Ecological evaluation techniques have been used to classify or evaluate the relative conservation worthiness of a portion of the Eastern Cape coastal zone from Cannon Rocks to Port Alfred. A system-based approach, using a basic GIS, was used to compare three aspects of the coastal zone. Two existing planning documents (EMATEK/s Coastal Vegetation Importance Rating plan and CPA's Cape Coastal Conservation plan) were statistically compared - based primarily on the size and number of the landscape fragments (environmental criteria polygons). The resultant plan, an Intermediate Sensitivity Class map, was further integrated with the biophysical aspect of the coastal zone - coastal dunes. The final map is the product of these overlays to be used as a-working overlay for coastal zone decision-making. This is an Environmental Sensitivity map, which has no particular direct reference to any particular biophysical criteria, which categorizes the coastal zone according to the environmental sensitivity or conservation worthiness of the site. The categories are listed according to a sliding-scale of sensitivity or worthiness. There is, however, it strong association between the final map and the vegetation status of the coastline, as a direct result of the vegetation rating map and indirectly from the perception based coastal conservation plan. The formation of most assessment or evaluation plans are based on the vegetation status of the area. This map can be overlayed over the particular stretch of the coastline which it covers and the particular conservation status noted. There are numerous techniques available for assessment and evaluation each having their own specific merits and advantages. This plan, however, is a first attempt at integrating other specific plans into a single working document for the coastal zone manager.

Arbuscular mycorrhizas (AM) are mutually beneficial symbiotic associations between the roots of plants and certain Zygomycetous fungi. The role of AM fungi in coastal sand dunes has been explored in many parts of the world, though little work has been conducted in South African dune systems. This study aimed to investigate the presence and extent of mycorrhizal colonisation of a coastal sand dune in South Africa. The roots of five plant species (Scaevola plumieri, Arctotheca populifolia, Ipomoea pes-caprae, Ehrharta villosa and Chrysanthemoides monilifera) were sampled along a foredune profile at Old Woman's River in the Eastern Cape. These roots were assessed for the percentage mycorrhizal colonisation they supported. Spores extracted from the rhizosphere sand of each plant species were counted and identified to genus level. Results were related to seasonality and the position of the plants along the profile. All plant species were found to be mycorrhizal. Percentage colonisation ranged from 0-92%, depending on plant species and season. Mycorrhizal colonisation was generally highest in the winter months, and especially so in I pes-caprae and E. villosa. The extent of various mycorrhizal structures in root tissue varied between plant species. Spore numbers ranged from 0-48 spores 100g-1 sand with highest numbers occurring in winter. S. plumieri and A. populifolia were associated with greatest spore abundance. Four fungal genera (Glomus, Acaulospora, Scutellospora and Gigaspora) were identified. Distribution of these genera showed seasonal variations between plant species. A bioassay, using Sorghum, was conducted to test the inoculum potentials of sand from the Scaevola hummock and the IpomoealEhrharta dune. Highest percentage colonisation occurred in plants grown in the Scaevola sand, which also had the lowest root and shoot measurements. The bioassay confirmed that AM propagules are present and viable, even in the mobile sand of the foredune. This study showed that mycorrhizal colonisation and spore numbers varied seasonally, but that the extent of this was dependent on plant species. The position of plants along the foredune profile tended to be less important than plant species. It is thought that the growth cycle and rooting system of each plant species determines seasonal cycles and abundance of AM fungi. Variation within fungal populations probably also impacts on this. Knowledge of the presence and distribution of AM fungi in this system paves the way for more detailed studies which need to examine the role of these endophytes in South African sand dunes.

