Community structure and trophic ecology of shallow and deep rocky reefs in a well-established marine protected area
- Authors: Heyns, Elodie R
- Date: 2016
- Language: English
- Type: text , Thesis , Doctoral , PhD
- Identifier: http://hdl.handle.net/10962/54438 , vital:26565
- Description: The now formally adopted ecosystem approach to fisheries (EAF) considers not only commercially important species, but the entire ecosystem and the processes that support these species. A key component of EAF management is the implementation of no-take Marine Protected Areas (MPAs). Shallow water fish stocks are depleted and fishing effort is moving deeper and further offshore to keep up with demands. This situation calls for a detailed investigation of deep nearshore reefs to provide critical information relevant to policy uptake and management decisions regarding existing and new MPAs in terms of zonation and use. To address this need, the aim of this thesis was to investigate reefs that lie between 45 and 75 m and compare them in terms of community structure and function to the relatively well-studied shallow reefs that lie within SCUBA diving depth (<25 m). Ecological collections were made in the centre of a large and well-established MPA, Tsitsikamma National Park, to ensure that data represented non-anthropogenically impacted communities. Data were collected from two study sites; Rheeders Reef, (shallow reef) and Middlebank, a deep reef complex situated near the Storms River Mouth. The first step to address the aim of this study was to obtain baseline data on the distribution patterns of both the macrobenthic invertebrates and fish assemblages. Baseline data were obtained by underwater video methods and included the use of a remotely operated vehicle, baited remote underwater stereo-video systems (stereo-BRUVs) and traditional underwater camera equipment operated by SCUBA divers. To establish functional differences between the two study sites, fatty acid (FA) and stable isotope (SI) analyses were employed. These biomarker techniques provided insight into the importance of different sources of primary production, nutritional condition and species packing. From 360 photoquadrats examined for macrobenthic invertebrate distribution patterns, 161 invertebrates were identified that demonstrated a clear changeover of species along the depth gradient. Species richness was highest on the shallow reef and decreased with an increase in depth. To understand how the measured environmental variables impacted the macrobenthic assemblage data a LINKTREE analysis was performed. LINKTREEs produce hierarchical cluster analysis based on the macrobenthic assemblage data and provide a threshold of environmental variables that correspond to each cluster. The outcome of the LINKTREE analysis indicated that the changeover of species resulted in four distinct clusters, each cluster associated with a particular set of environmental variables that fell within a depth range. On the shallowest sites, the high energy environment resulting from wave action and surge prevented the settlement of suspended particles. The high energy environment of the shallow reef selected for low-growing encrusting species. High light intensities supported great abundances of benthic algae, and as light was lost with increasing depth, algal cover gradually diminished until it was completely absent on the deep reef. The reduced impact of surface wave action on the deep reef caused increased levels of settled suspended particles. The high levels of settled particles likely caused clogging of feeding parts of the encrusting species. Consequently, upright growth forms were more common in the lower energy environment of the deep reef. A total of 48 fish species were identified from 51 stereo-BRUVs samples. Fish assemblages differed significantly between the shallow and deep reefs. The shallowest sites were characterised by many small and juvenile fish species that fed at lower trophic levels. The deep reef supported the majority of the large predatory fish that fed at higher trophic levels. Many species demonstrated depth-related ontogenetic shifts in habitat use, and as such the deep reef hosted the majority of the sexually mature individuals. The fish assemblages also demonstrated a strong association with the macrobenthic clusters identified as habitat types by the LINKTREE analysis. The results from 201 FA and 191 SI samples provided information on specific feeding interactions, but more importantly shed some light on different processes that supported the shallow and deep reef communities. The shallow reef community was characterised by greater diversity of food sources, a pattern that could be explained by the presence of benthic algae and terrestrial inputs. Greater diversity of carbon sources at the bottom of the food web meant that a larger variety of species could be supported. Higher species richness increased the number of distinct taxa that performed similar functions, rendering the shallow reef more redundant and consequently more resilient to disturbance. In contrast, the deep reef demonstrated a food web supported mainly by pelagic production, which was more variable both over space and time. The deep reef was less redundant when compared to the shallow reef, as fewer species demonstrated similar trophic niches. These factors, in addition to the increased presence of sensitive calcareous macrobenthic species on the deep study site, rendered the deep reef more vulnerable to disturbance when compared to the shallow reef. Although the data presented here were from a single study area, the limitations typically associated with these inaccessible and challenging sampling environments made the dataset a significant contribution to the knowledge of reef ecosystems. The study addressed priority research questions for South Africa as identified during the National Biodiversity Assessment. The observable differences in structure, function and vulnerability point to the need for continued protection of our shallow reefs and offshore expansion of our MPA networks. Future research should determine if the patterns identified here are common throughout the Agulhas Ecoregion to provide managers with robust evidence for the extension our MPAs offshore.
