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Expression, partial characterisation and utilization of a GH11 xylanase (Xyn2A) from Trichoderma viride as an additive in monogastric animal feeds

  • Authors: Mzimkulu-Ncoyi, Nosabatha Happyness
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422409 , vital:71940
  • Description: Endo-xylanases (shortly called xylanases) are a group of glycoside hydrolase enzymes that target β-D-1,4-linkages in the xylan backbone, leading to the production of xylooligosaccharides (XOS) of varying degree of polymerization (DP). Xylan is an indigestible non-starch polysaccharide present in monogastric animal feeds which in high amounts leads to increased digesta viscosity, slow movement of digesta in the intestines, malabsorption of nutrients among other challenges. The aim of this study was to investigate the effect of xylanase 2A (Xyn2A) from Trichoderma viride on broiler chicken feeds, particularly the hydrolysis of the xylan content, reduction of feed viscosity and the effect of produced XOS on eliciting the growth of gut associated probiotic bacteria. Xyn2AE was successfully induced with 0.8 mM isopropyl β-D-1-thiogalactopyranoside (IPTG) and produced in Escherichia coli BL21 (DE3) and Xyn2AC was expressed in tobacco mosaic plants. For the purification of Xyn2AE, an immobilized metal affinity chromatography (IMAC) column and diafiltration using a 3kDa cut-off Amicon filter membranes were used. Xyn2AE and Xyn2AC showed a xylanase active band at a relative weight of 21 kDa. Both enzymes showed high specificity towards soluble wheat arabinoxylan (WAX), with specific activities of 7.61 U/mg for Xyn2AE and 536.5 U/mg for Xyn2AC. Xyn2A kinetic parameters (Vmax and Km) were determined by Michaelis-Menten plots on soluble and insoluble WAX. The Vmax and Km values of Xyn2AC were 1003.01 U/mg and 9.25 mg/mL, 302.89 U/mg and 13.54 mg/mL, respectively. The Vmax and Km values of Xyn2AE for soluble and insoluble WAX were 20.45 U/mg and 12.95 mg/mL, and 8.31 U/mg and 13.15 mg/mL. Xyn2A enzymes displayed optimum activity at pH and temperature parameters of 5.0 and 50°C, respectively, and stability in temperatures ranging between 50 and 80°C and pH 4.0-9.0. Broiler chicken feeds were hydrolysed using Xyn2AE over a 24 h period and analysed using the dinitrosalicylic (DNS) assay, thin layer chromatography (TLC), viscometry and visualized using scanning electron microscope (SEM). The results showed a release of release of XOS xylotriose, xylopentose and xylohexose; enzyme’s ability to decrease the viscosity of the feeds and punched holes of feed surface, which was indicative of xylanase action. XOS produced during hydrolysis was used to study prebiotic effect on selected few bacteria and released short chain fatty acids (SCFAs) were measured. Additionally, SCFAs formation was detected in the presence of XOS as a carbon source for S. thermophilus and L. bulgaricus, whereas B. subtilis formed fewer organic acids in the presence of XOS. The results obtained from this study demonstrated that the supplementation of Xyn2A on broiler feeds has ii a positive effect in decreasing feed viscosity. Furthermore, the results of this investigation will assist the South African poultry farming sector to increase profitability in poultry farming and gain stability in the global trade as far as poultry feed is concerned. , Thesis (MSc) -- Faculty of Science, Biochemistry and Microbiology, 2023
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  • Date Issued: 2023-03-29

Factors influencing the number of non-timber forest product species used at the individual, household and village levels in Vhembe, Limpopo Province, South Africa

  • Authors: Mulaudzi, Takalani Rachel
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422481 , vital:71946
  • Description: Non-Timber Forest Products (NTFPs) are wild biological resources obtained from natural landscapes, agricultural systems, and rural and urban regions for a variety of uses. NTFPs contribute significantly to livelihoods and living standards by offering a variety of socioeconomic benefits such as food, health, income generation, and safety nets. These multiple benefits are provided by a wide diversity of plant, animal and fungal species in different settings. However, the precise number of NTFP species used depends on the scale of assessment, namely use by individuals, by households and by villages. Consequently, it is difficult to compare numbers of species used between studies because of the differing scales. As a result, the objective of this study was to determine the number of NTFP species used at three different scales and how each is correlated with appropriate scale-dependent contextual variables. This objective was met by sampling individuals and whole households in five villages in the Vhembe District in Limpopo Province, South Africa. Twenty households were randomly selected in each village, providing a total sample of 100 households and 179 individuals in those households. In each household, every adult member was interviewed individually about the NTFPs that they used or knew. The major questions covered the NTFP species used, the respondents' socioeconomic level, the NTFP species used previously, and if the number of NTFP species are changing in the landscape. Data were reported per individual as well as per household and per village. The household level was derived by adding the responses of all the adults in each household but excluding duplicates. The same approach was used at the village scale, namely, the data across the 20 households were pooled, and duplicates were omitted. Patterns of NTFP use were examined by type of NTFP, and analysis using standard statistical tests, along with a Principal Components Analysis and a multivariate Detrended Correspondence Analysis of the NTFP species composition across villages. A total of 275 species of NTFPs were mentioned across the entire sample, including 81 species of firewood, 48 species of edible insects, 43 species of wild vegetables, 40 species of edible fruits, 38 species of wood utensils, 28 species of medicinal plants, 23 species of thatch grass, 19 species of poles, 19 species of wood for carvings, nine species of reeds, eight species of mushroom, and eight species of fodder. Of these species, some species had more than one use. Approximately 90% of the species used by the respondents were native species. Wild vegetables (e.g., Corchorus olitorius, Amaranthus capensis, Bidens pilosa), firewood (e.g., Colophospermum mopane, Parinari curatellifolia, Combretum hereroense), wild fruit (e.g., Landolphia kirkii, Vangueria infausta), and edible insects (e.g., Imbrasia belina, Macrotermes michaelseni, Encosternum delegorguei) were the most often used NTFPs by communities in the Vhembe area. Most of the households relied on NTFPs for subsistence. At the scale of an individual, the mean number of NTFP species used was 26.8±12.6 across the five villages. When considering a household, the mean number was 36.1±10.7 species. When aggregated across the 20 households per village, the mean number per village was 105.2±34.1 species. The species accumulation curve showed that 20 households per village were reasonably representative for four of the five villages. The results from the principal component analysis (PCA) and correlation analysis revealed that age, education, and employment status were significantly associated with the number of species used by individuals, whereas gender showed no clear correlation. At the household scale, household size was positively related with the number of species used, but income level and income source were not. At the village scale, attributes such as proximity to a town, settlement type, vegetation type, and distance to a nearby savanna all had some influence on the number of NTFP species listed. Most of the respondents felt that the number of species used had increased over the last 10–15 years, although some stated the opposite. Increases were attributed by traditional councils bans, the establishment of protected areas, and restoration. Activities eroding the number of NTFP species were identified as clear felling for farming, climate change, and over-harvesting. This study suggests that communities must be made more aware of the overharvesting of NTFP species in the savanna to avoid biodiversity loss. , Thesis (MSc) -- Faculty of Science, Environmental Science, 2023
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  • Date Issued: 2023-03-29