South African dune fields are severely threatened by human expansion and in the long run the stabilisation of many dunes will be necessary. The alien grass Ammophila arenaria is the most important drift sand stabiliser at present in South Africa. Although not invasive, the current impact of A. arenaria on the dune systems of South Africa is considerable, and thus the stabilising benefit of the grass seemed to may be outweighed by its negative consequences. It is therefore preferable to use indigenous sand stabilising species. In order to define guidelines for the application of indigenous plants for stabilisation, their autecology should be studied first to enhance the chance of successful stabilisation results. The main aim of the present thesis was to gather information on the life history processes of selected indigenous, sand stabilising foredune species. To investigate the growth of foredune pioneer species, the common pioneer Scaevola plumieri was followed over a three-year period to determine the growth season and leaf phenology. Soil-borne pathogens are known to influence the growth and vegetation dynamics of foredune species. To examine this effect on the South African foredunes the rhizosphere soil and the roots of several species were studied. To test the effect of the nematode fauna on succeeding plant species a transplantation experiment was carried out. The seed stage is the only life-cycle stage that can survive unfavourable conditions. Therefore, the seed ecology of several foredune species was studied extensively to determine the reproductive season, the seed production, the fate of seeds after shedding (germination, seawater dispersal), germination requirements and seed bank strategy. Seeds of the species Arctotheca populifolia, Ipomoea pes-caprae, Myrica cordifolia, and Scaevola plumieri were subjected to germination trials, field observations on seedling survival, and scarification and stratification experiments. This was done to obtain information about the germination requirements and to determine the reproductive season and growth season. The seed bank strategy of the foredune species, as well as the seed bank density, was determined by extensive sampling along the Cape coast. The species S. plumieri thrived under sand accretion situations, which makes it a good candidate for stabilisation purposes. The growth of S. plumieri was seasonal, with the highest leaf production during spring and summer. The stem position on the foredune had a strong effect on the overall performance of S. plumieri , with the stems situated on the landward face of the foredune showing higher leaf and seed production. Theiii nematode survey of soil and roots of several foredune species showed that all plant species featured a specific nematode fauna in the rhizosphere soil and the roots. The specific nematode fauna affected the growth of foreign plant species in the transplantation experiment, resulting in a lower root and/or shoot biomass production. Most of the foredune species produce seeds from spring to late summer. For S. plumieri the position of the stem on the dunes, as well as the predation of unripe seeds affected the number of seeds produced. The highest production was found for the landward faced stems. The S. plumieri seeds were able to float on seawater for at least three months without losing viability, as was observed for seeds of I. pes-caprae. The seeds of M. cordifolia, however, sank after a few days, but their viability was not affected. The rhizome fragments of A. arenaria and S. virginicus floated for 120 days, whereas the fragments of E. villosa sunk after one day. The viability of S. virginicus fragments was affected by the duration in seawater by an increase in sprouting time. The seeds of all species tested germinated readily under controlled conditions, except S. plumieri seeds which required a long lag-phase before germination. In the field the seeds of A. populifolia, I. pes-caprae and S. plumieri germinated, producing many seedlings. Only the seedlings of A. populifolia and S. plumieri survived. Of the species found in the foredunes 57% was represented in the soil seed bank. For most species, the seeds that were found in the seed bank showed viability of at least 40%. Many of the seeds found were older than one year, suggesting a short-term persistent seed bank. The present study is a start in filling the gap in information on dune pioneer and foredune species. The conclusion was that in general all species in the present study were easy to grow under controlled conditions, and thus could be used for stabilisation purposes. When the more rapidly growing pioneer species are planted in combination with succeeding foredune species, a functional and aesthetic ecosystem could be created.