- Full Text:
- Date Issued: 2016
Polymer based electrospun nanofibers as diagnostic probes for the detection of toxic metal ions in water
- Authors: Ondigo, Dezzline Adhiambo
- Date: 2013
- Subjects: Heavy metals , Nanofibers , Nanoparticles , Colorimetric analysis
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4557 , http://hdl.handle.net/10962/d1018261
- Description: The thesis presents the development of polymer based electrospun nanofibers as diagnostic probes for the selective detection of toxic metal ions in water. Through modification of the chemical characteristics of nanofibers by pre- and post-electrospinning treatments, three different diagnostic probes were successfully developed. These were the fluorescent pyridylazo-2-naphthol-poly(acrylic acid) nanofiber probe, the colorimetric probe based on glutathione-stabilized silver/copper alloy nanoparticles and the colorimetric probe based on 2-(2’-Pyridyl)-imidazole functionalized nanofibers. The probes were characterized by Fourier transform infrared spectroscopy (FTIR), Energy dispersive x-ray spectroscopy (EDX), Scanning Electron Microscopy (SEM) and Transmission Electron Microscopy (TEM). The fluorescent nanofiber probe was developed towards the determination of Ni²⁺. Covalently functionalized pyridylazo-2-naphthol-poly(acrylic acid) polymeric nanofibers were employed. The solid state Ni²⁺ probe exhibited a good correlation between the fluorescence intensity and nickel concentration up to 1.0 mg/mL based on the Stern-Volmer mechanism. The detection limit of the nanofiber probe was found to be 0.07 ng/mL. The versatility of the fluorescent probe was demonstrated by affording a simple, rapid and selective detection of Ni²⁺ in the presence of other competing metal ions by direct analysis without employing any sample handling steps. For the second part of the study, a simple strategy based on the in-situ synthesis of the glutathione stabilized silver/copper alloy nanoparticles (Ag/Cu alloy NPs) in nylon 6 provided a fast procedure for fabricating a colorimetric probe for the detection of Ni²⁺ in water samples. The electrospun nanofiber composites responded to Ni²⁺ ions but did not suffer any interference from the other metal ions. The effect of Ni²⁺ concentration on the nanocomposite fibers was considered and the “eye-ball” limit of detection was found to be 5.8 μg/mL. Lastly, the third probe was developed by covalently linking an imidazole derivative; 2-(2′-Pyridyl)-imidazole (PIMH) to Poly(vinylbenzyl chloride) (PVBC) and nylon 6 nanofibers by post-electrospinning treatments using a wet chemical method and graft copolymerization technique, respectively. The post-electrospinning modifications of the nanofibers were achieved without altering their fibrous morphology. The color change to red-orange in the presence of Fe²⁺ for both the grafted nylon 6 (white) and the chemically modified PVBC (yellow) nanofibers was instantaneous. The developed diagnostic probes exhibited the desired selectivity towards the targeted metal ions.
