Dissertations / Theses on the topic 'Water quality biological assessment – South Africa – Swartkops River'

Freshwater resources are increasingly subject to pollution because of escalating human population growth, accompanied by urbanisation, industrialisation, and the increased demand for food. Consequently, freshwater quality, and aquatic ecosystem structure and function have been severely impaired. The Swartkops River, which drains an urbanised and industrialised catchment in the Eastern Cape of South Africa, is no exception. An integrated environmental water quality (EWQ) approach is needed to measure the impacts of deteriorating water quality on its aquatic ecosystem structure and function to sustain these vital ecosystem-attributes. In this study, an integrated EWQ approach, which included i) analysis of water physico-chemical variables; ii) macroinvertebrate-based family-level taxonomic- and traits-based community analysis; iii) Chironomidae species-level taxonomic- and traits-based community analysis; iv) Chironomidae deformity-based sub-lethal analysis; and v) experimental investigation of long-term wastewater effluent effects, using model stream ecosystems, were applied to investigate environmental water quality in the Swartkops River. One upstream reference site and three downstream sites in the Swartkops River were monitored over a period of three years (August 2009 – September 2012). The family-level taxonomic community responses based on the South African Scoring System version 5 (SASS5) and a newly developed Swartkops multimetric index indicated very poor river health conditions for the three downstream sites, compared with the good condition of the upstream site. The Chironomidae species-level responses in the three downstream sites provided evidence of differences in biotic impairments, which were not evident with the family-level taxonomic data at these sites, thus highlighting the importance of species identification in freshwater biomonitoring. The family-level traits-based approach (TBA) showed that macroinvertebrates with gills and lungs were more abundant at the upstream site, decreasing markedly at the downstream sites. The relative abundance of macroinvertebrates relying on aerial and tegument respiration increased at the downstream sites compared with the upstream sites. The results of the family-level TBA highlighted the inextricable link between the traits-based approach (TBA) and taxonomic identification, clearly showing that the TBA is additional to, and not an alternative to, taxonomic recognition because important traits, e.g. reproductive cannot be used at a coarse taxonomic identification. A novel chironomid species traits-based functional strategies approach developed in this study, based on species combining similar sets of traits, proved sensitive in diagnosing the main abiotic water physico-chemical stressors. The functional traits responded predictably to deteriorating water quality and provided an adaptive and mechanistic basis for interpreting chironomid species occurrences at the four sampling sites, providing insight into why certain chironomid species occurred at one site but not at the other. Chironomid deformities provided evidence of sub-lethal in-stream biological response to deteriorating water quality. A newly developed deformity-based extended toxic score index proved sensitive, enabling the discrimination of the sampling sites, indicating that a biomonitoring tool based on sub-lethal effects could be used to assess the effects of deteriorating water quality before it reached lethal levels. Empirical evidence based on the taxonomic, traits and sub-lethal responses suggested that the changes in macroinvertebrate community structure were caused chiefly by the discharge of wastewater effluents into the river. This was supported by the model-stream ecosystem results indicating significant effects of effluents on the macroinvertebrate community structure, similar to the observed in-stream responses. The model stream results indicated that improved physico-chemical effluent quality compliance after 50% effluent dilution did not significantly reduce the effects of the effluent on the macroinvertebrate communities, showing that ecologically-based methods rather than physico-chemical measures alone are necessary to assess effluent quality. Finally, the results of the multi-criteria approach were integrated to propose tools to manage environmental water quality in the Swartkops River, and the benefits of the study were highlighted in the context of biomonitoring in South Africa.

A growing human population accompanied by urbanisation and industrialisation have led to over exploitation and pollution of freshwater resources and have consequently impacted on aquatic ecosystem health. The Swartkops River in the Eastern Cape of South Africa is no exception. It drains a heavily industrialised catchment which has led to deterioration of its water quality due to pollution. Integrated water resources management (IWRM) requires the concurrent sustainable use of water resources and the protection of aquatic ecosystem health. Macroinvertebrates are well known for their ability to reflect the health of the environment in which they live, thus they were used to assess anthropogenic impacts in the Swartkops River for this study. Macroinvertebrate based biomonitoring approaches, including the South African Scoring System version 5 (SASS5); a multimetric approach involving 19 metrics; Chironomidae community assessments and screening of morphological deformities in Chironomidae larvae, were applied at four selected sampling sites to assess environmental water quality in the Swartkops River. Macroinvertebrates were sampled us ing the SASS5 protocols. Chironomidae were mounted and identified as far as practically possible using available keys. Mentum, ligula, mandible, paraligula and antenna in Chironomidae larvae were screened for deformities. Physical and chemical water quality variables were measured at each of the selected sampling sites. All data were subjected to relevant statistical analyses. Of the four sites sampled during the study period, results revealed that water quality at site 1 was the least impacted with highest SASS5 scores, average score per taxa (ASPT) values, richness, diversity, equitability and Ephemeroptera –Plecoptera-Trichoptera (EPT) richness, as well as least incidences of chironomid deformities. Water quality at site 2 was considered the next least impacted with higher SASS5 scores, A SPT values, richness, diversity and equitability, and lower incidences of deformities compared to sites 3 and 4. SASS5 scores and ASPT values revealed that both sites 3 and 4 were critically modified but the multimetric analysis, Chironomidae community assessment and incidences of deformities in Chironomidae larvae indicated that site 3 is the most impacted of the four sampling sites, with least species diversity, richness, equitability and highest incidences of deformities. The study revealed the importance of multicriteria approach to environmental biomonitoring as an integrated water resources management tool, and based on the results, site 3, as the most impacted, could be prioritised for restoration intervention.