The trophodynamic implications of reduced freshwater inflow on the zooplankton of eastern Cape estuaries was investigated by a comparison of the community composition and standing stocks, grazing rates and food resources of zooplankton in two systems, the Kariega and the Great Fish estuaries, which are subject to contrasting freshwater inflow. The climate of South Africa is semi-arid, and the low rainfall, coupled with high evaporative loss, result in the region having one of the lowest conversions of rainfall to run-off in the world. In addition, many of the major rivers are extensively impounded, consequently, estuaries often experience prolonged periods of zero or reduced freshwater inflow. The amount of freshwater available for estuarine management in the future is expected to decline as the demand for domestic, agricultural and industrial use increases. The influence of climate, tidal amplitude and wave action are essentially constant, consequently, the individual characteristics of an estuary are determined largely by the indirect influences of catchment size and regulation. Estuaries along the eastern Cape coast range from negative hypersaline systems, to positive systems in which a salinity gradient is well established. The Kariega estuary is a homogeneous marine estuary as a result of minimal freshwater inflow, whereas the Great Fish estuary receives sustained freshwater inflow and is partially-stratified. The quality and quantity of particulate food resources for suspension-feeders depended to a large extent on the allochthonous import of material associated with freshwater inflow. Nutrients, rather than light penetration of the watercolumn are the major factor limiting phytoplankton standing stocks. In the Kariega estuary, phytoplankton standing stocks were low (up to 1.0 μg l⁻¹) and the estuary is classified as oligotrophic. Correlation analyses indicated that lower quality detritus, originating from fringing macrophytes, may contribute substantially to suspended particulate organic material. Phytoplankton food resources were considerably higher in the Great Fish estuary (up to 21.8 μg ⁻¹) which is classified as mesotrophic/eutrophic, and correlation analyses indicated that phytoplankton comprised the dominant fraction of the particulate organic material. Although this suggested that the organic material was of a higher quality, the seston was "masked" by a higher suspended inorganic load. Consequently, the organic fraction comprised between 13 and 22% of total particulate material in the Great Fish estuary, compared with between 20 and 39% in the Kariega estuary. Food resources demonstrated a fairly uniform distribution along the length of the Kariega estuary and exhibited a slight seasonal increase during warmer months. By contrast, the point source influence of freshwater inflow resulted in a spatial gradient of food resources in the Great Fish estuary with higher values recorded towards the upper reaches. There was evidence that higher concentrations of particulate material in the upper reaches are also a consequence of hydrodynamic trapping. There was no marked seasonal pattern in the availability of food resources which were generally elevated in response to sporadic pulses of freshwater inflow. Tidal currents were responsible for elevating suspended food resources by re-suspension of material from the sediments. This effect was probably of greater importance in the Kariega estuary where food resources were generally limiting. In the Kariega estuary, the zooplankton community was dominated by calanoid copepods of the genera Acartia and Pseudodiaptomus. However, in the Great Fish estuary, the community was dominated by the mysid Mesopodopsis siabberi, and the calanoid P. hessei. Community biomass generally reflected the trophic status of the estuary. The mean seasonal biomass recorded in the Kariega estuary was 38 mg m⁻³ compared with 1597 mg m⁻³ in the Great Fish estuary. Greater spatial variability in community biomass was evident in the Great Fish estuary, partly in response to the food resource gradient, but also due to the inability of the mysid shrimps, which dominated the community biomass, to penetrate the lower salinity water of the upper reaches. Zooplankton in the Kariega estuary demonstrated a seasonal pattern of abundance whereas in the Great Fish estuary, community biomass was elevated in response to sporadic pulses of freshwater inflow. Grazing rates, measured in situ using a modified Gliwicz-Haney chamber, indicated that the zooplankton communities were capable of "clearing" substantial proportions of the watercolumn at certain times of the year. The pattern of grazing pressure over a diel cycle was examined in relation to the diel vertical migration movements of the zooplankton. Higher nighttime grazing rates were generally associated with the greater abundance of zooplankton resulting from the movement of zooplankton into the watercolumn after dusk, and their return to the sediments at dawn. Seasonal estimates of diel grazing pressure, extrapolated from daytime and nighttime feeding rates, indicated that the zooplankton "cleared" up to 40% of the watercolumn in a day in the Kariega estuary, and up to 120% d⁻¹ in the Great Fish estuary. However, values of around 25% d⁻¹ in the Kariega estuary, and 50 to 80% d⁻¹ in the Great Fish estuary, were not uncommon. Multiple regression analyses were used in an attempt to explain the influence of environmental factors on the variation in in situ grazing rates. These attempts were largely unsuccessful and the possible reasons, as well as recommended improvements to the methods used, are discussed. Seston concentration in the estuaries was highly variable as a result of the effects of tidal re-suspension and freshwater inflow. Consequently, further laboratory-based experiments were carried out to examine the influence of seston concentration on the filtration rates of the dominant calanoid copepods. Results indicated that some of the unexplained variability in the community filtration rates may be attributed to differences in species-specific response to changes in seston concentration.

