School of Animal, Plant and Environmental Sciences (ETDs)
Permanent URI for this communityhttps://hdl.handle.net/10539/37998
Browse
62 results
Search Results
Item Influence of polyploidy on morphology, genetic differentiation and reproductive strategy amongst varieties of Rhodohypoxis baurii (Hypoxidaceae)(University of the Witwatersrand, Johannesburg, 2023) Ferreira, Bianca Tasha; Goodman-Cron, Glynis V.; Glennon, Kelsey L.Evolutionary mechanisms, such polyploidy (increase in chromosome sets), alters plant morphology, gene flow and reproductive strategies, which can facilitate the generation or loss of species. Rhodohypoxis L. (Hypoxidaceae) is a small near-endemic Drakensberg genus comprising six species, one of which is Rhodohypoxis baurii. Rhodohypoxis baurii contains three morphologically distinct varieties, with varying ploidy-levels: R. baurii var. baurii (2×, 4×), R. baurii var. platypetala (2× 3× , 4×), and R. baurii var. confecta (2×). Therefore, R. baurii is an ideal system to evaluate whether polyploidy leads to lineage divergence or homogenization and contributes to biodiversity in this lineage. The aim of the study was to assess the influence of ploidy on morphology, genetic differentiation and reproductive strategy among varieties of Rhodohypoxis baurii (Hypoxidaceae), as well as to better recognise the three varieties. Thirty vegetative, floral, and reproductive traits were measured across 124 herbarium specimens and 43 individuals housed in the greenhouse. A matrix containing 20 quantitative and 12 qualitative characters was constructed and a Principal Coordinates Analysis (PCoA) and Non-Metric Multidimensional Scaling analysis (NMDS) were conducted. Important distinguishing morphological features that had a high eigenvalue (shown via a PCA) were selected for direct comparison using box and whisker box plots to compare means ± standard errors (SE). Certain morphological traits such as anther length, peduncle length and tepal sizes differed significantly among the varieties and ploidy levels, with polyploid individuals exhibiting the gigas effect. This was especially evident in R. baurii var. platypetala, which contained many polyploid individuals and exhibited larger flowers (longer and wider tepals) and larger anthers compared to other varieties. Rhodohypoxis baurii var. confecta and R. baurii var. platypetala are genetically, geographically and morphologically similar, differing only in flower colour, flower size and peduncle length. However, most of these differences can be attributed to differences in ploidy and /or altitude with R. baurii var. confecta occurring at higher altitudes and R. baurii var. platypetala containing multiple ploidy-levels. It is therefore evident that ecological differences and polyploidy have shaped the morphological differences in these two taxa. In addition, R. baurii var. baurii populations in the 7 Eastern Cape Drakensberg were morphologically, geographically and genetically distinct from all other populations and varieties, and may be a new/ undescribed taxon; however, this warrants further investigation. Out of 231 experimental crosses, 113 intra-varietal and inter-varietal crosses produced seeds. Rhodohypoxis baurii polyploid individuals show a shift away from sexual reproduction to asexual reproduction as they all showed higher rates of clonal reproduction than the diploid individuals. Moreover, crosses between polyploids yielded lower seed sets and lower germination rates than diploid-diploid crosses. Genetic differentiation and gene flow were quantified for 280 individuals among the varieties and ploidy-levels across 11 populations using 12 microsatellite markers labelled with the FAM NED dyes. Leaf material was collected from 237 individuals of Rhodohypoxis baurii (R. baurii var. confecta n = 88, R. baurii var. baurii n = 87, R. baurii var. platypetala n = 62) and flow cytometry conducted to estimate ploidy. A latitudinal ploidy gradient was evident across sampled populations that corresponds with shifts in reproductive strategy, and changes in the extent of gene flow. Population genetic structure coincided primarily with geographic localities, with diploid Northern Drakensberg populations having similar allelic diversity to one another. The Central and Southern Drakensberg mixed ploidy populations also showed similar allelic diversity but differed from the tetraploid Eastern Cape Drakensberg populations. Furthermore, gene flow was higher between geographically close populations irrespective of ploidy-level, with geographically isolated regions (such as the Eastern Cape Drakensberg) and outlying populations (i.e. Karkloof) showing unique genotypes, indicating little gene flow and allele sharing. Consequently, shifts in reproductive strategy and geographic isolation are likely changing gene flow patterns among varieties and ploidy levels which appears to be facilitating both lineage diversification and homogenization in this speciesItem The application of machine learning methods to satellite data for the management of invasive water hyacinth(University