The aim of this study was to use plants to determine the degree of heavy metal contamination in water and sediments in order to effectively monitor and provide possible recommendation to improve the water quality in the aquatic ecosystem of the Bottelary River.

Thesis (MScAgric (Conservation Ecology and Entomology)--University of Stellenbosch, 2005.<br>A semi-arid country, like South Africa, with unpredictable seasonal rainfall, is subject to great scarcity in water and an ever-increasing demand from the rising human population. Therefore, efficient reservoirs as well as monitoring methods are needed to manage the South African water supply. This study was undertaken on the Eerste River in the Western Cape, South Africa, focusing on the impact of the Klein Plaas dam system on the benthic macroinvertebrates. The study also examined the use of benthic macroinvertebrates as bioindicators of water quality with special reference to the South African Scoring System Version 5(SASS5) that is currently being used nationally. The impoundment of the water, as well as the inter-basin transfer programme and the experimental cage-culture trout farm, all play a significant role in the disturbance impact of the dam on the Eerste River system. The disturbance is manifested as a drop in water quality that can be seen in the distribution of keystone species, changes in the riparian vegetation, as well as in physical-, chemical-, and biomonitoring evaluations. The study also indicated that the SASS5 is effective, but needs some adjustments, such as inclusion of a prediction phase, finer spatial-scale methodologies and greater consideration of the rarity of species.

Thesis (MSc)--University of Stellenbosch, 2003.<br>ENGLISH ABSTRACT: The River Health Programme (RHP) is an assessment tool for monitoring the ecological state of rivers to ensure that they remain fit for use by present and future generations. This study, forming part of a RHP assessment conducted on the south-western Cape Hout Bay, Lourens and Palmiet Rivers, has the aim to (1) zone the rivers for representative site selection, (2) assess their habitat integrity (HI), (3) determine the influence of land use on riverine HI and (4) assess the river water quality at the time of the RHP assessments. (1) The desktop geomorphological zonation method used in RHP assessments has not been sufficiently previously tested on short rivers draining the Western Cape Mountains. The Lowland River Zone of the rivers studied, as well as the Hout Bay River’s Upper Foothill Zone, were found to have steeper gradients than expected, probably due to these rivers being shorter and consequently steeper than any on which the method was previously tested. The notion of one gradient river classification system being applicable throughout South Africa, with its diverse geology and climate, is unlikely. Rather a classification system modified for various physiographic features regions or by a factor based on river length is more realistic. (2) Although there is a general longitudinal decrease in HI downstream along the Hout Bay and Lourens Rivers, coinciding with increased anthropogenic activities, HI improves in the Palmiet River’s lower reaches through the Kogelberg Nature Reserve. Surrounding land use thus seems to be a major determinant of HI. Although the Index of Habitat Integrity (IHI) used appears to achieve its aim, it was found to be subjective. Categorisation of the IHI scoring is suggested. (3) The amount of natural versus disturbed land use occurring upstream of a site at a regional and local scale, is a good predictor of riverine HI. Regional alien forestry and local urbanisation have significantly strong negative effects on instream (r2 = -0.80, r2 = 0.80, p<0.05) and riparian (r2 = -0.81, r2 = -0.83, p<0.05) HI. Different land use types therefore appear to affect riverine HI at differing scales and thus managers must not only think on a local but also a catchment scale. (4) In the Hout Bay River, a filtering system (e.g. wetland) appears to improve the water quality between the middle and lower reaches. Along the Lourens River, high total dissolved salts, conductivity and inorganic nitrogen concentrations in the middle reaches are cause for concern. Along the Palmiet River there appeared to be insufficient oxygen to support most aquatic life forms at Grabouw. Impoundments in the middle reaches act as sinks for nutrients and salts, but the Huis and Krom tributaries downstream then appear to degrade the water quality of the Palmiet River’s lower reaches within the Kogelberg Nature Reserve. Together with the results of simultaneous biotic assessments, these results should be used to develop management actions to improve the ecological health of these rivers. The results have been used in a State-of-Rivers Report for the south-western Cape.<br>AFRIKAANSE OPSOMMING: Die Riviergesondheidsprogram (RGP) is 'n asseseringsinstrument wat die ekologiese stand van riviere monitor om te verseker dat hulle steeds bruikbaar bly vir huidige en toekomstige geslagte. Hierdie studie maak deel uit van 'n RGP-assessering van die Lourens-, Houtbaai- en Palmietrivier in die Suidwes-Kaap en het ten doel om (1) die riviere te soneer vir verteenwoordigende terreinseleksie, (2) die habitat-integriteit (HI) te assesseer, (3) die invloed van grondgebruik op rivier-HI te bepaal en (4) die kwaliteit van rivierwater tydens die RGP-assesserings te bepaal. (1) Die geomorfologiese-soneringsmetode wat in RGP-assesserings gebruik word, is nog nie voorheen genoegsaam vir die kort riviere wat die Wes-Kaapse berge dreineer, getoets nie. Daar is bevind dat die studiegebied riviere in die laagland-sones skerper gradiënte het as verwag, gehad het. Dit kan moontlik toegeskryf word aan die riviere wat korter en dus steiler is as enige van dié wat voorheen met die metode getoets is. Die moontlikheid dat een gradiëntklassifikasiestelsel vir riviere regdeur Suid-Afrika met sy diverse geologie en klimaat toegepas kan word, is onwaarskynlik. 'n Klassifikasiestelsel aangepas vir verskillende fisiografiese streke of met 'n faktor gebaseer op rivierlengte, is meer realisties. (2) Alhoewel HI stroomaf langs die Lourens- en Houtbaairivier in die algemeen longitudinaal saam met die toename in antropogeniese aktiwiteite afneem, verbeter die Palmietrivier se HI waar dit laer af deur die Kogelbergnatuurreservaat vloei. Die gebruike van aanliggende grond blyk dus 'n belangrike bepaler van HI te wees. Die Indeks van Habitatintegriteit (IHI) bereik klaarblyklik die vereiste doel, maar is te subjektief. Kategorisering van die IHI-waardes word voorgestel. (3) 'n Goeie voorspeller van rivier-HI is die hoeveelheid natuurlike teenoor versteurde grondgebruik stroomop van 'n terrein op 'n streeks- en lokale skaal. Die sterk negatiewe effek van uitheemse plantegroei in die omgewing en lokale verstedeliking op stroom- (r² = -0.80, r² = 0.80, p<0.05 ) en oewer-HI (r² = -0.81, r² = -0.83, p<0.05) is beduidend. Verskille in tipe grondgebruik beïnvloed rivier-HI op verskillende vlakke; bestuurders moet dus plaaslik en aan die opvanggebied dink. (4) In die Houtbaairivier lyk dit asof 'n filtreringstelsel (bv. vleigrond) die waterkwaliteit tussen die middel- en lae gedeeltes verbeter. In die loop van die Lourensrivier is hoë totale opgeloste soute, geleidingsvermoë en anorganiese stikstofkonsentrasies in die middelgedeelte 'n rede tot kommer. In die Palmietrivier by Grabouw was die suurstof te min om die meeste akwatiese lewensvorme te onderhou. Opgedamde water in die middel gedeeltes dien as 'n sink vir voedingstowwe en soute, maar dit lyk asof die Huis- en Kromrivier die waterkwaliteit van die Palmietrivier stroomaf in die Kogelbergnatuurreservaat degradeer. Saam met die resultate van gelyktydige biotiese assesserings, kan hierdie resultate gebruik word vir die ontwikkeling van bestuursaksies om die ekologiese toestand van hierdie riviere te verbeter. Die resultate is gebruik in 'n toestand-van-riviere-verslag vir die Suidwes-Kaap.