Estuarine ecosystems are among the most biologically productive areas and they provide important ecosystem services such as erosion control, habitat and refugia for several species. These environments are characterized by the presence of a variety of organic matter sources due to their transitional position between rivers and the sea. The biotic compositions can undergo spatial and seasonal changes along the estuary due to the spatial and temporal fluctuations of environmental factors such as salinity, temperature and seston loads. Therefore, the different combinations of biotic and abiotic factors make each estuary a unique ecosystem. Because of this spatial and temporal complexity, the understanding of estuarine food web structure and which factors affect the trophic relationships within the ecosystem through space and time represent challenging tasks. Furthermore, estuaries are under an increasing number of anthropogenic perturbations because of the growing concentration of human populations in coastal areas. Knowledge of ecosystem structure and functioning is essential for effective conservation and management planning of coastal areas.In this dissertation, I combine the utilization of biological tracers to examine spatial and temporal variability in the food web structure within a small temperate and microtidal estuary located in South Africa. To this end, fatty acid profiles and stable isotope signatures were measured in several primary organic matter sources and consumers (including zooplankton, fishes and benthic invertebrates) during four consecutive seasons and in three different estuarine regions: upper, middle, and lower reaches. The three reaches had distinct habitat features of vegetation type and morphology, and in particular the lower reaches were colonized by the marsh grass Spartina maritima. Isotopic mixing models were used to estimate the relative contribution of each food source to the diets of invertebrates and fishes within the estuarine food web. The isotopic and fatty acid data showed similar results. In general, the lower reaches of the estuary were characterized by a higher deposition and assimilation by brachyuran crabs of carbon derived from marsh grass detritus, whiletowards the upper reaches a mixture of microphytobenthos and particulate organic matter (phytoplankton and detritus) was deposited and sustained the pelagic and benthic fauna. The highest deposition and assimilation of marsh grass detritus in the lower reaches of the estuary occurred during periods of low freshwater discharge (autumn and winter). In the upper reaches, microphytobenthos and suspended particulate organic matter were dominant basal food resources for the food web during all seasons. These results indicated that benthic consumers incorporated mainly local carbon sources from their local habitat.To clarify isotopic and fatty acid patterns I examined the trophic behaviour of the sesarmid crab Sesarma catenata through laboratory feeding experiments. Results from these experiments validated that decomposed leaves of riparian trees and the salt marsh plant S. maritima were the preferred food of the sesarmid crabs, potentially due to high bacterial loads. The remaining leaf material not assimilated by crabs, together with faecal material, are likely important subsidies for adjacent environments, hence representing an important energy pathway involving the microbial food chain. Furthermore, this dissertation showed the importance of mobile top predators as vectors energetically connecting distinct food chains within the estuary (i.e. littoral, benthic and pelagic). I concluded that a combination of physical (i.e. patterns of freshwater discharge and estuary morphology) and biological factors (i.e. organism feeding behaviour, mobility, primary productivity, the local vegetation type) influence the pattern of dominant primary organic matter sources, and therefore the food web structure along the estuarine environment. In particular, marsh grass detritus contributed substantially to the diets of estuarine fauna during periods of low freshwater discharge. Given the importance of the salt marsh habitat in providing trophic resources, it is important to preserve this environment to sustain the natural biota and ecosystem functioning.

Quantitative community descriptions, based on point quarter sample data, are made for a number of dune forest units along the East London coast. These are supported by multivariate classifications and ordinations which illustrate the inter community variation between the sampled seaward, landward and dune valley sites. Climax valley forest is floristically most characteristic and can be clearly distinguished from the seaward and landward thicket communities which tend to show a degree of similarity. Within-forest community differences are shown to be more significant than variation along the coast. This appears to indicate that climoedaphic gradients established laterally to the coast induce a greater floristic response than the rainfall gradient within the study area. The state of developnent within the dune soil profile and the rate and effect of salt spray deposition are considered to be important factors influencing dune forest succession and are discussed in some detail. An overview of certain other climatic variables as well as the geological features within the study area is also given. A phenology study of the dune forest, scrub-thicket and strand plant cornnunities shows some general patterns of flowering and fruiting phenorhythms. Although much variation was observed, there appears to be a bimodal hyperactive phenophase response which is thought to be related to rainfall or periods of favourable soil moisture conditions. A brief discussion of some of the positive and negative human influences on the coastline is given. This includes a description of the management activities carried out in the area as well as the demands placed on ·the coastal resource.