of the Witwatersrand, Johannesburg, 2023-06) Singh, Geethe; Reynolds, Chevonne; Byrne, Marcus; Rosman, BenjaminBiological invasions are responsible for some of the most devastating impacts on the world’s ecosystems, with freshwater ecosystems among the worst affected. Invasions threaten not only freshwater biodiversity, but also the provision of ecosystem services. Tackling the impact of invasive aquatic alien plant (IAAP) species in freshwater systems is an ongoing challenge. In the case of water hyacinth (Pontederia crassipes, previously Eichhorniae crassipes), the worst IAAP presents a long-standing management challenge that requires detailed and frequently updated information on its distribution, the context that influences its occurrence, and a systematic way to identify effective biocontrol release events. This is particularly urgent in South Africa, where freshwater resources are scarce and under increasing pressure. This research employs recent advances in machine learning (ML), remote sensing, and cloud computing to improve the chances of successful water hyacinth management. This is achieved by (i) mapping the occurrence of water hyacinth across a large extent, (ii) identifying the factors that are likely driving the occurrence of the weed at multiple scales, from a waterbody level to a national extent, and (iii) finally identifying periods for effective biocontrol release. Consequently, the capacity of these tools demonstrates their potential to facilitate wide-scale, consistent, automated, pre-emptive, data-driven, and evidence-based decision making for managing water hyacinth. The first chapter is a general introduction to the research problem and research questions. In the second chapter, the research combines a novel image thresholding method for water detection with an unsupervised method for aquatic vegetation detection and a supervised random forest model in a hierarchical way to localise and discriminate water hyacinth from other IAAP’s at a national extent. The value of this work is marked by the comparison of the user (87%) and producer accuracy (93%) of the introduced method with previous small-scale studies. As part of this chapter, the results also show the sensor-agnostic and temporally consistent capability of the introduced hierarchical approach to monitor water and aquatic vegetation using Sentinel-2 and Landsat-8 for long periods (from 2013 - present). Lastly, this work demonstrates encouraging results when using a Deep Neural Network (DNN) to directly detect aquatic vegetation and circumvents the need for accurate water extent data. The two chapters that follow (Chapter 3 and 4 described below) introduce an application each that build off the South African water hyacinth distribution and aquatic vegetation time series (derived in Chapter 2). The third chapter uses a species distribution model (SDM) that links climatic, socio-economic, ecological, and hydrological conditions to the presence/absence of water hyacinth throughout South Africa at a waterbody level. Thereafter, explainable AI (xAI) methods (specifically SHapley Additive exPlanations or SHAP) are applied to better understand the factors that are likely driving the occurrence of water hyacinth. The analyses of 82 variables (of 140 considered) show that the most common group of drivers primarily associated with the occurrence of water hyacinth in South Africa are climatically related (41.4%). This is followed by natural land cover categories (32.9%) and socio-economic variables (10.7%), which include artificial land-cover. The two least influential groups are hydrological variables (10.4%) including water seasonality, runoff, and flood risk, and ecological variables (4.7%) including riparian soil conditions and interspecies competition. These results suggest the importance of considering landscape context when prioritising the type (mechanical, biological, chemical, or integrated) of weed management to use. To enable the prioritisation of suitable biocontrol release dates, the fourth chapter forecasts 70-day open water proportion post-release as a reward for effective biocontrol. This enabled the simulation of the effect of synthetic biocontrol release events under a multiarmed bandit framework for the identification of two effective biocontrol release periods (late spring/early summer (mid-November) and late summer (late February to mid-March)). The latter release period was estimated to result in an 8-27% higher average open-water cover post-release compared to actual biocontrol release events during the study period (May 2018 - July 2020). Hartbeespoort Dam, South Africa, is considered as a case study for improving the pre-existing management strategy used during the biocontrol of water hyacinth. The novel frameworks introduced in this work go a long way in advancing IAAP species management in the age of both ongoing drives towards the adoption of artificial intelligence and sustainability for a better future. It goes beyond (i) traditional small-scale and infrequent mapping, (ii) standard SDMs, to now