- Full Text:
- Date Issued: 2013
Biological synthesis of metallic nanoparticles and their interactions with various biomedical targets
- Authors: Sennuga, Afolake Temitope
- Date: 2012
- Subjects: Nanoparticles Biosynthesis Nanotechnology Biomineralization Morphology Ceruloplasmin Ribonucleases Adenosine triphosphatase Acetylcholinesterase Platinum Gold Silver
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4009 , http://hdl.handle.net/10962/d1004069
- Description: The synthesis of nanostructured materials, especially metallic nanoparticles, has accrued utmost interest over the past decade owing to their unique properties that make them applicable in different fields of science and technology. The limitation to the use of these nanoparticles is the paucity of an effective method of synthesis that will produce homogeneous size and shape nanoparticles as well as particles with limited or no toxicity to the human health and the environment. The biological method of nanoparticle synthesis is a relatively simple, cheap and environmentally friendly method than the conventional chemical method of synthesis and thus gains an upper hand. The biomineralization of nanoparticles in protein cages is one of such biological approaches used in the generation of nanoparticles. This method of synthesis apart from being a safer method in the production of nanoparticles is also able to control particle morphology. In this study, a comparative biological synthesis, characterization and biomedical effects of metallic nanoparticles of platinum, gold and silver were investigated. Metallic nanoparticles were biologically synthesized using cage-like (apoferritin), barrel-like (GroEL) and non-caged (ribonuclease) proteins. Nanoparticles generated were characterized using common techniques such as UV-visible spectroscopy, scanning and transmission electron microscopy, inductively coupled optical emission spectroscopy, Fourier transform infra-red spectroscopy and energy dispersion analysis of X-rays (EDAX). Nanoparticles synthesised biologically using apoferritin, GroEL and RNase with exhibited similar chemical and physical properties as thoses nanoparticles generated chemically. In addition, the metallic nanoparticles fabricated within the cage-like and barrel-like cavities of apoferritin and GroEL respectively, resulted in nanoparticles with relatively uniform morphology as opposed to those obtained with the non-caged ribonuclease. The enzymatic (ferroxidase) activity of apoferritin was found to be greatly enhanced with platinum (9-fold), gold (7-fold) and silver (54-fold) nanoparticles. The ATPase activity of GroEL was inhibited by silver nanoparticles (64%), was moderately activated by gold nanoparticles (47%) and considerably enhanced by platinum nanoparticles (85%). The hydrolytic activity of RNase was however, lowered by these metallic nanoparticles (90% in Ag nanoparticles) and to a higher degree with platinum (95%) and gold nanoparticles (~100%). The effect of synthesized nanoparticles on the respective enzyme activities of these proteins was also investigated and the potential neurotoxic property of these particles was also determined by an in vitro interaction with acetylcholinesterase. Protein encapsulated nanoparticles with apoferrtin and GroEL showed a decreased inhibition of acetylcholinesterase (<50%) compared with nanoparticles attached to ribonuclease (>50%). Thus, it can be concluded that the cavities of apoferitin and GroEL acted as nanobiofactories for the synthesis and confinement of the size and shape of nanoparticles. Furthermore, the interior of these proteins provided a shielding effect for these nanoparticles and thus reduced/prevented their possible neurotoxic effect and confirmed safety in their method of production and application. The findings from this study would prove beneficial in the application of these nanoparticles as a potential drug/drug delivery vehicle for the prevention, treatment/management of diseases associated with these enzymes/proteins.
- Full Text:
- Date Issued: 2012
Plant aphid interactions : effects of diuraphis noxia and rhopalosiphum padi on the structure and function of the transport systems of leaves of wheat and barley
- Authors: Saheed, Sefiu Adekilekun
- Date: 2008
- Subjects: Russian wheat aphid Rhopalosiphum padi Aphids -- Host plants Wheat -- Diseases and pests
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4225 , http://hdl.handle.net/10962/d1003794
- Description: The infestation of the cultivated grain crops by phloem feeding aphids has generated a great deal of interest over the years, due to the serious damage they cause to the crops and yield losses that result. The mechanism of the interaction between aphids and host plants remains largely unknown in spite of efforts to understand the basis of aphid feeding on grain crops. Greater efforts are required to explain the mechanism(s) of this interaction in order to achieve sustainable agriculture. This thesis focused on an investigation of the mechanism of feeding by the Russian wheat aphid, Diuraphis noxia Mordvilko (RWA) and the bird cherry-oat aphid, Rhopalosiphum padi L. (BCA) on barley and wheat cultivars. These two aphids co-occur naturally, but they inflict very different feeding effects on host plants. Structural and functional approaches were employed to investigate their feeding habits and these were then related to the observed differences in their host plants. Transmission electron microscopy (TEM) techniques were used to study the ultrastructural damage, while fluorescence microscopy techniques – using aniline blue fluorochrome (a specific stain for callose) and 5, 6-CFDA (a