Adventure tourism (AT), defined as “a broad spectrum of outdoor touristic activities,often commercialized and involving an interaction with the natural environment away from the participants’ home range and containing elements of risk,” (Hall, 1992, p. 143) is currently one of the fastest growing sub-sectors of the tourism industry (Buckley 2010). Because it has emerged relatively recently as a field of study, a number of scholars have called for ongoing research in the area, see Swarbrooke (2003), Pomfret (2006), Buckley (2010), Rogerson (2007), and Williams & Soutar (2005). Much of this research, to date, has focused on marketing, injury caused by AT participation, environmental impacts, and the broad notion of “risk” associated with AT. The problem is that little of this work has focused on the significance of the environment in adventure tourism – an important element inherent in its definition. Thus, this thesis aims to move beyond a general risk-based analysis of AT, and focus on the role of the environment. This is done through a human-environment interaction approach undertaken in Tsitsikamma Village where five adventure tourist operations are based. The first step in operationalizing this approach was to develop a conceptual framework that integrated adventure tourism into a general framework on humanenvironment interaction. The second step was to use a research instrument which enabled one to examine the influence of the environment on human motivations and adventure tourism experiences, and not only the influence of humans on the environment. The former was accomplished through questionnaires based on external, environmental elements that attract adventure tourists as well as inherent personality traits impel such tourists to participate in AT. The latter, based on interviews and participant perceptions, sought to establish the significance of impacts on the environment as well as initiatives taken by AT companies to minimize environmental damage. The findings show that although risk/thrill does play a role, AT motivations and experiences are complex and multidimensional. The environment does significantly influence both motivations and even more so AT experiences. Furthermore, there are distinct differences between the motivations and experiences of participants in different types of AT activities, indicating that generalizing the industry as whole neglects these significant differences. In terms of influences on the environment, the results show that most AT operators in the Tsitsikamma have some consideration for environmental protection and take some initiatives to minimize environmental damage, though the degree to which this occurs differs significantly. Furthermore, activity participants do not believe that the activities have a strong negative impact on the environment, though the majority acknowledge small impacts. The types of impacts observed by participants vary significantly between companies. This thesis demonstrates the manner in which the two-way relationship between humans and the environment manifests itself in the commercial AT industry. The result is a well-rounded examination of the influence of human-environment interaction on AT participants.

This study investigated the response of macrophytes to physico-chemical factors in seven South African estuaries and showed that dominant salt marsh species that occur in different estuaries respond to the same environmental factors. The most important variables influencing distribution were elevation, water level, sediment- and groundwater electrical conductivity and depth to the water table. In permanently open estuaries (Kromme and Olifants) transect surveys identified three distinct vegetation zones i.e. submerged macrophytes, intertidal salt marsh and supratidal salt marsh. In the Kromme Estuary intertidal salt marsh (81.2 ha) covered extensive areas, whereas supratidal (143 ha) and floodplain (797.1 ha) salt marsh were dominant in the Olifants Estuary. Transect surveys identified four distinct vegetation zones (submerged macrophytes, intertidal salt marsh, supratidal salt marsh and reeds and sedges) in the temporarily open/closed estuaries (Mngazi, Great Brak, East Kleinemonde and Seekoei estuaries), although all zones did not occur in all of the estuaries sampled. In the Mngazi Estuary reeds and sedges (1.09 ha) covered extensive areas (no submerged or salt marsh vegetation was present), whereas salt marsh (Great Brak 24.45 ha, East Kleinemonde 17.44 ha and Seekoei 12.9 ha) vegetation was dominant in the other estuaries. Despite the geographic differences, environmental factors influencing macrophyte distribution were similar in all estuaries. Canonical Correspondence Analysis showed that vegetation distribution was significantly affected by elevation, groundwater and sediment electrical conductivity and depth to groundwater. Supratidal species were associated with a greater depth to groundwater (1.2 ± 0.04 m; n = 153) compared to intertidal species (0.5 ± 0.01 m; n = 361). Correlation analysis showed that water level and rainfall were correlated with groundwater electrical conductivity in the lower and upper intertidal zones for all the estuaries sampled. These data indicate the influence of the estuary channel on the physico-chemical conditions of the salt marsh. Low rainfall (16 ± 3.3 mm per annum) in the Olifants Estuary (30-100 mS cm-1) and lack of freshwater flooding in the Kromme Estuary (42-115 mS cm-1) have resulted in high sediment electrical conductivity by comparison with the other estuaries sampled. In the Orange River Estuary approximately 70 ha of salt marsh have been lost through the building of a causeway and flood control levees. Even though salt marsh vegetation can tolerate hypersaline sediments by using the less saline water table, the groundwater at the Orange River Estuary was too saline (avg. of 90.3 ± 6.55 mS cm-1, n = 38) to be of use to the dominant floodplain species, Sarcocornia pillansii. Freshwater inflow to estuaries is important in maintaining longitudinal salinity gradients and reducing hypersaline conditions. In the Olifants Estuary and the Orange River Estuary where supratidal salt marsh is dominant, freshwater inflow is important in raising the water level and maintaining the depth to groundwater and salinity. Lack of freshwater inflow to the Kromme Estuary has highlighted the importance of rainfall in maintaining sediment salinity within acceptable ranges for the salt marsh. Macrophytes are relatively good indicators of physico-chemical factors in estuaries. From an understanding of the response of specific species to environmental variables, ecological water requirements can be set and sensitive areas can be rehabilitated.