M.Sc. (Zoology)<br>National water quality monitoring in South Africa has in the past mainly focused on measuring physical and chemical variables. However, it is increasingly realised that measuring physical and chemical variables on their own cannot provide an accurate account of the general "health" of an aquatic ecosystem. Biological communities, on the other hand, are accurate indicators of overall environmental conditions. Water quality management must, therefore, rely on comparative data for both chemical composition and biological effects. In fact, it appears as if biological monitoring (biomonitoring) is worldwide becoming a primary tool in assessing environmental condition and verifying compliance with effluent discharge. This study classified different biomonitoring approaches and techniques under bioassessment (referring to the field oriented biomonitoring protocols which make use of biotic indices to assess water quality); bioassays (toxicity tests which is usually laboratory-based); behavioural bioassays (including aspects such as early warning systems, and preference and avoidance studies); bacteriological studies (the monitoring of certain microbes to allow the detection of faecal contamination); measurement of bioaccumulation (referring to the methods by which the uptake and retention of chemicals in the body of an organism can be monitored); and fish pathology (fish health studies dealing with the causes, processes and effects of disease). Habitat assessment and evaluation was identified as an essential part of any biosurvey. There can be little uncertainty about the mutual dependence of habitat quality, biological health and chemical characteristics of water in the environment. Relative habitat condition, as the principal determinant of attainable biological potential, should set the context for interpreting the results of a biosurvey and can be used as a general predictor of biological condition. Chemistry can further help to explain and characterise certain impacts. The Crocodile River, Eastern Transvaal, was selected for conducting a case study. The SASS2 rapid bioassessment protocol, as well as a habitat quality index (Hal) was used during five consecutive biosurveys. From the results obtained in this study, it appears as if biomonitoring can be used to good effect in overall environmental assessment. The SASS2 index appeared to be both a robust and sensitive indicator of environmental condition. Application of the SASS2 technique on a regional or even national basis should be feasible with regard to simplicity and practicality. It is also cheaper and less labour intensive than comprehensive chemical monitoring. However, bioassessments should not replace but rather compliment chemical and physical monitoring.