Implications of changing land use and introducing extralimital giraffe on vegetation in the subtropical thicket, South Africa

  • Authors: Trafford, Bronwyn Kate
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422356 , vital:71935
  • Description: Land use change has increased in southern Africa as many livestock farms convert to game reserves, to restore degraded and overgrazed lands. This leads to a change in herbivore communities with potential positive and negative consequences for vegetation and landscape productivity. This study aimed to look at the effect of land use change and subsequent herbivore community changes, on thicket vegetation structure, composition, and landscape productivity. To attain the study objectives, data were collected from four game reserves and their adjacent livestock farms within the Eastern Cape province in South Africa. These sites were selected because they are within the Subtropical Thicket biome (similar vegetation) and were once used for livestock farming. At each study site, vegetation composition and structure were assessed using a unique bush clump sampling technique along fence line contrasts. Six plots were sampled at each site, three plots on the game reserve lands and three plots on the adjacent livestock farmlands during the dry (July/August 2020) and wet (January/February 2021) seasons. The Normalized Difference Vegetation Index (NDVI), in-situ leaf area index (LAI) and the fraction of intercepted photosynthetically active radiation (FIPAR), were used to assess vegetation productivity between the two land use types. Additionally, diet of an extralimital herbivore, giraffe (Giraffa camelopardalis), was assessed during contrasting seasons (dry and wet) to infer the role this species might have on these landscapes. The diet of giraffes was assessed through field observations, recording plant species that giraffes were feeding on. Floristic results showed that there were no differences in vegetation structure, species composition and richness between the two land types. There was no difference in the overall diversity of plant species on the game reserves than in the adjacent livestock farms. The primary productivity was greater on the game reserves compared to the livestock farms. Field observations of giraffe feeding showed that they fed predominantly on Vachellia karroo followed by Searsia longispina. Their diets did not differ between the two seasons. My study provides an insight into the effects of changing land use and this information can be used to infer the extent to which these changes might have on restoration of degraded landscape and how land use changes may be effective in restoring the degraded thicket vegetation caused by overgrazing and overstocking of domestic livestock. , Thesis (MSc) -- Faculty of Science, Zoology and Entomology, 2023
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  • Date Issued: 2023-03-29

Integrating music and mathematics for connecting across multiple constructs of fractional understanding: an RME task design journey

  • Authors: Lovemore, Tarryn Shirley
  • Date: 2023-03-29
  • Subjects: Communities of practice , Interdisciplinary approach in education , Fractions , Mathematics Study and teaching , Music in mathematics education , Number line
  • Language: English
  • Type: Academic theses , Doctoral theses , text
  • Identifier: http://hdl.handle.net/10962/366200 , vital:65842 , DOI https://doi.org/10.21504/10962/366200
  • Description: Two South African curricular aims: appreciating creativity in mathematics and developing conceptual understanding, motivated this study. Negative views towards mathematics and challenges in teaching and learning fractions at primary school level are reported in literature, with the part-whole construct of fractions often the sole teaching focus. Despite challenges in curriculum integration (high demands on teachers and diluting disciplines), benefits, such as motivation and creative thinking, are noted. I recognised music-mathematics integration as an opportune context for designing tasks to support learners in moving flexibly between the fraction as ratio, fraction as measure and part-whole constructs. Guided by Realistic Mathematics Education principles, I embarked on a participatory dual-design experiment in task design, grappling within three micro-Communities of Practice (micro-CoPs) and across two planes: the Design-Theorising Plane and the Grounded-Practice Plane. In the Design-Theorising Plane, I worked with my two doctoral supervisors, grappling with design obstacles and finding resolutions. COVID-19 restrictions shifted our meetings to online platforms, allowing documentation and analysis of the task design process through recording functions. In the Grounded-Practice Plane, I worked within two separate micro-CoPs, both at independent schools (eight and two participating teachers respectively). Data on the teachers’ interrogation and implementation of the designed tasks were obtained via formal and informal interviews. Their reflections informed ongoing adaptations to the task design. Data were analysed in a matrix I designed and via NVivo coding. Findings include both the product of the task design journey (eight music-mathematics lessons, resources, and representations) and the process (ten groupings of Obstacle-Resolution Cycles). Three key questions (relating to music-mathematics fidelity; to task simplification for implementation; and to appropriate music-mathematics representation) were used in addressing each Obstacle-Resolution Cycle. Designing tasks to teach the part-whole construct of fractions was relatively straightforward, but designing tasks to teach the fraction as ratio and fraction as measure constructs was more challenging. These constructs could not be conflated by superimposing the music and mathematical linear representations. Aligning them, however, allowed for moving flexibly between the constructs. The teachers reported that the integrated music-mathematics tasks and supporting resources enhanced their learners’ fractional problem-solving abilities, simultaneously promoting more positive learner dispositions towards mathematics. , Thesis (PhD) -- Faculty of Education, Education, 2023
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  • Date Issued: 2023-03-29