include the benefits of spatially explicit model explainability, and (iii) introduces a semi-automated and widely applicable method to explore potential biocontrol release events. The direct benefit of this work, or indirect benefits from derivative work outweighs both the low production costs or equivalent field and lab work. To improve the adoption of modern ML and Earth Observation (EO) tools for invasive species management, some of the developed tools are publicly accessible. In addition, a human-AI symbiosis that combines strengths and compensates for weaknesses is strongly recommended. For each application, directions are provided for future research based on the drawbacks and limitations of the introduced systems. These future efforts will likely increase the adoption of EO-derived products by water managers and improve the reliability of these products.Item The impact of nickel and chrome mine tailings on the growth of Hibiscus cannabinus and Linum usitatissimum and a preliminary assessment of their applicability as economically beneficial phytoremediation species(University of the Witwatersrand, Johannesburg, 2023-07) Campbell, Tiago Roberto; Furniss, David; Scholes, MaryCurrent and previous mining activities in South Africa have caused various environmental, human health and societal impacts. This has led to the formation and enforcement of legislation regarding the rehabilitation of active, closed and abandoned mines in South Africa. The requirements contained in this legislation include rehabilitation, skills transfer, job creation and development of post mine land use regarding active, closed and abandoned mines. A common impact of mining activities is the contamination of soils with various metals. The process of phytoremediation has demonstrated potential in the remediation of metal contaminated soils. Plant species commonly utilised in this process are hyper accumulators, which can translocate and accumulate high concentrations of various metals from soils into their biomass. However, large areas of previously economically productive land become underutilised when hyper-accumulators are used for phytoremediation. Economically valuable fibrous plant species have demonstrated potential in their use as phytoremediation species. This presents an opportunity in which economically valuable plant species could be utilised in phytoremediation applications on active, closed and abandoned mines in South Africa. Thus, the aim of this research was to assess the ability of Hibiscus cannabinus and Linum usitatissimum to grow in and extract metals from soil contaminated with nickel and chrome mine tailings. Furthermore, the concurrent use of H. cannabinus and L. usitatissimum as phytoremediative and economically beneficial plant species was determined. Normal (non impacted), rehabilitated (previously impacted) and tailings (impacted) soil treatments were collected and used from the Onverwacht tailings storage facility of Nkomati Nickel mine. Hibiscus cannabinus and L. usitatissimum were cultivated in each soil treatment in greenhouse conditions over a six-month period. Multiple plant growth parameters were recorded at monthly intervals. The amount (mg) and concentration (mg/kg) of Mn, Zn, Ni, Cu, Cr and Co contained within plant tissue samples at the end of the six-month period was determined. The area (ha) of land categories available for H. cannabinus and L. usitatissimum cultivation onsite was determined using Sentinel 2B satellite imagery and supervised image classification. The measured and expected total yield (t), yield value (R), profit/loss margin (R) and amount (g/ha) of Mn, Zn, Ni, Cu, Cr and Co extracted through cultivation of H. cannabinus and L. usitatissimum onsite was determined. The growth of H. cannabinus and L. usitatissimum cultivated in rehabilitated soil was severely impacted. While growth of each species exhibited minimal differences between those cultivated in normal and tailings soil. Hibiscus cannabinus consistently exhibited greater growth than L. usitatissimum. Both species demonstrated the ability to accumulate varying amounts and concentrations of each of the tested metals in their total, above and below ground components. Both species consistently accumulated increased amounts and concentrations of Mn and Zn. Those cultivated in tailings soil exhibited increased accumulation of Cr. Linum usitatissimum generally accumulated metals at higher concentrations than H. cannabinus, however, minimal differences in the amount of metal accumulated between species were observed. Based on the measured yield cultivation of each species onsite would result in economic loss and generally low metal extraction. However, based on the expected yield, species cultivation onsite, in normal and tailings soil, would result in economic gain and generally high metal extraction. Hibiscus cannabinus and L. usitatissimum exhibited phytoremediative and economic potential. Aspects of the current state of mine impacted land in South Africa and the requirements of rehabilitation enforced through South African