South Africa’s freshwater quality and quantity is declining and consequently impacting on the ecological health of these ecosystems, due to increased agricultural, urban and industrial developments. The River Health Programme (RHP) was designed for monitoring and assessing the ecological health of freshwater ecosystems in South Africa, in order to effectively manage these aquatic resources. The RHP utilises biological indicators such as in-stream biota as a structured and sensitive tool for assessing ecosystem health. Although the RHP has been widely implemented across South Africa, no attempts have been made to explore microbial ecology as a tool that could be included as one of the RHP indices. This study used selected microbial responses and water physico-chemical parameters to assess the current water quality status of the Buffalo River. This study showed that water quality impairments compounded in the urban regions of King William’s Town and Zwelitsha and also downstream of the Bridle Drift Dam. The results also showed that the lower and the upper catchments of the Buffalo River were not significantly different in terms of water physico-chemistry and microbiology, as indicated by low stress levels of an NMDS plot. Though similarities were recorded between impacted and reference sites, the results strongly showed that known impacted sites recorded the poorest water physico-chemistry, including the Yellowwoods River. However, the Laing Dam provided a buffer effect on contributions of the Yellowwoods River into the Buffalo River. Multivariate analysis showed that microbial cell counts were not influenced by water physico-chemical changes, whilst microbial activity from the water and biofilm habitats showed significant correlation levels to water physico-chemical changes. This study demonstrated that further investigations towards exploitation of microbial activity responses to water physico-chemical quality changes should be channelled towards the development of microbiological assessment index for inclusion in the RHP.

The study was conducted in Eastern Cape Province to 1) investigate local people’s knowledge and perceptions on Euryops floribundus and 2) landscape distribution and effect of Euryops floribundus on herbaceous vegetation and soil. A total of 90 households who own livestock were randomly selected from the three communal areas, namely; Tsengiwe, Upper Mnxe and Manzimdaka for household surveys and group discussions. For landscape study, a total of about 5 ha of land were selected at Upper Mnxe communal area. Selection criteria included the presence of E. floribundus and different landscape gradients. A total of four 50mx50 plots were marked along the landscape gradients: Bottom, Middle, and Upper Slope and upland positions. To study the effect of E. floribundus invasion on the herbaceous vegetation and soil, a total of 4 ha communal land was selected in an accessible area which had a largely flat terrain. The area was selected to have adjacent sites with no invasion (< 5% shrub cover), light (5-15% shrub cover), moderate (>15-35) and heavy invasions (>35% shrub cover) of E. floribundus. The average household size in the study area was 6.8± 0.7. All people in the three communal areas unanimously ranked sheep as the most important species for their livelihood, but the ranking of cattle and goat varied among the communal areas. All elder groups agreed that Europs floribundus decreases both the quantity and quality of herbaceous forage as well as livestock production. Moreover, invaded patches create more bare areas which are responsible for the loss of top fertile soils and the formation of rills and gullies. The result showed that the total density of E. floribundus significantly increased from the topland (2301 plants ha-1) moving to the bottomland (4888 plants ha-1). Canopy cover was significantly lowest in the topland (17.9%), but the remaining gradients had similar cover. Grass dry matter yield was higher in the bottomlands and sloppy gradients than the toplands. Soil organic carbon was significantly higher (P<0.05) in the flat than the sloppy terrain. Soils from higher elevations (toplands and upper sloppy) had significantly higher N than the lower elevations (bottomlands and Middle sloppy). The lowest dry matter was observed at low invasion and non-invaded sites. Soil chemical properties were generally different from all density levels. In conclusion, E. floribundus encroachment was found to be major cause of decline in the peoples’ livelihood because as this reduces the vegetation diversity and livestock production, both of which are the major of their livelihoods.