Leveraging a peer-learning community and expert community members in the integration of indigenous knowledge into the learning and teaching of Grade 10 Chemistry on the rate of reactions

  • Authors: Simasiku, Fredrick Simataa
  • Date: 2023-03-29
  • Subjects: Chemical kinetics Study and teaching (Secondary) Namibia , Ethnoscience Namibia , Scientific knowledge , Peer teaching Namibia , Pedagogical content knowledge , Culturally relevant pedagogy Namibia
  • Language: English
  • Type: Academic theses , Doctoral theses , text
  • Identifier: http://hdl.handle.net/10962/366211 , vital:65843 , DOI https://doi.org/10.21504/10962/366211
  • Description: The integration of indigenous knowledge (IK) in science teaching in Namibia is part of the transformation agenda that hopes to revitalise and make science accessible and relevant to learners’ everyday life experiences. However, there seems to be contradictions between the intended curriculum, the enacted curriculum and the attained curriculum. This disjuncture is exacerbated in part by the fact that science teachers seem to be struggling to be cultural knowledge brokers. It is against this backdrop that this formative interventionist study sought to leverage a peer-learning community and expert community members in the integration of IK into the learning and teaching of Grade 10 Chemistry on the rate of reactions. To achieve this, we mobilised the indigenous technologies of preserving and pounding Mahangu and making Oshikundu to mediate learning of the rate of reactions. The study was guided by the broad overarching research question: How does a peer-learning community and expert community members leverage the integration of indigenous knowledge into the learning and teaching of Grade 10 Chemistry on the rate of reactions? In this study, I used two complementary paradigms, viz. the transformative research paradigm and the indigenous research paradigm. Within these paradigms, I employed a qualitative case study research design using the community of practice and participatory action research as research approaches. Five Grade 10 Chemistry teachers from three schools in the Ohangwena region were involved in this study. Data were generated through semi-structured interviews, co-analysis of curriculum documents, workshop presentations and discussions, practical demonstrations, participatory observation, lesson observation, stimulated recall interviews, and participants’ reflections. Vygotsky’s sociocultural theory and Shulman’s Pedagogical Content Knowledge (PCK) were employed as theoretical frameworks in this study. Additionally, within PCK, Mavhunga and Rollnick’s Topic-Specific Pedagogical Content Knowledge components were used as an analytical framework. I used an inductive-deductive approach to data analysis to come up with sub-themes and themes. The main finding of this study revealed that leveraging a peer-learning community and the expert community members (ECMs) empowered the Chemistry teachers involved in this study to be cultural knowledge brokers and their understanding of how to integrate IK in their teaching improved. Both their subject matter knowledge and pedagogical content knowledge improved through co-developing and enacting exemplar lessons that integrated IK from the expert community members as well as from their own environments. A main insight of this study is that Chemistry teachers should seek opportunities to create peer-learning communities that engage with expert community members who are the custodians of the cultural heritage. The study also shows that this approach will support them to become better cultural knowledge brokers and help their learners bridge the divide between school science and what they have learnt in their homes or community. , Thesis (PhD) -- Faculty of Education, Education, 2023
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  • Date Issued: 2023-03-29

Making the personal political: understanding the impacts of participation in an anti-rape protest for women who have experienced sexual violence

  • Authors: Barker, Kim Elise
  • Date: 2023-03-29
  • Subjects: Sexual assault South Africa , Silent protest , Under-reporting , Sexual abuse victims Attiudes , Narrative inquiry (Research method) , Rape Psychological aspects
  • Language: English
  • Type: Academic theses , Doctoral theses , text
  • Identifier: http://hdl.handle.net/10962/422590 , vital:71960 , DOI 10.21504/10962/422590
  • Description: South Africa is recognised as a country with unusually high levels of rape and sexual violence. The majority of those who experience sexual violence do not acknowledge, disclose or report it, and do not access support. Many factors have been identified which can inhibit acknowledgement and disclosure. While silence is to be honoured as a chosen response, unwanted silencing is of concern. The annual Silent Protest at Rhodes University is a day-long anti-rape protest which draws attention to the attitudes and practices which silence victim-survivors, and enacts solidarity with victim-survivors of sexual violence. I conducted a three year “critically engaged, activist ethnography” with the community of Silent Protestors and organisers. My focus was on the stories that victim-survivors told about the impacts of participating in the protest. Changes in the research context allowed for a participatory action research cycle to be incorporated into the methodology. This offered an opportunity to implement and evaluate some changes suggested by my research contributors. My contributor’s narratives highlighted the ways in which as a society we position those who have been subjected to sexual violence in ways that are limited and limiting and which diminish victim-survivors’ sense of agency and value. This malignant positioning restricts the choices available to victim-survivors. The anticipation of being positioned in negative ways can inhibit victim-survivors from disclosing a violation and accessing care and justice. Participation in the Silent Protest seems to stand against some of the factors which inhibit acknowledgement and disclosure. Through their participation many women took up opportunities to share their story with at least one other person and to receive and offer care. Most described participation as having been beneficial and having helped them move towards living well again. The ways in which the Silent Protest positioned victim-survivors and the choices they were offered in relation to that positioning seemed to open up opportunities for thinking, feeling and acting in ways that they preferred. This suggests that interventions which mobilise both political resistance and mutual care hold promise for developing more accessible and effective services to those affected by sexual violence. , Thesis (PhD) -- Faculty of Humanities, Psychology, 2023
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  • Date Issued: 2023-03-29