legislation could possibly be addressed through the application of H. cannabinus and L. usitatissimum for mine rehabilitation strategies.Item Using the South African Diatom Index (SADI) to determine the present ecological status of the Crocodile River, Kruger National Park(University of the Witwatersrand, Johannesburg, 2023-08) Thamae, Seeng; Snow, Gavin; Parrini, FrancescaThe Crocodile River in the Mpumalanga Province of South Africa is a river of great economic significance, while providing support to the surrounding aquatic and riparian ecosystems through ecological processes of chemical, hydrological, and geomorphological nature. This river forms part of the Inkomati River Basin, which serves as a transboundary basin shared between the Republic of South Africa, Mozambique and Eswatini. The importance of the effective management of transboundary water resources, from an African perspective, cannot be stressed enough due to the water-scarce nature of the Southern African region, particularly South Africa. Incorporating Integrated Water Resources Management (IWRM) and Strategic Adaptive Management approaches into the governance of water resources can aid in the protection of both the quality and quantity of the country’s freshwater reserve. Good governance of water resources is essential in the conservation of aquatic and riparian ecosystem biodiversity, as well as meeting the basic human needs reserve, which is essential to meet people’s daily drinking, food preparation and personal hygiene requirements. The Crocodile River is not immune to pollution of anthropogenic origin, such as urbanisation, mining, agriculture, and industrial by-products. The above mentioned constitutes some of the direct and indirect results of large-scale stresses that are exerted on a river system, mainly owing to environmental factors such as landscape, demographic, atmospheric and hydrologic changes. A few practical examples of these factors include changing population dynamics and resultant land-use requirements, accompanied by compromised riparian vegetations arising from the altered land-use. All this necessitates the regular monitoring of the quality of water in this river system. The outcome of regular river monitoring is essential to the protection of this resource through regulation and policy. The use of physico-chemical parameters to determine the health of the Crocodile River has assisted in identifying compromised aquatic and riparian ecosystems and ultimately recommending relevant mitigation strategies necessary in maintaining an acceptable standard of water quality. Incorporating biomonitoring techniques, wherein aquatic microorganisms are used to infer water quality, as a tool to assess the health of a river ecosystem has proven useful, mainly due to the sensitivity of periphyton assemblages (algae, cyanobacteria, diatoms) to changing river conditions, based on nutrients and physico-chemical parameters. The use of these organisms, in bio-assessments of aquatic ecosystems has been key to overall river health monitoring. This study highlights how diatoms, through their published ecological data, can contribute to the Resource Directed Measures method of determining the Present Ecological Status of a river, using the Crocodile (East) River as a case study. The current study was developed to assess the ecological category of the Crocodile River, along the southern boundary of the Kruger National Park. Four sampling sites were identified for the study, from which water samples were collected during September 2019, October 2019, and March 2020 sampling sessions. The basis of this was to investigate the changes in diatom communities and dominant microphytobenthos (MPB) groups (based on the tolerance to fluctuating environmental conditions amongst the various species) in response to the spatio-temporal changes in the quality and quantity of water at the four sites throughout the study period. These results were then compared to past studies to determine if there has been a change in river health over the past decade. Physico-chemical variables were measured in situ using a YSI Professional Plus (Pro Plus) multi-parameter instrument, which included temperature, pH, electrical conductivity, and dissolved oxygen. The benthic microalgal biomass of cyanobacteria, green algae and diatoms was quantified from the fluorescent signatures of the groups in situ using a bbe BenthoTorch. The bbe BenthoTorch is a hand-held apparatus that uses in situ quantification of chlorophyll-a fluorescence as an index of benthic algal biomass. The diatoms present in the samples were later prepared and isolated for microscopic identification and individual counts. The Relative Abundance (RA%) of dominant diatom species and the ecological category of each sampling site was determined using OMNIDIA software based South African Diatom Index (SADI). Ecological categories using the SADI range from A (good quality) to E (bad quality). Data analyses include the use of ordination plots (CCA and PCA) to evaluate the response of the dominant diatom