The black rhinoceros, Diceros bicornis, is listed as critically endangered. The black rhinoceros population in the Great Fish River Reserve (GFRR) has increased steadily to a current estimate of one hundred animals since the re-introduction of four animals in 1986. In an effort to contribute to the effective conservation and management of this species, dietary composition was studied in the medium Portulcaria thicket vegetation of the GFRR. This study used a molecular approach to determine the diet of the black rhinoceros of the GFRR by sequencing the ribulose bisphosphate carboxylase large subunit (rbcL) gene in plants and dung. Twenty-three plant species were collected from the reserve, and 802 bp of the rbcL gene were sequenced. These plant sequences were used as a reference database for the identification of plant sequences generated from black rhinoceros dung. Initial studies investigated the amplification, cloning and sequencing of DNA extracted from the dung samples which indicated the viability of the molecular approach. Thereafter, dung generated rbcL DNA was analyzed by GS FLX sequencing. Of the plant sequences identified by comparison to the GenBank database, Carissa bispinosa was the most prevalent. The study further characterized the antioxidant activities and phenolic content of plants eaten by the black rhinoceros using four different assays. Phyllanthus verrucosus, Putterlickia pyracantha, Maytenus capitata, Euclea undulata and Ozoroa mucrunata consistently had high antioxidant activities when assayed against 2,2-azinobis (3-ethyl benzothiazolium-6-sulfonic acid) (ABTSʹ⁺), 2,2-diphenyl-1-picrylhydrazyl (DPPHʹ), and ferric reducing antioxidant potentials (FRAP) and phenolic content when evaluated using the Folin-Ciocalteu assay. The majority of plants investigated showed low antioxidant potentials and low phenolic content. The extent to which antioxidants influenced the browse selection by the black rhinoceros remains inconclusive.

Text in Afrikaans, abstract in Afrikaans and English / Lineere plantegroeipatrone bestaande uit afwisselende grasryke mikrotrog- en boomryke- kruinbane wat parallel met die helling georienteer is, kom voor op die voetbang van die Baviaansberg, in die Warmbadgebied, Noordelike Provinsie. Die hoofdoelwitte van die studie was om uit 'n landskapekologiese benadering die verskynsel te probeer verklaar, om die vertikale en horisontale variasie van eienskappe te kwantifiseer en om die impak van die mens daarop te benadruk. Die differensiasie in die Tukulu- en Etoshagrondvorms in onderskeidelik mikrotroe en -kruine is die gevolg van grondprosesse soos illuviasie van klei, loging en ferrolise.Granulometriese analise dui daarop dat die moedermateriaal van gronde van een bron afkomstig is. Kolluviasie en afsetting van moedermateriaal op die voethang was waarskynlik die beginpunt van landskapontwikkeling waar verdeelde oppervlakvloei van water oenskynlik die mikrostrukture geinisieer het. Na aanleiding hiervan het die ontwikkeling van grondverskille en waterregimeverskille tot plantegroeiverskille gelei. Faktore wat die patroon geaksentueer het is termietaktiwiteite, brand en beweiding. / A linear vegetation pattern consists of alternating grassland micro troughs and woody micro crests lanes which were orientated parallel to the slope occurred on the foot slope of the Baviaansberg, in the Warmbaths area, Northern Province. From a landscape ecological approach the principal aims of the study was to explain the phenomenon, to quantify the vertical and horizontal variation of features and to accent the impact of man on it. The differentiation in Tukulu and Etosha forms in micro troughs and micro crests respectively were the effect of several soil processes. Granulometric analyses showed that the parent material of soil was derived from one source. Colluviation and deposit of parent material was probably the starting-point of landscape development where the divided surface flow of water apparently initiated the micro structures. As a result of this the development of soil and water regime differences lead to vegetation differences. / Geography / M. Sc. (Geografie)

This study focused on assessing the condition and creating a carbon inventory of forests in the Matiwane area of the Transkei. This entailed the use of aerial photography in tracing forest cover change from 1942 to 2007 coupled with ground-truthing to assess whether the forests have in any way endured degradation over the years with a potential reduction in carbon stocks as a result. This study revealed both the loss and gain of biomass in the area with a general trend of forests being continuously converted to agricultural fields resulting in reduced forest area, stem density, tree density and carbon loss in different pools of the forests, reflecting that these forests are degraded. The conversion has resulted in the reduction in the number of species from a mean of 11±0.57 species/200m² in intact forests to 1±0.23species/200m² plot in degraded forests. It was also revealed that approximately 5.2 % (791 hectares) of 15 352 hectares of forest area was lost as a result of the conversion of forest land to agricultural fields from 1942 to 2007 with 99 % of the clearing occurring in the last 33 years (1974-2007) and of which 60 % ( 4 77 hectares) occurred from 1995 to 2007, indicating that forest degradation in these forests is on the increase. The assessment also revealed some areas that were nonforest in 1942 that have accumulated woody biomass (BAA), composed mainly of Acacia sp accounting for 51.18 MgC.ha⁻¹ (Megagrams of carbon per hectare) and total carbon stocks of 0.02 TgC (Teragrams of carbon). The degradation of these forests induced a reduction in carbon stocks from 311.68±23.69 MgC.ha⁻¹ (to a soil depth 0-50 cm) in intact forest to 73.46±12.34 MgC.ha⁻¹ in degraded forests. The total carbon stocks in the degraded forests were approximated at 0.06 TgC and the BAA areas 0.02 TgC with 4.7 TgC in intact forests. The degradation of these forests has resulted in the net carbon loss of 0.19 TgC between 1942 and 2007 but 4.76 TgC is still locked in these forests. The large difference in carbon stocks between intact and degraded forests indicated the need to reduce the degradation of these forests to prevent further carbon loss and reduction of the carbon sequestration potential of these forests.