MeerKAT observations of three high-redshift galaxy clusters

  • Authors: Manaka, Sinah Mokatako
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422367 , vital:71936
  • Description: Galaxy clusters are the largest, gravitationally-bound structures in the Universe, formed through the hierarchical merger of smaller structures. The most accepted view is that the merging process injects energy into the intracluster medium (ICM) and re-accelerates pre-existing particles and compresses magnetic fields, generating, eventually, synchrotron emission. Such radio emission appears as radio halos, i.e. central Mpc-size diffuse structures, mostly visible in merging or unrelaxed clusters and with a spatial correspondence with the thermal gas component of the ICM. Observations have probed radio halo properties mostly for clusters withM500 > 6×1014 M⊙ at intermediate redshifts (0.3 < z < 0.4), providing support to their connection between mergers, which provide the necessary energy to re-accelerate particles via turbulence. Probing the redshift evolution of radio halos is an important test of the turbulent re-acceleration scenario, as fewer halos are expected at high redshift, given the same mass interval. In this thesis, we present MeerKAT observations at 1.28 GHz of three high-redshift (PSZ2G254.08- 58.45, PSZ2G255.60-46.18 and PSZ2G277.76-51.74, in the 0.42 ≲ z ≲ 0.46 range) clusters, with masses M500 ≳ 6.2 × 1014 M⊙, selected for their disturbed dynamical state – inferred from existing X-ray observations. Our observations reached rms noise values between 20 and 23.5 μJy beam−1, with ∼ 4′′ angular resolution. No evidence of diffuse emission is found at ii full resolution. Low-resolution (∼ 30′′) images achieved rms noise levels of 30-50 μJy beam−1, amongst the deepest observations of high-redshift targets. One radio halo was detected in the least massive cluster PSZ2G254.08-58.45 extending over ∼ 500 kpc, with a 1.20 } 0.08 mJy integrated flux density. We placed a ∼1 mJy upper limit at 95% confidence level on the radio halo flux density for the other two targets. The radio-halo detection is consistent with the recent P1.4 GHz − M500 correlation from Cuciti et al. (2021b), while the upper limit on PSZ2G255.60-46.18 is consistent with being on the correlation. On the other hand, the upper limit on PSZ2G277.76-51.74 places the radio halo well below the correlation. Recently a 1.5 GHz survey (Giovannini et al., 2020) detected a slightly higher fraction of radio halos in clusters in the same redshift range, with power and size typically higher than what we found in our observations. Both observations are, however, not inconsistent with each other. Our results, although with limited statistics, do not disfavour the current scenario of radiohalo formation based on the turbulent re-acceleration model. , Thesis (MSc) -- Faculty of Science, Physics and Electronics, 2023
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  • Date Issued: 2023-03-29

Microbial and extracellular polymeric substance dynamics in arid–zone temporary pan ecosystems

  • Authors: Bute, Tafara Frank
  • Date: 2023-03-29
  • Subjects: Extracellular polymeric substances , Biofilms , Vernal pools , Microbiomes , Sediment–water interface
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422258 , vital:71925
  • Description: Microbial communities of bacteria, viruses, algae, protozoans and fungi participate profoundly in aquatic systems, particularly in mediating processes such as primary production, decomposition, and biogeochemical cycles. In addition, microbiomes produce extracellular polymeric substances (EPS) which encompass a hydrated exopolymer mainly constituted of carbohydrates and proteins. The exopolymer aid proliferation and persistence of biofilms on their resident surfaces. There is however paucity of data on functional diversity of microbiomes in arid zone temporary wetlands with previous research having mainly focused on permanent systems in the northern hemisphere. In the face of ongoing climatic changes and anthropogenic threats to wetlands, it is imperative to assess the health status of aquatic systems in relation to microbial productivity dynamics. In this thesis, colorimetric methods and sequence–based metagenomics were conducted to quantify microbial EPS production and bacterial metagenome functions, respectively. This study was conducted in Khakhea–Bray region (North–West, South Africa) in June 2021 and January 2022 with a focus on evaluating microbial patterns of distribution between seasons (i.e., Dry and Wet) and varying depth i.e., deepest zones (Deep), intermediate depth (Mid) and shallowest regions (Edge). Additionally, potential relationships between EPS and either water content or organic matter content (OM content) were evaluated. In this study it was hypothesized that wet phases and deeper zones will have high EPS production and support more functions in comparison to shallowest regions and dry phases. Carbohydrates and proteins were quantified using the Dubois method and modified Lowry procedure, respectively. Carbohydrates generally occurred in higher proportions than proteins, suggesting that EPS found in these systems was largely diatom produced. The wet phases (wet season and inundation periods) supported more EPS production compared to the dry phases. The results of principal components analysis (PCA) and Spearman’s correlations suggested that EPS was highly correlated with sediment water content among other assessed variables. No significant associations were established between EPS and organic matter content. Spatial distribution of EPS demonstrated similar patterns between the deepest (Deep) and the intermediate depth zones (Mid) however the shallow regions (Edge) had significantly lower concentrations. Bacterial characterization was established by amplification of the 16S rRNA gene using illumina–sequencing protocol. Enzyme functions associated with biogeochemical pathways were predicted in PICRUSt2 bioinformatics pipeline. A total of 15 042 Unique Amplicon Sequence Variants (ASVs) were observed to be affiliated to 51 bacterial phyla and 1 127 genera. All top genera had commonality in heat tolerance. Firmicutes, dominated at phyla level with 59 % (mean ± sd, 19 ± 13 %) relative abundance followed by Actinobacteria and Proteobacteria both at 34 % (18 ± 7 %) and (18 ± 6 %), respectively. Microbial diversity matrices highlighted significant differences in beta diversity more than alpha diversity. Bacterial microbiomes were more distinct between seasons compared to within season, suggesting that functions were seasonally driven. These findings were supported by highest rates of denitrification, carbohydrate degradation and EPS production by core microbiomes in the wet season as compared to low rates of nitrogen mineralisation, carbon fixation and nitrification in the dry season. The present findings represent a first attempt in evaluating sequence–based metagenomics in semi–arid southern African temporary pan ecosystem. Both microbial EPS and bacterial functional potential were highly driven by water availability, with highest rates mainly associated with maximum inundation compared to dry states of pans. It can therefore be suggested that extended dry periods are threatening to microbially mediated processes in temporary wetlands, with implications to loss of biodiversity due to desiccation resulting in poor nutrient cycling. , Thesis (MSc) -- Faculty of Science, Zoology and Entomology, 2023
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  • Date Issued: 2023-03-29