species to changing environmental variables and the interspecific relationships between the diatom species in each assemblage, based on their ecological requirements. The study revealed that the ecological status of the Crocodile River when compared to previous studies had remained the same; C (moderate quality). This finding supports the use of the South African Diatom Index (SADI) in determining the Present Ecological State of the Crocodile River, in the Kruger National Park. There have been similar studies in other river systems within the Kruger National Park, wherein diatoms (specifically diatom-based index scores) were used to infer the water quality, at the time, in comparison to historic / benchmark water quality parameters. These studies were conducted in the Olifants, Letaba and the Sabie rivers of the park. The viability of these studies is motivated by benthic diatoms being particularly sensitive to changes in water quality, making them an ideal indicator of river health that is complementary to the current suite of biomonitoring tools. This method has immense potential in South Africa, provided that more focus is placed on diatoms and investment made in capacitating researchers and diatom taxonomists with the skills to perpetuate this vast field of study.Item South African Podocarpaceae distribution interpreted from a physiological and population genetics perspective(University of the Witwatersrand, Johannesburg, 2023-09) Twala, Thando Caroline; Fisher, Jolene T.; Glennon, Kelsey L.Podocarpaceae (podocarp) are the most diverse conifer family with a Southern Hemisphere distribution. Podocarps occur in Afrotemperate and Afromontane forests at high elevations that are cool and humid. Podocarps once dominated the forest canopy but due to their slower growth rate and photosynthetic rates they have are in competition withangiosperms which have faster growing and higher photosynthetic rate. Due to the competition between podocarps and angiosperms, Bond (1989) proposed that podocarps were excluded to nutrient poor and unfavourable environments due to their limited competitive ability. However, podocarps persist under the forest canopy until conditions become favourable. This power dynamic shifts with climate oscillations where podocarps distributions expand and dominate when conditions become cooler. Owing to podocarps being the most diverse and widespread conifers they make for a good study system. This thesis focuses on understanding the climatic variables driving the current and future distribution of podocarps, how their seedling physiology may influence their ability to recruit and establish under climate change, and how this can influence their ability to disperse in their South African distribution. Ensemble species distribution modelling was used to characterise the current and future distribution of podocarps and identify the climatic variables that influence their distribution. The current and future environmental niche was quantified using environmental niche modelling. I found that variables predicting rainfall seasonality were the most important at determining the distribution of podocarps in South Africa. Afrocarpus falcatus and P. latifolius were predicted to have the largest geographic distribution, with P. henkelii and P. elongatus having restricted distributions. Both A. falcatus and P. latifolius were predicted to occur in the Limpopo, Mpumalanga, KwaZulu-Natal, Eastern Cape and Western Cape provinces of South Africa. Podocarpus henkelii was predicted to occur in the KwaZulu-Natal and Eastern Cape provinces. Podocarpus elongatus is endemic to the Western Cape Province. All four podocarps were predicted to expand to higher altitudes (up the escarpment) under climate change and contract in its coastal distribution. Although P. elongatus was predicted to occupy the smallest geographic distribution it was predicted to have the widest environmental niche than the other species, which was predicted to contract under climate change. The environmental niche of P. latifolius and P. henkelii was predicted to remain stable. Afrocarpus falcatus, P. latifolius, and P. henkelii showed niche conservatism, however, P. elongatus under RCP 4.5 → current and the RCP 8.5↔ current niche comparisons showed niche divergence. Podocarpus elongatus was predicted to expand to an environment it currently does not occupy. Ecophysiological and morphological experiments were conducted to understand how podocarp seedlings respond to drought and elevated temperatures. The experiments indicated that P. henkelii seedlings were more drought and heat tolerant than A. falcatus seedlings. Conditions are predicted to become hotter and drier in some parts of South Africa, and this study has shown that P. henkelii seedlings will be able to tolerate these conditions better than A. falcatus seedlings. Furthermore, this suggests that the distribution of P. henkelii is not constrained by its physiology but rather by other mechanisms such as competition, reproductive biology, and/or shade tolerance. Microsatellites were used to