Thesis submitted in fulfilment of the requirements for the degree Master of Technology: Horticulture in the Faculty of Applied Sciences at the Cape Peninsula University of Technology, 2013 / Cape Flats Sand Fynbos (CFSF) is one of the most poorly conserved vegetation types in the Cape Floral Kingdom, and a large proportion of unconserved land is degraded, primarily as a result of transformation by agricultural, urban developments and invasion by alien plants. Fynbos restoration is one of the most important management interventions, both within the current conservation areas and in any future land remnants acquired for conservation. Many extant remnants are fragmented and isolated, and if successful restoration protocols are found, it may be possible to improve the conservation targets for this critically endangered vegetation type. On old fields, where indigenous soil seed banks have been lost due to alien plant invasion and anthropogenic action, it is essential to reintroduce the longer-lived fynbos components that contribute to vegetation structure, in order to facilitate the progress of the ecosystem on a more natural trajectory. This research is built on an earlier study of optimal ground-preparation treatments for restoring Sand Fynbos to old fields. This former study indicated that fossorial mammals (molerats and gerbils) may occur in dense colonies on old fields and present an obstacle to successful seedling establishment. The project aims to provide protocols for the establishment of indigenous seedlings from harvested seed onto old fields, in order to restore Sand Fynbos vegetation. Different pre-sowing treatments and sowing techniques were tested on large field plots to determine the most efficient protocol. The objectives of the research were: a) to investigate optimal pre-sowing treatments of indigenous seed for restoring degraded Sand Fynbos vegetation in old field sites; b) to investigate optimal sowing techniques on large field plots for restoring degraded Sand Fynbos vegetation in old field sites with depleted indigenous seed banks; c) to provide guidelines and disseminate information on optimal sowing protocols, and their costs, for restoring Sand Fynbos vegetation in degraded areas and old fields. A further component of the research was to calculate the costs of all treatments on a per hectare basis in order to assess the cost-effectiveness of the different options. Several different seed treatments may potentially increase the germination rate and promote fynbos restoration. These are scarifying, smoke, smoke water, chemical, light and temperature pre-sowing treatments. In order to keep the number of treatments (including their interactions) to a manageable level, only soaking in smoke water extract and seed coat scarification with course sand and grit were tested. A seed sample of each species was x-rayed at the Millennium Seed Bank in the United Kingdom, to test for viability in the seed samples, 52 % of the seed collected were empty, a typical indication of wild harvested seed. All species were germinated at 10/25 °C and 16/8 hours light/dark respectively. Scarification had a larger overall germination success, smoke water had very little effect on CFSF species, it is rather that germination is related to temperatures during a fire that result in seed coat splitting. It was recommended that further investigation using more species across the Sand Fynbos vegetation be conducted on pre-germination effects of heat and scarification. The study site had been cleared of woody invasive alien vegetation and additional site preparation included the application of a systemic herbicide to kill undesirable herbaceous weeds, prescribed fire to clear the site of woody debris and destroy weed seeds, and the local control of fossorial mammals (gerbils and molerats) by placing raptor perches and owl nesting boxes around the site. This research found that the use of herbicide shortly after the prescribed fire and once again prior to sowing was successful in controlling herbaceous weeds and the indigenous grass Cynodon dactylon. The challenge to using prescribed burning on old fields was low fuel loads, which resulted in a cool patchy. It is suggested that cutting and spreading of alien plant biomass is tested as a solution, however, the material must be evenly spread across the site and not stacked into piles which can cause excessively hot fires and scorching of the soil. In order to better understand soil conditions across the site, soil samples were collected prior to sowing, to analyse for soil macronutrients, organic matter and pH. It was established that all the excess nutrients added to the site from agriculture and pasturage over the years had leached from the soil. However, the organic matter content of the soil was extremely low and research needs to be done on the organic carbon content of the soils, how these relate to soil micro biota (which species are present and their relationship with CFSF species) and how best to enrich the site with humic matter for restoration and establishment of Cape Flats Sand Fynbos. The field trial was set up in the Blaauwberg Nature Reserve, a random split-plot block design, was replicated five times and used to investigate the selected seedbed preparation and sowing techniques, namely: broadcast sowing onto unprepared seedbed, broadcast with plank embedding of seed onto disked seedbed, broadcast onto disked seedbed and hydro-seed with disked seedbed. Results from the research found that the most successful methods for sowing seeds were the hydro-seeding and broadcast with plank embed. These methods may have provided better contact between the soil and seeds and better protection from predation and wind. Economically the broadcast and embed was better as machinery was more efficient and effective than manual labour. This study recommended that these two methods be combined with the additional planting of rare and threatened species in clumps to determine the benefits and interactions of each technique over the long term.