M.Sc.<br>Rivers always borrow a great part of their character from the terrestrial ecosystems – the catchments – through which they flow. A multitude of natural factors determines the health of a river ecosystem, however, together with these natural factors, the combined influences of urban development, pollution, bank erosion, deforestation (and ironically many forms of afforestation), and poor agricultural practices have so degraded our rivers that they are under severe threat. One particular group of organisms within river ecosystems that are affected by human-induced changes, are birds. Birds are rather adaptable organisms; many species are able to inhabit human environments very successfully. However, some bird species are highly specialized and adapted to specific environments, like riparian and riverine zones, and their absence or presence is a useful aid in indicating the ecological integrity of an area. In the past, management of aquatic ecosystems was based primarily on chemical water quality monitoring. However, it is impractical to monitor each component of river make-up in detail, therefore monitoring of biological components (biomonitoring) was also incorporated; using selected ecological indices that are representative of the larger ecosystem, and that are practical to measure. Common examples of biotic assemblages that have been incorporated into biomonitoring and used in biotic indices are aquatic macroinvertebrates, fish, plants and algae. Each assemblage is useful in its own particular way in providing us with an integrated view of the integrity of the ecological system as a whole. However, little research has been done on the potential of using birds in a suitable index to monitor changes in the environment. Because birds are so easily observed, their species so easily identified, and their distribution so widespread, it seems viable that birds could also be incorporated into an index of biotic integrity, and used for short- or long-term monitoring of river ecosystems. The river that was selected for the purposes of this study was the Sabie River, in Mpumalanga, South Africa. The Sabie River catchment falls within the Incomati River basin, which is an international drainage basin occupied by South Africa, Swaziland and Mozambique. Land use in the catchment is characterized by forestry, rural community activities (subsistence and small scale farming of livestock and fruit), and conservation activities, in particular the Kruger National Park. In order to gain better understanding of the functioning and composition of the instream and riparian zones of the Sabie River, certain indices were applied, namely the SASS 5 aquatic invertebrate index, together with the Index of Habitat Integrity (IHI).<br>Dr. G.M. Pieterse

This study assessed the quality of the Umgeni River in Durban South Africa seasonally from March 2011 to January 2012, according to standard protocol. Water samples were collected from Inanda dam-U5, KrantzKloof Nature Reserve-U4, New Germany-U3, Reservoir Hills –U2 and River mouth – U1 areas of the Umgeni River. A two-step tangential flow filtration (TFF) process was setup for the concentration of viruses from water samples. Virus like particles (VLPs) was detected using electron microscopy. Canonical correspondence analysis (CCA) was used to statistically evaluate the data sets. All water samples had turbidity values which exceeded the South African water quality guideline value of 0.1 NTU for turbidity. Large seasonal variations in BOD5, COD and conductivity levels were observed. Chloride concentrations were extremely high at point U1 (19234 mg/ℓ) Cl during summer. Total heterotrophic bacterial (THB) population was highest at 13.67 x 106 cfu/100ml (U1 – summer). Enterococci (EC) concentrations were detected at points U1, U2, U3, and U4 during the autumn and spring period. pH, electrical conductivity, temperature, and turbidity positively correlated with the microbial communities, and were the key parameters responsible for water pollution according to CCA. Most water samples contained high populations of somatic (659 pfu/mℓ, U1 – summer) and F-RNA coliphages (550 pfu/mℓ, U2 – summer). VLPs were detected throughout all seasons, with point U1 (summer) having the highest population of 2086 VLP/mℓ. Several presumptive viruses including Adenoviridae, Picornaviridae, Poxviridae, and Reoviridae were detected based on their morphologies. Six cell culture lines were used to determine cytopathic effect (CPE) of the VLPs. VLP samples produced CPEs on the Vero, Hek 293, Hela and A549 cell lines. Integrated cell culture (ICC) - PCR confirmed the presence of infectious VLPs in the river water samples. Adenoviruses, Enteroviruses, rotaviruses and Hepatitis B viruses were detected and quantified in all water samples by nested PCR/RT-PCR and Real-Time PCR respectively, against positive control viruses. These results indicate the potential of viruses in the water samples especially from the lower catchment areas to infect the human hosts throughout the year. These observations have public health care implications and establish a need to monitor the viral population in addition to traditional water quality indicators.<br>Thesis (Ph.D.)-University of KwaZulu-Natal, Westville, 2013.

M.Sc.<br>This dissertation establishes the present – day condition of the Hennops River in terms of its water quality and hydrological status. The Hennops River is situated between Johannesburg and Pretoria within the provincial boundaries of Gauteng. The province has a high population density and is regarded as the economic powerhouse of South Africa. As such, rivers flowing through Gauteng have become polluted by the different land uses and activities present in the province. The Hennops River itself has lost most of its aesthetic appeal and has become less useful for recreational and agricultural uses. Furthermore, the Hennops River has become a liability and concern in suburbs south of Pretoria and, more importantly, has become less suitable for sustaining aquatic ecosystems in some of its sections. The Hennops River, therefore, has an effect not only on the environment itself, but also in terms of social and economic aspects. Because of these concerns it was deemed necessary to determine the actual water quality conditions and associated problems prevailing in the Hennops River. Being fed by tributaries, these problems could not be overlooked and were also included in this study. In order to achieve the aim of the study a literature review concerning the concept of water quality and the different physical and chemical constituents affecting aquatic ecosystems needed to be conducted. Added to this, attention had to be given to the study area’s physical features and land uses having an effect on the catchment’s water quality and associated problems. A literature review on existing knowledge of the Hennops River and its principal tributaries was also conducted so that it could be determined whether these rivers have deteriorated over the past three decades. The most recent water quality data was not only compared against existing knowledge, but also in terms of the Target Water Quality Range for Aquatic Ecosystems as stipulated by the Department of Water Affairs and Forestry. This study showed that deterioration of the Hennops River has occurred since rapid urbanisation within its catchment started during the 1970’s. Most of the River’s water quality and associated problems can be ascribed to problems occurring further upstream in the form of the Kaalspruit and Olifantspruit flowing through formal and informal settlements, industrial areas and agricultural land. The water quality of these rivers and the upper Hennops River is the least suitable of the whole study area for aquatic ecosystem well-being. Not only is this a concern but additional hydrological problems occur as well. These include problems such as erosional activity of riverbeds and riverbanks and the silting-up of Centurion Lake. An urgent need exists for holistic catchment management and rehabilitative measures to be implemented to improve the ecological state of these rivers. Rehabilitative measures were proposed and are aimed at improving the water quality and associated problems of the Hennops River and its affected tributaries. It is concluded, therefore, that the status of the Hennops River is not going to improve without the implementation of rehabilitative measures that should form part of an environmental management plan.