inform us about possible podocarp dispersal patterns in A. falcatus, P. latifolius and P. henkelii in South Africa. The results suggested that podocarp populations in South Africa were shown to have higher genetic diversity than other podocarps globally, however these results may be due to the limited number of microsatellites used in this study, smaller population sizes in comparison to other studies and methods used to measure population structure and diversity. As expected, the geographically widespread species (A. falcatus and P. latifolius) are more diverse than the geographically restricted P. henkelii. Geographically distant A. falcatus and P. henkelii populations showed higher differentiation than geographically proximal populations. In P. latifolius South African populations, there was strong isolation by distance. Although the distribution of podocarps is disjunct, there is dispersal between populations. Podocarps are resilient to climate change as was demonstrated by the work in this thesis, and by their paleodistribution expanding and contracting with climate oscillations. In this thesis I considered climate, ecophysiology and genetics as determinants of podocarps distribution. Under climate change, podocarps are predicted to expand to higher elevations to track favourable climatic conditions. Seasonal drought is the most important climatic determinant of podocarp distribution. The ability of these species to tolerate drought and heat stress suggests that the seedlings might be able to tolerate short periods of drought and heat stress, however prolonged exposure may lead to seedling mortality, but populations will then be maintained by adults. Populations show evidence of gene flow, indicating they will be able to persist through changing climates, as they have done in the past. This thesis has highlighted that the factors constraining podocarp distributions might be demographic, and future works should investigate the role of fire in podocarp seedling establishment and longevity, as well as their interactions with angiosperm competitors.Item Assessment of the Environmental Authorisation Processes and Mining Right Applications for Improved Environmental Outcomes(University of the Witwatersrand, Johannesburg, 2023) Antoniades, Maria; Watson, IngridThis study investigates alignment of South African mining right and environmental authorisation application processes to determine their adequacy in catering for optimised early mine planning seeking to achieve enhanced environmental outcomes. First the legislative requirements for mining right and environmental authorisation applications are evaluated. Results are critically analysed, including an assessment of process alignments and disjunctions. Secondly, integration of the application study processes in practice are investigated. The practical implications of the application requirements are qualitatively examined through key informant and case study analysis. It is shown that integrated planning is not a legislated requirement nor readily adopted by proponents. Environmental planning conforms to technical outputs as tick-box exercises rather than being iterative and co-operative. Workstreams misalignments result in poor planning to the detriment of environmental outcomes. Finally, a practical guidance is presented for early integrated study processes aimed at meaningful project design through parallel planning to optimise environmental results.Item Comparative Analysis of Water Hyacinth Efficiency as Biosorbent and Phyto remediating Plant for Removal of Lead (Pb) Water Contaminants(University of the Witwatersrand, Johannesburg, 2023-08) Nwagbara, Victor Uzoma; Parrini, Francesca; Newete, SolomonOne of the major problems facing the modern society is the issues of water contamination. The ability of aquatic plants to serve as both heavy metal biomarkers and phytoremediators has been advocated for many years. The purpose of this study was therefore to compare the efficacy of water hyacith as a biosorbent and phytoremediating plant for removal of lead from contaminated waters. Dry and fresh water hyacinth biomass were exposed to Pb-contaminated water at different time intervals of 1, 7, 14 and 21 days. The results showed that with the increase of the exposure time, the Pb removal capacity of the plant biomass also increased. The Pb water concentration in day 1 and day 7 were significantly different from those in day 14 and day 21 which were not significantly different from each other. The average Pb removal from the Pb-treated waters for the different time exposure of 1, 7, 14 and 21 days in the fresh water hyacinth biomass were 40%, 56%, 78 % and 79%, respectively, the highest reduction being in the latter. The biomass of the freshwater hyacinth roots had the highest Pd concentration compared to the shoot. On The other hand the average Pb removal by the dry water hyacinth biomass were 78.9 %, 78.5%, 78.3 % and 78.3% for day 1, 7, 14 and 21 respectively, showing no significant difference between the different time series exposure. This suggests the