonstrated a significant (p<0.05) increase over time under the constant workload condition. Lastly, workload remained constant in all three testing conditions. Conclusion: Participants may be able to exercise for longer periods during sub-maximal exercise if they disregard the RPE warning response. In the current study, the RPE response illustrated that participants were being exerted more over time; however, the participants still had physiological and workload capacity to continue exercising. This research project has confirmed the fact that fatigue is a multifaceted phenomenon. Furthermore, it has been illustrated that RPE response alone as an indicator of fatigue onset may be misleading as participants did not breach the HR and workload steady state during the current research. Therefore, it may be more appropriate to assess fatigue onset through the assessment of more than one fatigue variable in order to ensure increased accuracy of the participants’ fatigue state assessment.
- Full Text:
- Date Issued: 2019
- Authors: Maduna, Bongani Cyprian
- Date: 2019
- Subjects: Athletes -- Health and hygiene , Fatigue , Athletes -- Physiology
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/76354 , vital:30553
- Description: Background: During daily physical activities, individuals will encounter some level of fatigue. This is especially true for athletes who exert their bodies to achieve superior performance and attempt to delay the onset of fatigue as far as possible. However, fatigue is a progressive process that is part of physical exercise. It is therefore, important to understand the various factors associated with fatigue. Objective: The purpose of this research project was to observe the changes in perceptual, physiological responses, and workload while participants performed a fatiguing cycling exercise task. In order to observe the aforementioned changes, one of the three variables, either perceptual, physiological responses or workload was kept constant, while the other two were observed as dependent variables. There were three test conditions, which permitted each variable to be kept constant in at least one of the three test conditions. Methods: Thirty-six apparently healthy university students were recruited for the study. The exercise was of 35 minute duration for each condition, with the data collection for HR (physiological response), RPE (perceptual response), and power output (workload) occurring at two minute intervals from the eighth minute until the thirtieth minute. The participants were required to perform a peak-power-output test in order set the relative performance ranges for each participant in order to elicit an observable fatigue response from all the participants. The three conditions included constant HR response, constant workload, and constant RPE response where each participant performed all of the above conditions on separate days.Results: The perceptual (RPE) response increased significantly (p<0.05) over time in all three test conditions, even under the constant RPE condition where it was expected to remain unchanged throughout the test duration. The HR response only demonstrated a significant (p<0.05) increase over time under the constant workload condition. Lastly, workload remained constant in all three testing conditions. Conclusion: Participants may be able to exercise for longer periods during sub-maximal exercise if they disregard the RPE warning response. In the current study, the RPE response illustrated that participants were being exerted more over time; however, the participants still had physiological and workload capacity to continue exercising. This research project has confirmed the fact that fatigue is a multifaceted phenomenon. Furthermore, it has been illustrated that RPE response alone as an indicator of fatigue onset may be misleading as participants did not breach the HR and workload steady state during the current research. Therefore, it may be more appropriate to assess fatigue onset through the assessment of more than one fatigue variable in order to ensure increased accuracy of the participants’ fatigue state assessment.
- Full Text:
- Date Issued: 2019
In silico study of Plasmodium 1-deoxy-dxylulose 5-phosphate reductoisomerase (DXR) for identification of novel inhibitors from SANCDB
- Authors: Diallo, Bakary N'tji
- Date: 2018
- Subjects: Plasmodium 1-deoxy-dxylulose 5-phosphate reductoisomerase , Isoprenoids , Plasmodium , Antimalarials , Malaria -- Chemotherapy , Molecules -- Models , Molecular dynamics , South African Natural Compounds Database
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/64012 , vital:28523
- Description: Malaria remains a major health concern with a complex parasite constantly developing resistance to the different drugs introduced to treat it, threatening the efficacy of the current ACT treatment recommended by WHO (World Health Organization). Different antimalarial compounds with different mechanisms of action are ideal as this decreases chances of resistance occurring. Inhibiting DXR and consequently the MEP pathway is a good strategy to find a new antimalarial with a novel mode of action. From literature, all the enzymes of the MEP pathway have also been shown to be indispensable for the synthesis of isoprenoids. They have been validated as drug targets and the X-ray structure of each of the enzymes has been solved. DXR is a protein which catalyses the second step of the MEP pathway. There are currently 255 DXR inhibitors in the Binding Database (accessed November 2017) generally based on the fosmidomycin structural scaffold and thus often showing poor drug likeness properties. This study aims to research new DXR inhibitors using in silico techniques. We analysed the protein sequence and built 3D models in close and open conformations for the different Plasmodium sequences. Then SANCDB compounds were screened to identify new potential DXR inhibitors with new chemical scaffolds. Finally, the identified hits were submitted to molecular dynamics studies, preceded by a parameterization of the manganese atom in the protein active site.
- Full Text:
- Date Issued: 2018
- Authors: Diallo, Bakary N'tji
- Date: 2018
- Subjects: Plasmodium 1-deoxy-dxylulose 5-phosphate reductoisomerase , Isoprenoids , Plasmodium , Antimalarials , Malaria -- Chemotherapy , Molecules -- Models , Molecular dynamics , South African Natural Compounds Database
- Language: English
- Type: text , Thesis , Masters , MSc
- Identifier: http://hdl.handle.net/10962/64012 , vital:28523
- Description: Malaria remains a major health concern with a complex parasite constantly developing resistance to the different drugs introduced to treat it, threatening the efficacy of the current ACT treatment recommended by WHO (World Health Organization). Different antimalarial compounds with different mechanisms of action are ideal as this decreases chances of resistance occurring. Inhibiting DXR and consequently the MEP pathway is a good strategy to find a new antimalarial with a novel mode of action. From literature, all the enzymes of the MEP pathway have also been shown to be indispensable for the synthesis of isoprenoids. They have been validated as drug targets and the X-ray structure of each of the enzymes has been solved. DXR is a protein which catalyses the second step of the MEP pathway. There are currently 255 DXR inhibitors in the Binding Database (accessed November 2017) generally based on the fosmidomycin structural scaffold and thus often showing poor drug likeness properties. This study aims to research new DXR inhibitors using in silico techniques. We analysed the protein sequence and built 3D models in close and open conformations for the different Plasmodium sequences. Then SANCDB compounds were screened to identify new potential DXR inhibitors with new chemical scaffolds. Finally, the identified hits were submitted to molecular dynamics studies, preceded by a parameterization of the manganese atom in the protein active site.
- Full Text:
- Date Issued: 2018
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