The Reserve concept, introduced in the National Water Act, has led to an increasing use of biomonitoring techniques to assess the current ecological status of rivers in South Africa. The ecological status of a river provides vital information necessary to establish the amount and quality of water needed by the aquatic ecosystem. If the amount and quality of water is inadequate, then the water resource will not be able to provide the necessary goods and services to their respective water users. The biomonitoring of rivers gained impetus with the establishment of the River Health Programme (RHP) and its various objectives. The RHP led to the development and refinement of a range of biomonitoring indices to assess various components of the aquatic ecosystem. The components used to assess the current ecological status of a river include the physical habitat, riparian vegetation, water quality, as well as the macro-invertebrate and fish communities. The Mvoti River, in the vicinity of Stanger, is subjected to extensive water abstraction, which is then utilised for irrigation, industrial use, urban water requirements and various domestic uses by informal settlements. Previous studies on the river indicated that it is in a severely degraded state, especially below the confluences of the Nchaweni and Mbozambo rivers. Thus, this assessment of the current ecological status of the Mvoti River was undertaken to possibly identify the main causes of the degraded state. The study was undertaken during the high (February) and low flow (August) periods in 2005. Selected monitoring sites included sites used in previous studies on the Mvoti River as well as sites on the Nchaweni and Mbozambo tributaries. The methodology for this study was to implement the various indices used in the RHP for the different ecosystem components. The habitat indices implemented in this study were the Habitat Quality Index (HQI) and Integrated Habitat Assessment System (IHAS). Physicochemical water analyses were done during each sampling period to assess the water quality against the South African Water Quality Guidelines. The biotic indices used included the South African Scoring System 5 (SASS5) index to assess the macro-invertebrate community and the Fish Assemblage Integrity Index (FAII) to assess the fish community. Additionally, the newly developed EcoStatus indices for the fish and macro-invertebrate communities were implemented on the available fish and macro-invertebrate data. These indices were developed mainly to be used in Reserve determination assessments, where the assessments are built around the integration of all ecosystem components into a single value for the ecological status. The fish index is termed the Fish Response Assessment Index (FRAI) and the macro-invertebrate index the Macro-invertebrate Assessment Index (MIRAI)…. Multivariate statistical analyses were performed on the water quality as well as the macroinvertebrate and fish communities to establish any temporal and spatial trends together with any dominating water quality variables responsible for species composition at the different sites. PRIMER and CANOCO computer software were used to construct hierarchical clusters and NMDS plots for the biotic communities, while RDA and PCA bi-plots were used to represent the water quality variables and their effects on the biotic community structure. The Mvoti River is in a seriously degraded state and this degradation was particularly evident during the low flow period below the Sappi Stanger mill and the Stanger Sewage works effluent discharge points. The degraded state of the river is caused by the multitude of impacts on the river, which includes the local land-use, upstream land-use and effluent discharges in the vicinity of Stanger. The water quality in the vicinity of Stanger was in a poor state during the low flow, while the high flow was only slightly better. The upstream site is in a fair condition but, after the Nchaweni and Mbozambo rivers enter the Mvoti River, the water quality decreases. The variables found to be problematic included microbiological variables, chlorides and electrical conductivity in the Mvoti River. High nutrient values were found together with very high electrical conductivity in especially the Nchaweni River tributary. The lower Mvoti River contains very little habitat of good quality to support the biotic communities. The habitat is generally degraded due to the destruction of the riparian zone and the dominance of alien vegetation in the form of reeds. This, together with land-use and water abstraction activities, has caused high sediment loads in the lower Mvoti River which are continually moving. The IHAS and HQI results indicated the habitat in the lower Mvoti River is in a modified condition. The statistical analysis of the macro-invertebrate data showed that a definite spatial variation existed while no significant temporal variation was identified. There is a difference in the community structure between the Mvoti River and its tributaries, with the tributaries containing a very poor diversity. This lowered species diversity was attributed to the effects of, specifically, chlorides on the community structure but the origin of the chlorides could not be linked specifically to the Sappi Stanger mill’s activities. The SASS5 was similar with the Mvoti River sites having slightly higher scores, placing it in either a B or C class while most of the tributaries had a Class D. The community structure in the tributaries responded to nutrients and chlorides and these variables reduced the numbers of sensitive species and allowed hardy taxa to flourish. The results of the MIRAI index provided the same categories as identified by the SASS5 index. The fish community structure showed the same spatial differences identified in the macroinvertebrate communities, with the tributary sites containing different community structures than those found in the Mvoti River. The Mvoti River fish community is in a modified state with the majority of fish sampled being tolerant with very few sensitive species present. The FAII scores for the Mvoti River was a Category C, while the tributary sites scored a Category D or lower. The fish community is affected by the poor water quality, habitat and flow modifications in the lower Mvoti River. The FRAI index provided the lower Mvoti River and its tributaries with the same categories as identified with FAII. Overall, the Mvoti River is in a seriously degraded state with even the reference site being subjected to impacts that could potentially be harmful to the ecosystem. The ecological state of the river decreases as it moves past Stanger and is subjected to the impacts from the Nchaweni and Mbozambo rivers in the form of nutrients and salinity concentrations. The impacts on the Mvoti River have a multitude of different sources and if the aquatic ecosystem is to improve, only a collective effort will be of any value.<br>Prof. V. Wepener