instant adsorption of Pb by the dry plant material from the first day of exposure, after which the active sites for adsorption saturates to accommodate any further Pb ion uptake. There were some plant stresses such as leaf chlorosis, and significant decrease in biomass weight and length of leaf-2 petiole in the lead-treated fresh water hyacinth plants compared to the controls (Pb-free water hyacinth plant). Thus, this study confirms that the largest removal by the dry water hyacinth biomass, occurred in the first day as opposed to the last day (day 21) by the freshwater hyacinth biomass.Item Characterizing microclimates as potential thermal buffers for reptiles, birds, and mammals in an arid-zone environment(University of the Witwatersrand, Johannesburg, 2023) Warner, Grace M.; Alexander, Graham J.; Fuller, AndreaAridification, increases in air temperatures and frequency of extreme weather events, such as heat waves, are predicted to intensify under climate change, suggesting dire consequences for dryland animals. Microhabitats may buffer dryland animals against the changing climate, yet microclimatic data remains scarce from Africa and arid regions. The distribution, abundance, and thermal buffering capacity of five microhabitat types (burrows, nests, rock crevices, tree hollows and vegetation) were investigated across three habitat types (dunes, plains, and mountains) in the Kalahari. The distribution and abundance of microhabitats were assessed via strip transects, while thermal buffering capacity was evaluated by comparing miniature black globe temperatures from 70 representative sheltered microhabitats with 12 localised exposed-site microhabitats. The data generated have provided a baseline measure of the abundance and distribution of microhabitats in the Kalahari and have produced a year-long fine-resolution microclimatic thermal dataset. Microhabitat types and abundance were found to differ per habitat type and across topographic gradients. Abiotic drivers, such as soil type and fire frequency, along with drivers such as biotic community composition, were highlighted as potential causes of these microhabitat distribution patterns. Burrows were the best buffered microhabitat across all tested temporal and spatial gradients, providing an average maximum decrease of -29.5 ˚C during the day, and an average maximum increase of 20.1 ˚C during the night. Well-buffered microhabitats were rare within the field-site, whereas some of the poorest buffering microhabitats (Vegetation) were abundant and widespread. Thus, competition for well-buffered microhabitats may increase under climate change, whilst the risk of traversing large distances between microhabitats may become too great for smaller animals as exposure risk to extreme temperatures increases. Furthermore, birds and large mammals may likely be at a high risk of extreme temperature exposure, as their size and structural adaptations may restrict them from access to well-buffered microhabitats. Therefore, the need for the concurrent assessments of microhabitat distribution, abundance and buffering capacity in future species vulnerability assessments is highlighted, as it is the combination of these factors that are likely to impact population viability under climate change.Item Factors affecting mammal utilisation of non-wildlife railway underpasses within the Greater Kruger, South Africa(University of the Witwatersrand, Johannesburg, 2023) de Villiers, Hannah; Parrini, Francesca; Teren, GabriellaRailways are an integral component of sustainable transport systems, but cause significant impacts to biodiversity, primarily through wildlife-train collisions and the habitat fragmentation created in the landscape. Crossing structures (CSs) for wildlife are the key mitigation measure for these adverse impacts, which will be critical throughout Africa, where 55,000 km of new railway lines are predicted to cut through hundreds of protected areas. For the first time in southern Africa, mammal usage of railway underpasses that were not designed to facilitate wildlife movement was studied using camera traps in the Greater Kruger National Park, South Africa. This study demonstrates that 70% of the terrestrial medium and large mammals species present in the area used at least one non-wildlife CS during the study period, with a total of 1,823 usage events by 33 species. Twelve medium to large African mammal species used underpasses regularly, improving the permeability of the railway line for these species. A viaduct design was characterised by almost four times the usage rate of a typical box culvert and was used by twice as many species, including megaherbivores and mesoherbivores, whereas box culverts supported a smaller number of species, of which the majority were predators. Species most affected by rail collisions in the study area were mostly herbivorous and seldom used non-wildlife underpasses. These results indicate that a railway line with only drainage culverts and the occasional viaduct is not effective in providing adequate safe crossing structures for