Studies on morphological variation are important as it can depict the relationship with environmental factors clearly and convey an understanding of the manner, mechanism and factors influencing plant adaptation and evolution. Although many studies have been conducted on South African salt marsh plant physiology and phytosociology there are at present very few morphological studies on estuarine plants. The aim of this study was to compare the morphological variation of estuarine macrophytes in three different estuary types in the warm temperate biogeographic zone of South Africa and to compare characters used in the taxonomic descriptions of species with those measured in the field. Permanently open estuaries investigated were Ngqusi (WC), Kowie (KW) and Swartkops (SW) estuaries. The Knysna Estuary (KN) was the estuarine bay investigated and the temporarily open/ closed estuaries (TOCEs) were the East Kleinemonde (EK) and Great Brak (GB) estuaries. Macrophytes were morphologically different across different estuary types. This suggests that there were different factors operating between these estuary types that would directly influence the morphology of species. The variation of plant height with different estuary types can be attributed to the fact that smaller salt marshes also have smaller habitat ranges compared to larger ones. The variation in morphological characteristics such as plant height can also be attributed to biogeographical range. Most morphological characteristics measured in the field fall within previously published ranges, and so these characters are useful in delimiting species. There were significant relationships between phenotypic variables and multivariate environmental variables. The most important of these variables were soil electrical conductivity, soil organic content and soil water content. Specifically, plant height increased with water content and decreased with salinity, flower stalk length had strong significant positive correlations with moisture content, organic content and pH while there were strong significant correlations with redox potential and electrical conductivity. Salt marshes are considered ideal for studying variation of species due to the explicit environmental gradients and plants occurring in salt marshes are halophytes that exhibit a range of morphological traits that allows for growth and reproduction under the stressful and extreme conditions. Considering recent climate change predictions and the consequent effects on South African estuaries this study provides significant information with regard to the response of species to a changing environment. The study was also aimed at updating the existing botanical database for South African estuaries in terms of species occurrence in South African estuaries, taxonomic name changes of existing species, new species, common names and habitats. Species diversity indices were also calculated for different estuaries, estuary types and biogeographic zones and diagnostic descriptions of the dominant salt marsh species were developed. The objective of this was that these data should provide baseline information for determining habitat richness and plant species diversity of South African estuaries which in turn should be used in determining priority estuaries for conservation and management. The identification key, developed using the DELTA software, would also aid researchers, managers and laymen in identifying salt marsh species. Results showed that the total number of macrophyte species, including intraspecific taxa and macroalgae, was 242 in 53 estuaries that were updated . There was an increase in the number of taxa recorded in the database primarily due to 1) research focus and full taxonomic surveys on larger estuaries and the big research projects has led to the identification of more species, 2) the addition of species that are not characteristically known as estuarine species, 3) the addition of 50 macroalgal taxa and 4) minor changes due to taxonomic revisions of species and the addition of newly described species. The Shannon diversity index showed that greater species diversity was found in the Berg (Groot) Estuary (4.220) and the Uilkraals Estuary (4.025). The cool temperate bioregion was the most diverse in the number of taxa (58) with the highest Shannon index (4.736). Permanently open estuaries were the most diverse in the number of unique taxa (56) with the highest Shannon index (4.867). Estuarine managers need to be aware of the species diversity in different estuarine types as well as the associated impacts on them. Conservation planning must therefore include species. Diagnostic features of INTKEY indicated that all 57 taxa were distinguishable from each other. Contrary to expectations plant height and not floral morphology was the best diagnostic characteristic. Ecological information such as the estuarine habitat, where different life forms occur, was important in delimiting species.