Ph.D. (Zoology) / Scale insects, plant pests of quarantine importance, with specialised anatomy and unresolved phylogenetic relationships, are responsible for major economic losses to South Africa and its trading partners. These losses may reach critical levels if the pests are not timely identified and controlled. They are currently identified based on published keys of adult females, a process that takes three days to two weeks depending on the family and the life stage of interception. In addition, agricultural commodities are often contaminated with different life stages, males or damaged specimen of these pests, making identification difficult or impossible. As a result, shipments of agricultural produce are often rejected and trade disrupted. Furthermore, pest invasions do not only occur by importation via formal channels. At times pests cross boarders as contaminants of undeclared material and may again spread on their own as they naturally expand their range. This expansion may be negatively or positively influenced by other factors such as climate change. Resolving the challenges associated with identification, phylogenetic relationships and the limited knowledge of the effects of climate change on distribution range of scale insects are the main goals of this study. Specifically (i) the development of a rapid method of species identification, (ii) the relationship between and within three major scale insect families the Coccoidea, Diaspididae and Pseudococcidae and (iii) the effect of climate change on the future distribution range of scale insects in South Africa were explored...

M.Sc. (Environmental Management) / Wetlands play a significant role in our environment as they provide a variety of goods, services and benefits to living species ranging from humans, animals and plants to microorganisms. Despite their importance, wetlands have somewhat been neglected over the past few years which has led to a rapid deterioration of wetland conditions and functions. Wetlands provide unique functions that cannot be provided by any other ecosystem; their value was recognised in the 1960s. Prior to this realisation the value of wetlands had been seriously underestimated to the extent where they were even previously labelled as “wastelands”. The reality is that to date minimal measures have been put in place to assist in the rehabilitation and future conservation of wetlands. The lack of wetland management and monitoring can be attributed to the fact that very little is known about the functioning of some of the wetland systems. Endorheic wetlands have recently been emerging as ecosystems of importance. Very little is known about endorheic wetlands and their ecological functioning. To date a fair amount of studies have been conducted on the pans in Mpumalanga and in the Free State but minimal information exists on the pans in the North West Province. The objectives of this study were therefore to compare the abiotic and biotic composition of pans in Mpumalanga and North West Provinces, in order to contribute to the knowledge which will eventually assist in devising rehabilitation measures and future conservation of pans in the area. Three different water ecosystem components were studied; these included aquatic invertebrate communities, water quality and sediment characteristics. The collected water samples were taken to an accredited laboratory to be analysed. When compared between the two provinces, the water-quality results indicated differences between provinces as well as among individual pans. However, most of the pans in both provinces show characteristics of being dystrophic alkaline systems. The invertebrates were collected using sweep nets and stored in jars containing 5% neutrally buffered formalin and a staining agent (Rose Bengal). The sediment characteristics were determined by using standard techniques and results showed that there were no obvious similarities between the different pans in the different provinces. Water-quality analyses were performed on samples taken during both winter- and summer-sampling surveys and these samples were analysed by a reputable laboratory. Based on the analyses of the invertebrate community samples, 25 taxa were identified; results show similarities in the structure of communities in both provinces with the exception of one or two different species. Sampling was conducted over a period of two seasons at all sampling points and several species were found belonging to different families. Invertebrates sampled in Mpumalanga pans were similar to those reported in previous studies done in the area and most of the invertebrates sampled in Mpumalanga and the North West are known to be commonly found in temporary habitats. Spatial and temporal variations in invertebrate assemblages were determined; this analysis displayed differences in the different variables (biotic, physical and chemical) tested over the two seasons. The pans in Mpumalanga were dominated by coarse sand. Large amounts of coarse sand accompanied by poor water quality were observed in MP Pan A in Mpumalanga Province; this could be an indication of somewhat poor catchment management. The results of the abiotic and biotic comparison show that there are minor similarities and differences among the selected pans studied in each province. The knowledge acquired can now be utilised to enhance the available literature on these pans. Long-term studies have to be done to better understand the ecological functioning of the pans in the North West Province in order to devise mitigation measures as well as appropriate rehabilitation strategies and conservation measures.