megaherbivores and ungulate mesoherbivores. Contrary to expectations, vegetation and environmental factors influenced mammal usage of box culverts more than structural dimensions. Ensuring that there is high visibility through the structure, with less herbaceous cover and more woody cover outside of entrances, is likely to enhance culvert usage by most trophic groups. In a savanna context where faunal diversity is high and no single species is a target for mitigation, a range of underpass designs including larger viaducts, located in different types of vegetation cover, thereby combining the range of requirements of different guilds, is recommended.Item Evaluating the Effectiveness of Green Drop Audit Criterion in Relation to Its Link to Enforcement Protocol in South Africa(University of the Witwatersrand, Johannesburg, 2022-08) Tshongweni, Olwethu Lenox; Tutu, Hlanganani; Richards, Heidi L.The Green and Blue Drop programs are incentive-based regulatory systems based on the Department of Water and Sanitation's (DWS) realization that rewarding positive behaviour is more efficient and effective than penalizing undesirable behaviour. The Green Drop was developed for the Wastewater Quality Management Regulation certification program. In contrast, the Blue Drop was developed for the certification program for the Drinking Water Quality Management Regulation (Burgess, 2021). Most municipalities have accepted them and have raised awareness about the need for better efficiency in the wastewater sector. The Sand River, in Polokwane wastewater treatment works (WWTWs), was chosen as the research area for this study. This particular river was selected based on the premise of continuous non-compliance of the wastewater treatment plant and the resulting pressure it puts on the Sand River by compromising its quality, with the DWS not having a successful way of regulating and enforcing the water user to abide by the rules of the license that has been issued. This study aims to evaluate the effectiveness of the Green Drop Program audits and assessments about their link to the regulatory system within the DWS. Additionally, a risk assessment and cumulative risk rating are used to assess wastewater discharge into the Sand River in the Limpopo Province. Based on the observation made during the study, it appears that within the DWS organizational arrangements, the lack of coordination among the sectors (compliance monitoring, water quality management, the green drop program, and enforcement), lack of accountability, and the regulatory requirement of cooperation within DWS sectors have hindered implementation. Some of the non-compliance factors may be due to the misuse of funds meant for infrastructure development and difficulties relating to capacity, procurement, and management of the WWTWs. Moreover, DWS's absence of interactive data management systems and business processes contributes to non-compliance. The Polokwane WWTW, directly linked to the Sand River, is overloaded and needs to comply with the Water Use Licence (WUL) conditions. For example, the 21 August 2022, this facility was found to be non-compliant by 69.01%, collectively with administration and technical conditions of the WUL issued to the facility (DWS, 2022c). In addition, this investigation discovered that the Polokwane facility, which has been operating outside of regulations for the past four years, therefore, as calculated in equation 7 could be responsible for 72.3% of the hazards to people's health, the quality of the river's water, and the aquatic ecosystem life in the Sand River in a single month. As much as some municipalities do not perform according to the desired standards, there have been a few noticeable, well-performing ones reported in the green drop report released in 2022. These include Langebaan WWTW (90%), Riebeek Valley WWTW (97%), Gansevallei WWTW (84%), and Wellington WWTW (95%), and this illustrates that the Green Drop Certification is achievable if the municipalities follow and adhere to the Water Use Authorization (WUA) issued them (DWS, 2022b). The DWS must integrate the internal structures or link sectors responsible for monitoring and regulating municipal water service facilities and incentivize performing facilities to improve their performance. Additionally, facilities with minor compliance issues, such as water quality, must be referred to the Water Quality Management (WQM) unit for further investigation and recommendations. However, those non-compliances of authorized wastewater treatment facilities that require regulatory attention must be referred to the compliance monitoring sector through the system for compliance monitoring. Lastly, those facilities that are not authorized must be directed to enforcement for further action. Therefore, using the Integrated Regulatory Information System (IRIS) as the umbrella body for both database and work-based information has an imperative role that can curb some of the issues faced by the DWS. Standard operating procedures (SOPs) should guide all interactions between these systems.