Ph.D.<br>South Africa is the highest produce-producing and therefore the highest pesticide consumer on the African continent. Although greatly beneficial to the industry, indiscriminate and over usage of these agrochemicals pose a risk to the aquatic ecosystems through non-point source pollution. Data on these risks are limited in the developing countries such as Africa since limited environmental monitoring of pesticides is undertaken. This is due to technical, logistical and economical constraints in determining the links between exposure and effect on non-target organisms. Methods that are able to screen for and monitor pesticides that could pose a risk according to site-specific scenarios are therefore necessary. Economical and easy-to-use predictive models incorporated into Preliminary Risk Assessments (PRA’s) are useful in this regard and have been developed and applied globally to assist in estimating the probability of risks of pesticides associated with aquatic ecosystems. Currently no such risk assessment model is applied in South Africa for this purpose. The main aim of the present study was to present and assess the suitability of selected PRA models as preliminary screening tools for estimating potential pesticide exposure and associated effects within aquatic ecosystems. To achieve this, the primary objectives were to apply and validate these models for assessing predicted risks and to relate these to actual ecological hazards by monitoring the exposure and effects of selected pesticides that were identified as potentially posing a risk. It was hypothesised that the data determined by these models would elucidate the association between potential risks of pesticides and actual environmental impacts and could therefore be applied and validated for South African conditions. A framework was thus developed using multidisciplinary approaches to predict the risks of agricultural pesticides to non-target aquatic organisms and to validate these risks in an area known to have a high pesticide usage, namely the Crocodile (west) Marico catchment. This area is representative of a typical farming community in the subtropical central area of South Africa. It is a catchment area that exhibits high urban and agricultural usage, which has compromised the overall ecological integrity of the aquatic systems. The focus of the study was on the Crocodile (west) and Magalies Rivers and the associated irrigation canal network systems. The present study was based on integrating multidisciplinary techniques following the implementation of a tiered approach for assessing the ecological risks of selected pesticides known to be used within the Crocodile (west) Marico catchment. Tier 1 starts with the PRA assuming a relatively worst-case scenario by identifying pesticides most commonly used (through surveys) and estimating exposures posing a potential risk to the aquatic environment using the PRIMET (Pesticide Risks In the tropics to Man, Environment and Trade) model. The second tier can establish a more realistic characterisation of risk for the pesticide application scenarios of interest by using models such as PERPEST (Predicting the Ecological Risks of PESTicides), PEARL (Pesticide Emission Assessment of Regional and Local Scales), TOXSWA (TOXic substances in Surface Waters), or SSDs (Species Sensitivity Distributions). Higher tiers then include comparing the results from the PRA model predictions to the actual hazards of pesticides and can determine if these risk models are valid under South Africa conditions. This can be achieved using a combination of laboratory- and field-based monitoring assessments in the form of a triad approach (using chemical, toxicological and ecological assessments) to construct several lines-of-evidence (LoEs). The risk assessment process ends with a summary and integration of the data based on the multiple LoEs gathered during monitoring using a weight-of-evidence (WoE) approach.