Mineral paragenesis of olmiite/poldevaartite and rhodochrosite/shigaite occurrences in the Kalahari Manganese Field, and their relation to the formation of high-grade manganese ore of Nchwaning II mine, Black Rock, South Africa

  • Authors: Opperman, Alicia
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422448 , vital:71943
  • Description: Access restricted. Access embargoed until 2025. , Thesis (MSc) -- Faculty of Science, Geology, 2023
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  • Date Issued: 2023-03-29

Optimization of an intranasal levodopa nanocrystalline formulation for delivery to the brain

  • Authors: Kakono, Chiedza
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/420709 , vital:71771
  • Description: Thesis embargoed. Probable release date in 2025. , Thesis (MSc (Pharm)) -- Faculty of Pharmacy, Pharmacy, 2023
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  • Date Issued: 2023-03-29

Pharmaco-chemical investigation of Erythrina caffra: extracts, isolated compounds and their biological activities

  • Authors: Nogqala, Simnikiwe
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422459 , vital:71944
  • Description: In this study, secondary metabolites isolated from Erythrina caffra, a medicinal plant indigenous to South Africa, were investigated. E. caffra is well-known for its healing properties and it is traditionally used for treating bacterial infections like tuberculosis (TB), abscesses, tooth aches and ear infections. Its extracts have also been used to treat cancer. Though many studies have been done on this plant, most of them tended to focus solely on the isolated compounds. In the present study however, extracts, fractions and isolated compounds from E. caffra were evaluated for their anticancer, anti-oxidant, anti-enzymatic, antibacterial and cytotoxicity. The methanol crude extract (B1) from the stem bark of E. caffra was used to extract alkaloidic fractions (B2 and B3) using ethyl acetate and n-butanol respectively, a third fraction (B4) was also extracted using ethyl acetate this fraction was called a neutral fraction. The neutral fraction (B4) was fractionated and through a sequence of column chromatography three active secondary metabolites were isolated. The isolated compounds included Lupeol (1), stigmasterol (2) and 5,7-Dihydroxy-4'-methoxy-3',5'-diprenylflavanone (3). These isolated compounds were characterized and identified using spectroscopic techniques including IR, NMR and high-resolution Mass Spectrometry. Using the cell line HCC-70, isolated from a primary ductal carcinoma, in vitro anticancer assays were carried out on the crude extract from the bark, fractions, isolated compounds and an unseparated mixture of two compounds. These samples were also evaluated for their anti-oxidant, anti-enzymatic, antibacterial and cytotoxicity activities. The crude extract inhibited the cell viability by over 30% and had no effect on the HeLa cells at concentrations of 20μM. Abyssinone V’ 4-methyl-ether (3) and the mixture of stigmasterol (2) and an unidentified compound exhibited potent anticancer activity against the HCC-70 cell line with IC50 of 18.05μM and 9.04μM respectively. Antibacterial assays were also carried out on the crude extracts, fractions and concoctions made from the fractions with the best activity combined with the ones that performed poorly. The concoctions were prepared as two separate series (S and N series). The crude extract inhibited more than 80% of the Staphylococcus aureus cells at a concentration of 20μM with only minimal damage to the HeLa cells. In the concoctions however, the N series managed to inhibit over 96% of the S. aureus while exhibiting no cytotoxicity towards HeLa cells. The extract and its fractions also showed good anti-oxidant activities. Molecular docking of these compounds was done on the Human estrogen receptor (PDB ID:3ERT) and Abyssinone V’ 4-methyl-ether (3) showed the best docking score of -6.6 Kcal/mol, for the simulation against Epidermal growth factor receptor (PDB ID: 1M17) Stigmasterol (2) showed the best docking score of -3.8 Kcal/mol. In silico docking on 3ERT and 1M17 were done to test the binding affinity of the isolated compounds to the proteins which are well known to be overexpressed in some types of cancer. Flavonoids isolated from Erythrina species have been reported to possess good antiplasmodial activity. However, due to the minute amounts isolated in the present study in-vitro assays could not be carried out. Nevertheless, in-silico assays were conducted on the most prominent protozoal parasite which causes malaria in the majority of African countries. In-silico simulations were done against Plasmodium falciparum protein (PDB ID: 7KJH), of the tested compounds Abyssinone V’ 4-methyl-ether (3) was found possess the best docking score of -4.4 Kcal/mol. The molecular docking of 7KJH was done to assess the inhibitory potential of the isolated compounds on protozoal parasites. Pharmacokinetic properties of the isolated compounds were also assessed in silico to assist in evaluating the drug likeness of these compounds. The compounds showed a percent human oral absorption of 100% except for Abyssinone V’ 4-methyl-ether (3), which showed 93.83%, this indicates a remarkable oral bioavailability. Stigamsterol (2) exhibited a Caco-2 cell permeability (QPPCaco) greater than 500 which indicates outstanding results for good intestinal absorption. The compounds also displayed a blood-brain partition co-efficient (QPlogBB) ranging from -1.433 to 0.128 suggesting they will have less potential to cross the blood-brain barrier, thus reducing any CNS related toxicity. Molecular networking of the crude extracts and the fractions was done through GNPS which allowed the identification of known compounds including one isolated in the present study, Abyssinone V’ 4-methyl-ether (3). Possible derivatives that have not been isolated from this plant before were also putatively identified. , Thesis (MSc) -- Faculty of Science, Chemistry, 2023
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  • Date Issued: 2023-03-29

Photodynamic therapy using morpholine substituted porphyrins in the presence of cancer specific molecules linked to graphene quantum dots