M.Sc. (Aquatic Health) / Wetlands play an extremely important role in the hydrological cycle as well as biodiversity. Until recently, however, wetlands in South Africa have been neglected both in terms of research and monitoring. The lack of knowledge is even greater for the inward draining wetlands, which is better known as pans. Pans are isolated aquatic systems, which are quite shallow and do not have an outlet. Pans receive water from precipitation and surface runoff, and lose water mainly through evaporation. Some pans can be ephemeral (dry up often) and other perennial (dry up only during drought). The little ecological knowledge available is mainly focused on these ephemeral pans. In this present study conducted in the Western Free-State province, study was only focused on the perennial pans in this area. Due to the fact that this province are one of the biggest areas for gold mining in the country, the pans suffer under the impacts, and this results in the alteration of community structures in and around the pan, simplifying food chains which can lead to the collapse of an ecosystem. The aim of the study was to assess the water quality, bioaccumulation of toxicants (metals and pesticides) in sediment and aquatic invertebrate community of perennial pans in the Western Free State Province, mainly because of the lack of literature on pans in these areas. Seventeen pans were selected for the study of which eight were classified as saline eutrophic and nine as alkaline dystrophic. Various physico-chemical and sediment characteristics were assessed in addition to the characterization of the aquatic invertebrate communities. It became clear that there is great difference in the physical-chemical characteristics of the selected pans. The difference in the trophic state was the most clear, with differences in water colour, nutrient concentration and vegetation growth, classifying pans as either saline eutrophic or alkaline dystrophic. These trophic states influence the distribution and richness of aquatic invertebrates in certain pans. Mining activity, urbanization, agricultural activities and sewage runoff into the pan, all affects the pans negatively, there is sighs of water quality degradation as well as changes in the community structure of invertebrates when compared to the reference pans.

Aspects around the management of benthic soft sediment bait organisms, with special focus on the mud prawn (Upogebia africana) of eastern Cape estuaries was investigated. The recreational linefishery of the Gamtoos estuary was described, and compared to previous studies. Target fish species was identified, and a large dependency on bait sourced from estuaries needed for the capture of these species was noted, especially for spotted grunter (Pomadasys commersonnii). A comparison between bait use, success and the natural diet of target fish species was also made. The structure and distribution of sediments in the old channel mud banks was described and compared with historical data. The influence of sediments on mud prawn distribution was investigated, but no significant interactions were found at the study site. The impacts of once-off pumping and digging events, and monthly trampling on the sediments and mud prawn population was studied over a 7-month period. Initial removal rates as well as recovery time varied significantly between the two collection methods, while the largest decline in prawn numbers (to zero) with no recovery visible after seven months was caused by trampling. All disturbances caused some alteration in sediment composition, but not to such an extent that the sediments became unfavorable for mud prawns. Trampling did, however, result in the compaction of sediments to such a degree that prawns could not construct burrows. Issues around current removal quotas of bait species as well as the creation of a small-scale commercial (SSC) bait selling operation at Swartkops estuary were critically evaluated, and suggestions for the future removal rates of mud prawns based on production export calculations were made. The distribution, size, sex ratios and number of gravid females occurring along a tidal gradient as well as along horizontal gradient of the mud bank during growth (January – March) and reproductive (September – October) periods was investigated. Changes in the distribution of females between the two study periods were significant, while the distribution of reproductively active females were closely linked to the low water mark (Lower tidal levels). Females occurring in this zone were also significantly larger than females occurring towards the back of the study site. Some minor changes along the horizontal gradient were also observed. The sediment compos ition of the mud bank was found not to play a role in this distribution, leading to the suggestion that exposure to ebb and flood tide currents could influence female prawn distributions. Management recommendations based on these observations were made.