Submitted in partial fulfillment for the Degree of Master of Applied Sciences in Biotechnology, Durban University of Technology, Durban, South Africa, 2017.<br>The study aims to assess and compare the concentration of microbial contaminants, their sources and distribution in surface water and sediment, and to determine the impact of seasonal variations and corresponding risks of faecal contamination using conventional and molecular methods. Historical data analysis was conducted using E. coli values from the eThekwini Water and Sanitation (EWS) department for 66 months (2009-2014). E. coli and Enterococci were analysed in surface water and sediment samples using the mFC/ spread plate and Colilert-18 (IDEXX) methods. The impact of seasonal variations was assessed using E. coli and Enterococci data collected during rainfall and no rainfall events, using an auto-sampler and sediment trap in parallel. Conventional standard membrane filtration methods using mFC agar, Slanetz & Bartley/ Bile Esculin and Brilliance E. coli selective agar were compared to the enzymatic Colilert-18 and Enterolert (IDEXX) test methods along the Isipingo and Palmiet Rivers. In addition, comparison of the analytical performance of droplet digital PCR (ddPCR) and qPCR for the detection of Salmonella targeting ttr gene in river sediment samples collected from the four sites of the Palmiet River in Durban, South Africa was done. In order to assess the public health risk associated with exposure of men, women and children to microbial pathogens in polluted surface water during recreational activities, the QMRA tool was employed in relation to the risk exposure to pathogenic E. coli, Campylobacter, Salmonella and Shigella. Also, the risk associated with crop irrigation (on farmers) as well as the consumption of crops irrigated with surface water from the Isipingo river was determined. Analysis of the historical data gave a baseline of the two rivers of interest, thus helps understand the current situation of the rivers enabling researchers to pick up potential gaps. In this study after the analysis of the historical data it was evident that at the Palmiet river, microbial analysis must be conducted around the QRI settlements which is a major pollution source. Also, from this study it was found that sampling points situated close to wastewater treatment plants, pump stations or informal settlements were of major concern, thus were considered for the study. It was found that sediment exhibited higher microbial concentrations than surface water, which was observed in both rivers. Also, rainfall had a significant impact on microbial variability. Higher microbial concentrations (indicator organisms) were observed in surface water after a heavy rainfall as appose to when there was no rainfall. This was due to contamination that is washed off into the river and sediment resuspension. Methodology comparison revealed that Colilert-18 and Brilliance E. coli were more selective compared to mFC agar. Brilliance E. coli /Coliform agar was comparable with Colilert-18 IDEXX, which was also observed with Slanetz & Bartley and Enterolert IDEXX. However, when mFC agar was compared with Colilert-18 IDEXX, significant difference was observed. In comparison of two Molecular methods, ddPCR were found to be fully amenable for the quantification of Salmonella and offer robust, accurate, high-throughput, affordable and more sensitive quantitation than qPCR in complex environmental samples like sediments. Quantitative Microbial Risk Assessment (QMRA) relating to recreational and occupational exposure showed that children were at the highest risk of getting infected. Also, it was observed that the probability of infection upon exposure to surface water from the Isipingo and Palmiet rivers was significantly high, hence exceeded the WHO guidelines values. Risk assessment on crops revealed that pathogenic bacteria may pose a risk to the consumer, however, a 9-log reduction may be achieved according to the WHO multi-barrier approach which involves proper washing and proper cooking of the crop before ingestion. Overall the sampling points that had the highest pollution level and constantly exceeded the WHO and DWAF guidelines at the Isipingo river were the points situated and named “Next to the WWTP”, and “Downstream of QRI” at the Palmiet River.<br>M

M.Sc. (Zoology)<br>The construction of the Pongolapoort Dam in 1974 has altered conditions downstream of the Phongolo River in terms of hydrology, geomorphology, water quality, and ecosystem services. Activities along the Phongolo River permit anthropogenic compounds such as pesticides used in disease control to enter the aquatic environment. This alteration of natural environmental conditions creates a need for a monitoring programme. This study aims to assess the use of Hydrocynus vittatus as an indicator organism of pollution in the Nyamithi Pan and Phongolo River. Water and sediment samples were analysed for a variety of metal elements. The physical characteristics of water samples were determined using a WTW Multi 340i multimeter. Nutrients in water were analysed using a Merck Spectroquant™ Pharo 100 Spectrophotometer. Sediment analysis was based on the standard protocols of the United States Environmental Protection Agency (2001). Physiological stress responses in Hydrocynus vittatus were determined using acetylcholine esterase, catalase, cellular energy allocation, 7-ethoxyresorufin-O-deethylase, malondialdehyde, metallothionein, superoxide dismutase, and protein carbonyls. Employing standard techniques H. vittatus was analysed for metals and organics using ICP-MS, ICP-GS and ICP-OES. Results for biological responses and bioaccumulation show significant differences between sites related to the environmental concentrations of elements. Organisms in the Phongolo River have elevated concentrations of DDT and the metabolites indicating recent exposure. Organisms from the Phongolo River are seen to be responding based on up or down regulated concentrations of biological markers. In particular, concentrations of CAT, MDA and PC are elevated in the Phongolo population with decreased AChE responses indicating toxicant exposure. Data accumulated in this study will contribute to the establishment of baseline chemical, physical and biological knowledge of the effects of contamination in South African waters.

This study assesses the contribution of agricultural non-point source pollution, to poor water quality of the Vaal River within the Grootdraai dam catchment area. The study evaluates agricultural pollutants affecting the quality of water within the study area. The impact of agricultural non-point source pollution on the water quality of the Vaal River was evaluated by establishing a correlation between the quantity of polluted runoff reaching the River and the quantity of measured nitrates and phosphates in its waters. A questionnaire using random sampling was used to capture data from 15 commercial farmers 35 local residents and the Department of Water Affairs management. The results of the study show that agricultural nutrients are heavily impacting and compromising the water quality of the Grootdraai Dam. The mean concentrations of Nitrogen and Phosphorus were found to be well above the water quality guidelines there by promoting eutrophication.<br>Environmental Sciences<br>M. Sc. (Environmental Management)