  • Authors: Magaela, Ngwanabjala Bridged
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422486 , vital:71947
  • Description: This thesis reports on the synthesis, characterization, photophysiochemical properties of morpholine substituted symmetrical and asymmetrical porphyrins. The synthesized porphyrins are conjugated to cancer selective biomolecules (folic acid and biotin) which are linked to nitrogen doped graphene quantum dots, as potential photosensitizers for photodynamic therapy (PDT). The symmetrical morpholine porphyrin complexes 2 (Sn(IV) 5,10,15,20 tetra-4-morpholinyl porphyrin) and 3 (Zn 5,10,15,20 tetra-4-morpholinyl porphyrin) had the same substituent but different central metals, and they were both conjugated to biotin decorated nitrogen doped graphene quantum dots (B-NGQDs), however complex 2 (Sn(IV) 5,10,15,20 tetra-4-morpholinyl porphyrin) was conjugated to B-NGQDs through an ester bond and complex 3 (Zinc 5,10,15,20 tetra-4-morpholinyl porphyrin) through 𝜋-𝜋 stacking. The effect of asymmetry was studied by comparing complex 3 (Zn 5,10,15,20 tetra-4-morpholinyl porphyrin) and complex 5 (Zn 5- bromophenyl-10-15-20-(tris-4- morpholinyl) porphyrin). Complex 5 (Zn 5- bromophenyl-10-15-20-(tris-4- morpholinyl) porphyrin) was an asymmetric porphyrin with morpholine and bromine as substituents. It was observed that asymmetry enhances singlet oxygen quantum yield and PDT activity. It was also observed that folic acid is a better targeting biomolecule when compared to biotin, and this was studied by comparing complex 3 conjugated to B-NGQDs and complex 3 conjugated to folic acid decorated nitrogen doped graphene quantum dots (FA-NGQDs). 3-FA-NGQDs had a better cellular uptake and PDT activity. , Thesis (MSc) -- Faculty of Science, Chemistry, 2023
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  • Date Issued: 2023-03-29

Prosecution of forced marriage by international courts and tribunals in light of the principle of legality

  • Authors: Okeyo, Julian Rebecca Atieno
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/420720 , vital:71772
  • Description: Thesis embargoed. Probable release date in 2024. , Thesis (LLM) -- Faculty of Law, Law, 2023
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  • Date Issued: 2023-03-29

Quantifying feed intake and feeding intensity using two experimental conditions and the effect of different feeding strategies on the production parameters of farmed South African abalone, haliotis midae

  • Authors: Wortley, Ross Michael
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/${Handle} , vital:71932
  • Description: As abalone are slow-growing animals there is a high investment of capital, running costs and labour in commercial abalone farming. Revenue needs to be maximised by achieving fast growth rates. A foremost driver of abalone growth is feed intake and feeding intensity of the abalone as well as the feeding regimen a farm utilises. While feed intake is well-documented in H. midae, there is a paucity of information regarding this aspect in abalone above 70 g and the relationship between feeding intensity, feed conversion rate (FCR) and daily growth rate needs to be documented. Similarly, there are a limited number of studies dealing with the effects of different pellet types of the same formulation, that differ only in shape and size, on feed intake and production in H. midae. This study made use of both a controlled laboratory experiment and commercial-scale farm experiment with the aim of testing whether feed intake information produced under laboratory conditions can provide good estimates of feed intake under farming conditions, which can further be implemented into feeding strategies on abalone farms. This study quantified daily feed intake (F) in 10 – 20 g, 100 – 110 g and 150 – 160 g abalone weight classes using two different pellet types and determined the relationship between the duration of feed availability and feed intake under laboratory conditions. The effect of three different pellet type strategies (fed daily: a leaf-only strategy = L d-1, a short-pellet only strategy = SP d-1, and a strategy that used both = B d-1) on abalone production parameters under farming conditions such as growth rate, feed conversion ratio (FCR), feeding intensity (FI) and weight variation of 30 – 40 g H. midae was also investigated. A commercial-scale farm study was designed to test the effect of four commercially relevant feeding regimens (three size-specific regimens and one commercially practiced feeding method) on the growth, FCR, feeding intensity and weight variation of these three abalone weight classes while taking into account an economic model to assess the profitability of each feeding regimen. Daily feed intake as a percentage of body mass (% BM d-1) was a function of abalone weight class between the 10 – 20 g and two larger weight classes 100 – 110 g and 150 – 160 g p < 0.0001), however feed intake was not different between the 100 – 110 g and 150 – 160 g weight classes. Pellet type did not affect feed intake in all abalone weight classes (p = 0.15). Feed intake (F) was positively linearly correlated with duration of feed availability (h) in the 10 – 20 g weight class (r2 = 0.76, p <0.00001) and logarithmically correlated in the 100 – 110 g (r2 = 0.25, p < 0.02) and 150 – 160 g (r2 = 0.52, p < 0.0001) weight classes (10 – 20 g abalone-1: 3 F (% BM) = 0.02(h) + 0.1976, 100 – 110 g abalone-1: F (% BM) = log10(h)*0.17 + 0.17, 150 – 160 g abalone-1: F (% BM) = log10(h)*0.36 + 0.07). There was no significant difference in monthly average abalone weight, daily growth rate (G), FCR and feeding intensity between each pellet type strategy (G: p = 0.60, FCR: p = 0.62, FI: p = 0.54 ). However, abalone grew well over the 112-day growth period with average abalone weight increasing significantly between each monthly sample time (pooled pellet type strategy: Huynh-Feldt correction; p < 0.00001). Furthermore, abalone fed the leaf-only pellet type strategy (L d-1) fell into higher weight classes after a 112-day growth period (Z test: 50 – 70 g: 72%) which was 16.1 % higher compared to the SP d-1 and B d-1 strategies. Daily growth rate (r2 = 0.34, p < 0.01) and FCR (r2 = 0.42, p < 0.004) was negatively correlated and FCR was positively correlated with daily feeding intensity, respectively (G = - 2.59 (FI) + 1.526, FCR = 8.8082 (FI) – 2.7108). Feeding regimen affected the production parameters of three abalone weight classes. The method practiced on the farm resulted in the best growth in the 10 – 20 g abalone weight class. The farm feeding method resulted in slower yet more efficient growth rates (lowest FCR values) in the abalone weight classes, 100 – 110 g and 150 – 160 g abalone- 1. However, size-specific feeding regimens resulted in the fastest growth rates but resulted in higher FCR values (less efficient). The relationship between feeding intensity, daily growth rate and FCR all showed that an increase in feeding intensity results in increased daily growth rates and FCR values. The economic model suggests that the higher FCR values associated with size-specific regimens, which have higher associated costs to producing abalone, were greatly outweighed by the growth attained by the abalone in the 100 – 110 g and 150 – 160 g weight classes. The size-specific regimens generated a higher potential monetary value of abalone after a 112-day period, which would consequently result in higher income for abalone farms. For abalone ranging from 100 – 110 and 150 – 160 grams, the economic model suggested that in a quarterly grading schedule (112 days) that abalone be fed the size specific daily rations, which is a function of body mass, at 0.35 % BM d-1 and 0.352 % BM d-1, respectively. The two experimental conditions used in this study produced feed intake and production parameter information that is beneficial to South African abalone farmers. The small-scale laboratory study produced information on feed intake that can be used as reference values as to what abalone in these weight classes can consume on a daily basis. The laboratory study can provide estimates of feed intake under farming conditions but should only be used as minimum 4 values when determining size-specific feeding regimens. To maximise abalone growth, farmers should utilise size-specific feeding regimens for abalone above 30 g. Daily growth rate and FCR can be predicted as a function of the abalone’s feeding intensity. Further studies are needed to determine the effects of abalone weight class on production parameters when testing different pellet types as well as an exploration into behavioural studies focusing on diet preferences. Additionally, future studies need to take into consideration abalone above the weight of 100 g with additional focus of research on behavioural, genetic and environmental aspects on abalone feed intake. , Thesis (MSc) -- Faculty of Science, Ichthyology and Fisheries Science, 2023
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  • Date Issued: 2023-03-29