The Bushmans Estuary is one of the few permanently open estuaries in the Eastern Cape that is characterized by large intertidal salt marshes. Freshwater inflow to the estuary has decreased as a result of abstraction by more than 30 weirs and farm dams in the catchment. The mean annual run-off is naturally low (38 x 106 m3 y-1) and thus abstraction and reduction of freshwater inflow to the estuary is expected to cause a number of changes. The aims of this study were to determine the current health/status of the estuary based on the macrophytes and microalgae and identify monitoring indicators for the East London Department of Water Affairs, River Health Programme. Changes in the estuary over time were determined from available historical data which were compared with present data. This analysis showed that under normal average conditions freshwater inflow to the estuary is very low, less that 0.02 m3 s-1 most of the time. Under these conditions the estuary is in a homogenous marine state. Vertical and horizontal salinity gradients only form when high rainfall and run-off occurs (> 5 m3.s-1). Salinity gradients from 30.1 PSU at the mouth to 2.2 PSU in the upper reaches were measured in 2006 after a high flow event. However the estuary quickly reverted back to its homogenous condition within weeks after this flood. This study showed that freshwater inflow increased nutrient input to the estuary. Total oxidised nitrogen (TOxN) and soluble reactive phosphorus (SRP) concentrations were higher in August 2006, after the flood, than during the other low flow sampling sessions. TOxN decreased from a mean concentration of 21.6 μM in 2006 to 1.93 μM in February 2009. SRP decreased from 55.3 μM to 0.2 μM respectively. With the increased nutrient availability, the response in the estuary was an increase in phytoplankton biomass. After the 2006 floods the average water column chlorophyll-a was 9.0 μg l-1, while in the low freshwater inflow years it ranged from 2.1 to 4.8 μg l-1. The composition of the phytoplankton community was always dominated by flagellates and then diatoms, with higher cell numbers in the nutrient-enriched 2006 period. Although the water column nutrient data indicated that the estuary was oligotrophic, benthic microalgal biomass (11.9-16.1 μg.g-1) in the intertidal zone was comparable with nutrient rich estuaries. Benthic species indicative of polluted conditions were found (Nitzschia frustulum, Navicula gregaria, Navicula cryptotenelloides). These benthic species were found at the sites where wastewater / sewage seepage had occurred. Benthic diatom species also indicated freshwater inflow. During the high flow period in 2006 the dominant diatoms were fresh to brackish species that were strongly associated with the high concentrations of TOxN and SRP (Tryblionella constricta, Diploneis smithii, Hippodonta cf. gremainii, and Navicula species). During the freshwater limited period of 2008 and 2009 the benthic diatom species shifted to a group responding to the high salinity, ammonium and silicate concentrations. The species in this group were Nitzschia flexa, Navicula tenneloides, Diploneis elliptica, Amphora subacutiuscula and Nitzschia coarctata. Ordination results showed that the epiphytic diatom species responded to different environmental variables in the different years. Most of the species in 2008/2009 were associated with high salinity, temperature, dissolved oxygen, ammonium and silicate concentrations while the response was towards TOxN and SRP in 2006. The dominant species were Cocconeis placentula v euglyphyta in 2006; Nitzschia frustulum in 2008; and Synedra spp in 2009. The average biomass of the epiphytes was significantly lower in May 2008 than in both August 2006 and February 2009; 88.0 + 17.7 mg.m-2, 1.7 + 0.8 mg.m-2, and 61.8 + 14.4 mg.m-2 respectively. GIS mapping of past and present aerial photographs showed that submerged macrophyte (Zostera capensis) cover in 1966 and 1973 was less than that mapped for 2004. Salt marsh also increased its cover over time, from 86.9 ha in 1966 to 126 ha in 2004, colonizing what were bare sandy areas. Long-term monitoring of the health of the Bushmans Estuary should focus on salinity (as an indicator of inflow or deprivation of freshwater), benthic diatom identification and macrophyte distribution and composition (for the detection of pollution input), and bathymetric surveys (for shallowing of the estuary due to sedimentation).