In South Africa water is recognized as a crucial element in the battle against poverty, the cornerstone of prosperity, and a limiting factor to growth. The National Water Act 36 of 1998 recognizes that basic human and environmental needs should be met and that the use of water in all aspects must be sustainable. The Crocodile River (East) is situated in the north east of the Republic of South Africa and it is recognized as a stressed catchment in South Africa. The main impacts are domestic, industrial, agricultural, mining and afforestation activities. These activities pollute the river by discharging effluent as well as seepage from areas that support mining and intensive agriculture in to the river. The river catchment has been a center of research studies for many scientists either focusing on water quality or biological indicators separately. The aim of study was to determine the present ecological condition and the health of the Crocodile River. The objectives were to determine water quality status, identify possible sources of pollution and assess the spatial and temporal trends in ecological state. Fourteen monitoring sites were selected from the Crocodile River and its tributaries. The macro-invertebrates data were collected using the SASS 5 protocol and fish were collected using an electroshocker- catch and release method during high and low flow conditions of the year 2013. Water quality data was obtained by sampling using a polyethylene bottle from different sites within the Crocodile River and its tributaries from September 2012 until August 2013. The samples were analyzed by Mpumamanzi laboratory in Nelspruit and Waterlab in Pretoria. Additional water quality data was obtained from the Department of Water Affairs. Multivariate statistical methods were used to analyze all the data obtained. The multivariate statistical methods indicated that fish and macro-invertebrates species abundance, richness and evenness increase with the river flow distance downstream. Water temperature was one of the leading environmental variables for the structuring of fish and macro-invertebrates assemblage in the Crocodile River and its tributaries. A group formation of site during high and low flow condition by the Bray Curtis similarity and NMDS ordination indicated that many sites share similar macro-invertebrates or fish species. The one way ANOVA analysis indicated that there was no significance difference between macro-invertebrates richness and abundance during both flow conditions but there was a significance difference in fish richness and abundance between the two flow conditions. The PCA indicated that sodium has the highest physico-chemical impact amongst the physico-chemical parameters in the bi-plot followed by ammonium and nitrate. A correlation of physico-chemical parameters such as chlorine, total dissolved solid, electrical conductivity, sulphate and pH was observed. The levels of total dissolved solids and electrical conductivity were found to increase longitudinally as the river flows downstream. The dominance of single species within the macro-invertebrates and fish communities was an indication of imbalance of the communities within the sites. The presence of the macro-invertebrate family Beatidae and the fish species Chiloglanis pretoriae at sites CR3 and CR4 indicates a good water quality in the upper reaches during low flow condition as these species are sensitive to changes in water quality, while the presence of the macro-invertebrate family Pleidea and fish species Barbus viviparus at sites CR10 and KR1 during low flow condition indicated possible water pollution as these species tolerate changes in water quality and this was linked to the discharge of effluent from industrial, abandoned mines and run-offs from agricultural activities in the downstream reaches of the river. The low flow condition was dominated by sensitive species especially in the upper reaches than during high flow condition. The macro-invertebrates assessment index indicated that during low flow condition the Crocodile River was mostly at ecological class B (largely natural with few modification) above the Kwena dam, but from downstream of the dam the ecological category was in C class (moderately modified), while its tributaries are in ecological category B (largely natural with few modification). The fish response assessment index indicated that the ecological category for fish was mostly at C class (moderately modified) in the Crocodile River. The changes in macro-invertebrates communities and fish in the Crocodile River were believed to be associated with change of water quality and habitat modification due to flow modification. Agricultural activities in the upper reaches and a combination of industrial and mining activities in the middle and lower reaches of the Crocodile River were believed to be the sources of pollution that results in the change of water quality, fish and macro-invertebrates assemblage in the Crocodile River. Investing in the health of the Crocodile River is important for many Mbombela citizens and river dwellers as they rely on the functioning of the river for survival.<br>Environmental Sciences<br>M. Sc. (Environmental Science)

M.Sc. (Aquatic Health)<br>Yellowfish and specifically Labeobarbus marequensis are a charismatic species targeted by anglers throughout South Africa. Their population are limited to the north-western parts of the country including the lower reaches of the Crocodile River that flows through the Kruger National Park (KNP). Despite conservation efforts the Crocodile River in the KNP is still highly impacted. The effect of these impacts on the ecosystem is largely unknown. The main aim of the study was to determine the influence of changing water quantity and quality in the Crocodile River on adult L. marequensis. This was achieved by evaluating altered flows (discharge) on the behaviour of adult L. marequensis in the Crocodile River using biotelemetry over a two year period. The influence of altered water quality was assessed using metal bioaccumulation as an indicator of metal exposure in L. marequensis, Clarias gariepinus and Hydrocynus vittatus in the Crocodile and Sabie Rivers during a high and low flow season. Biotelemetry was used on 16 L. marequensis and 12 H. vittatus to determine the habitat use and movement responses of the species. Fish were tagged with Advanced Telemetry Systems (ATS) and Wireless Wildlife (WW) tags and tracked remotely and manually. Home ranges were determined using Arc GIS ®, Habitat uses were analyzed using Windows Excel (© 2011, Microsoft inc.). Environment variables recorded were scored as primary and secondary and then combined with a weighting variable 2:1 ratio (primary variable: secondary variable). A mixed-model analysis of variance (ANOVA) approach with a random co-efficients model and Akaike’s information criteria (AIC) were used to test for significance. Analyses were conducted using SAS version 9 (SAS institute, Cary, NC)...