Selection of DNA aptamers against Cancer-Targeting Murine Antibodies

  • Authors: Nisbet, Laura Jade
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422426 , vital:71941
  • Description: Access restricted. Access embargoed until 2025. , Thesis (MSc) -- Faculty of Science, Biotechnology Innovation Centre, 2023
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  • Date Issued: 2023-03-29

Semantic segmentation of astronomical radio images: a computer vision approach

  • Authors: Kupa, Ramadimetse Sydil
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422378 , vital:71937
  • Description: The new generation of radio telescopes, such as the MeerKAT, ASKAP (Australian Square Kilometre Array Pathfinder) and the future Square Kilometre Array (SKA), are expected to produce vast amounts of data and images in the petabyte region. Therefore, the amount of incoming data at a specific point in time will overwhelm any current traditional data analysis method being deployed. Deep learning architectures have been applied in many fields, such as, in computer vision, machine vision, natural language processing, social network filtering, speech recognition, machine translation, bioinformatics, medical image analysis, and board game programs. They have produced results which are comparable to human expert performance. Hence, it is appealing to apply it to radio astronomy data. Image segmentation is one such area where deep learning techniques are prominent. The images from the new generation of telescopes have a high density of radio sources, making it difficult to classify the sources in the image. Identifying and segmenting sources from radio images is a pre-processing step that occurs before sources are put into different classes. There is thus a need for automatic segmentation of the sources from the images before they can be classified. This work uses the Unet architecture (originally developed for biomedical image segmentation) to segment radio sources from radio astronomical images with 99.8% accuracy. After segmenting the sources we use OpenCV tools to detect the sources on the mask images, then the detection is translated to the original image where borders are drawn around each detected source. This process automates and simplifies the pre-processing of images for classification tools and any other post-processing tool that requires a specific source as an input. , Thesis (MSc) -- Faculty of Science, Physics and Electronics, 2023
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  • Date Issued: 2023-03-29

Source of introduced populations of Hemidactylus mabouia (Moreau de Jonnès, 1818) into the Eastern Cape Province and the potential spread to other South African regions

  • Authors: Jeme, Alungile
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422334 , vital:71933
  • Description: Human movements globally have resulted in dispersal and introduction of terrestrial and marine organisms into areas outside of their native range. Species that have been introduced to new habitats can either be alien (not causing any harm to the new environment) or invasive alien species (destroying or competing with the indigenous species for resources). Investigating the source of these introductions is important as it provides baseline information about their biology and evolution. It also allows for better prevention measures for future invasions and for effective conservation strategies. In this study, I investigate the source of the introduced populations of tropical house geckos Hemidactylus mabouia in the Eastern Cape Province using two mitochondrial gene regions, ribosomal 16S and NADH dehydrogenase subunit 4 (ND4). We also look at the potential spread of these species using species distribution models (SDMs). The phylogeny showed that the introduced populations into the Eastern Cape were genetically similar to both H. mabouia lineages found in Central & Southern Africa. The phylogeny produced two clades from which the majority of the introduced samples were grouped in a clade with samples from Angola, DRC, and Mozambique, and only a few nested within the second clade with the South African native population. Haplotype networks from both genes also showed two clades, matching those found in the phylogeny. The introduced samples were associated with samples from Angola and those from South Africa (native) as these localities had a number of shared haplotypes. SDMs showed less evidence that these individuals could naturally move west down the coast as the probability of occurrence was below 0.4 from the Eastern Cape to the Western Cape. Our conclusion was that the introductions may be due to multiple avenues like species moving down the east coast or human translocation including trade routes. From this we can conclude that geckos are largely translocated through human movement as they are known for their opportunistic behaviours as they are commensal with humans. , Thesis (MSc) -- Faculty of Science, Zoology and Entomology, 2023
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  • Date Issued: 2023-03-29

The development of a low-cost real- time bacterial plate culture monitoring system

  • Authors: Songcata, Ntobeko
  • Date: 2023-03-29
  • Subjects: Uncatalogued
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422437 , vital:71942
  • Description: Access restricted. Access embargoed until 2025. , Thesis (MSc) -- Faculty of Science, Biotechnology Innovation Centre, 2023
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  • Date Issued: 2023-03-29

The influence of immuno-contraception on the ecology of African savanna elephants (Loxodonta africana) in a small game reserve in the Eastern Cape, South Africa

  • Authors: Fowler, Natalie Rebecca
  • Date: 2023-03-29
  • Subjects: African elephant South Africa Eastern Cape , African elephant Ecology South Africa Eastern Cape , Contraception, Immunological , African elephant Habits and behavior , Porcine zona pellucida , African elephant Reproduction
  • Language: English
  • Type: Academic theses , Master's theses , text
  • Identifier: http://hdl.handle.net/10962/422269 , vital:71926
  • Description: African savanna elephants (Loxodonta africana) can alter the vegetation structure on a landscape which has both positive and negative consequences for biodiversity. This ecological role can be dependent on the density of elephants in a given area and how the area is transformed. Elephants are currently listed as an endangered species on the International Union for Conservation of Nature (IUCN) global red list. Despite this endangered status, strong conservation efforts in southern Africa have increased elephant numbers in protected areas. In South Africa, many of these protected areas are small (<1000 km2) and fenced. Thus, without the freedom to roam over large areas, elephant impacts on vegetation and other ecosystem processes may be exacerbated. Increased growth rates and higher population densities, have prompted wildlife managers to explore several population-level management techniques to slow elephant growth rates in small, protected areas. One such technique is the use of immuno-contraception. My study focused on three datasets (Pre, During and Post porcine zona pellucida (PZP) treatments) of one elephant population over an 18-year period in a small game reserve in the Eastern Cape, South Africa. The first aim of my study was to compare the female demography and reproductive parameters of treated (with PZP) and non-treated females (no PZP). I predicted that the population growth would decrease as more elephant cows were contracepted as well as them having longer inter-calving intervals than non-treated cows. Further, I predicted that there would be a skewed sex ratio of male calves born to treated cows. Lastly, I predicted that fertility rates would be lower in treated cows than in non-treated cows. I calculated the annual population growth rates, inter-calving intervals, sex ratios, age at first calving, fecundity rates and fertility rates of all breeding cows. Population growth rates were similar to other managed populations although, compared to a relatively untouched elephant population, annual growth rates in my study site were high. The inter-calving intervals and age at first birth were low compared to other African protected areas which were most likely influenced by the use of PZP, rainfall and a lack of density dependence. Treated cows did not have longer inter-calving intervals compared to non-treated cows nor was there a male biased sex ratio of the offspring of treated cows. The second aim was to assess the spatial ecology of this elephant population and how it may be influenced by immuno-contraception. I predicted that the use of PZP would increase the elephant herd’s core range as there were fewer reproducing cows. I also predicted that PZP would alter the elephant’s habitat use making them less selective in terms of the vegetation types they selected. I compared the home ranges of the elephant population among the three treatments (Pre PZP, During PZP and Post PZP treatment). Home ranges were larger when elephants were treated with PZP compared to the Pre and Post treatments. The herd utilized most of the reserve during the use of PZP whereas prior to contraception, their space use was mostly concentrated on the eastern side of the reserve. Additionally, the vegetation utilization was inconsistent across the differing timeframes, specifically between pre PZP and during PZP. Prior to the use of PZP, the elephant herd utilized the old lands and riverine thicket the most whereas during the use of PZP, the grasslands and karroid habitats were used the most. The most likely influence of the changes in home ranges and vegetation utilization were rainfall, the use of PZP and resource availability. My results suggest that the use of PZP is essential for controlling elephant population numbers. However, there may be some long-term effects (e.g., behavioural changes) of the use of PZP in elephant populations in small game reserves. Thus, I recommend continued monitoring of all aspects of elephant ecology on reserves where PZP is used as a contraceptive technique. , Thesis (MSc) -- Faculty of Science, Zoology and Entomology, 2023
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  • Date Issued: 2023-03-29

The link between behavioural plasticity and aerobic scope phenotypes in predicting the survival of Chrysoblephus laticeps under climate variability

  • Authors: Bailey, Lauren Ashleigh
  • Date: 2023-03-29
  • Subjects: Chrysoblephus laticeps , Phenotypic plasticity , Fishes Climatic factors , Fishes Physiology , Fishes Behavior , Respirometry , Anthropocene , Thermal tolerance (Physiology)
  • Language: English
  • Type: Academic theses , Doctoral theses , text
  • Identifier: http://hdl.handle.net/10962/422606 , vital:71961 , DOI 10.21504/10962/422606
  • Description: Thermal variability in the marine environment is likely to have a considerable effect on fishes as it impacts physiological performance and vital (i.e metabolism, foraging and swimming style) and non-vital (i.e. reproductive fitness) energetic processes. When fish are subjected to thermal stress, they may primarily respond by changing their behaviour. Species that have broad phenotypic behavioural plasticity (i.e. defined as the ability to adjust behavioural activity in presiding environmental conditions in order to remain within their optimal thermal range) may have a competitive advantage. Fish behavioural plasticity may take many forms. Some species may seek out thermal refugia by changing their phenology or distribution, while others alter the timing of their seasonal and spawning migrations in response to a changing environment. Although fishes can use behavioural changes to cope with climate change impacts, there does appear to be variability in the behavioural responses within species. However, if alterations in behaviour are insufficient to ensure that the individual remains within their optimal thermal range, physiological acclimation (i.e. defined as the process in which an organism adjusts to prevailing conditions by broadening their thermal performance curve so that their performance is maximized in the new thermal environment) may be required. Therefore, there is a critical link between the behaviour and thermal physiology of fishes, particularly in a world where they are facing increasing thermal stress. , Thesis (PhD) -- Faculty of Science, Ichthyology and Fisheries Science, 2023
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  • Date Issued: 2023-03-29
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