phloem-mobile fluorophore) – were employed to investigate the functional response to damage via wound callose formation and phloem transport capacity respectively. RT-PCR and quantitative real-time RT-PCR techniques were used to investigate the regulation of the genes involved in callose synthesis and degradation at the transcriptional level. Morphological observation of the damage caused by the aphids show that infestation by RWA results in extensive leaf chlorosis, necrosis and rolling, while infestation by BCA does not lead to any observable symptoms within the same period. Interestingly, the population study shows that BCA breeds faster than RWA within the two-week experimental period. The ultrastructural study of feeding damage caused by the two aphids on the vascular bundles of susceptible barley cv Clipper, shows a different patterns of damage. Probing the vascular bundles results in the puncturing of vascular parenchyma by both aphids, but severe damage occurs in sieve tubes-companion cell complex during sustained feeding by RWA. In contrast, less damage occurs when BCA feeds on the phloem. Drinking from the xylem by RWA results in deposition of a large quantity of electron-dense watery saliva, which apparently seals the xylem vessels completely, by blocking all the pit membrane fields between the xylem vessels and associated parenchyma cells. In contrast, drinking from xylem by BCA results in deposition of a dense, granular saliva into the xylem vessels only, which does not appear to totally occlude the pit membrane fields. This is the first known report in which ultrastructural evidence of aphids’ drinking in xylem is provided. The comparative effects of RWA feeding on a susceptible Betta and resistant Betta-Dn1 wheat cultivars showed that after two weeks, the Betta cultivar expressed damage symptoms such as chlorosis, necrosis and leaf roll, while few chlorotic patches and necrotic spots occur in resistant Betta-Dn1 cultivars. An ultrastructural investigation of the feeding damage caused to all leaf tissues revealed, for the first time, that RWA is capable of both intra- and inter-cellular probing within mesophyll cells. Probing in the mesophyll cells induces a more severe damage in susceptible Betta than in the resistant Betta-Dn1 counterpart. Similar differences in damage occurred during feeding in the thin-walled sieve tubes of the phloem, with the sieve tubes of the Betta showing more damage than that of the resistant Betta-Dn1. However, drinking from xylem resulted in the characteristic occlusion of metaxylem vessels by copious deposition of saliva by RWA in both Betta and Betta-Dn1 cultivars. In all cases of probing, feeding, and drinking by RWA in both cultivars, all probed cells with evidence of salivary material deposit and those cells adjacent to salivary material deposit, exhibit significant damage in susceptible Betta cultivar, whereas similar cells in Betta-Dn1 cultivars do not show as damage as severe. Investigation of the functional response of the plants to feeding by aphids through the deposition of wound-induced callose shows that formation and deposition of wound callose occurs in both longitudinal and cross veins within 24h of feeding by RWA. This deposition increases through short-term feeding (72h) and prolonged feeding (14d). This is in sharp contrast to the observations with BCA feeding,where little or no callose formation occurs within the same time frame. Callose formation and deposition occurs only when a higher population of BCA feeds on barley leaves. This is the first report of aphid-induced wound callose by BCA. In all cases of callose deposition, aphid stylet tracks were associated with callose and the deposition of callose appears to be a permanent feature, because wound callose remained in the leaf tissues even after 120h of the aphids’ removal. Wound callose signals (defence and anti-defence) are discovered to be transported in the phloem tissues and are dependent on the direction of assimilate flow. Examination of the possible regulation of wound callose genes at the transcriptional level shows that the two expressed glucan synthase gene sequences (GSL – genes involved in callose formation) analysed did not show any significant increase or regulation upon aphid infestation. Contrary to expectation, all three aphid-induced β-1, 3-glucanases (genes which are thought to be involved in callose degradation) showed higher expression in RWA-infested tissue than in BCA-infested tissue. The results of the feeding damage on the transport capacity of the phloem shows that BCA infestation does not lead to a significant reduction in the phloem transport capacity during short-term feeding (72h), while RWA-infested leaves showed considerable reduction in the transport capacity of the phloem within the same period. However, prolonged feeding (14d) by BCA induces a considerable reduction on the transport capacity of the phloem on the infested tissues. In contrast, a marked reduction in the transport capacity of the phloem occurs in RWA-infested leaves and in most cases, complete cessation of transport ensues. In conclusion, these data collectively suggest that RWA is a serious and most destructive phloem feeder in comparison to the BCA. RWA causes severe damage to all cellular tissues of the host plants, which result in apoplasmic and symplasmic isolation of xylem and phloem tissues, while BCA infestation does not result in such isolation within the same time and population levels. Resistance genes appear to function by conferring resistance to cell damage on the resistant cultivars during aphid feeding. Responses by plants to aphid infestation via wound callose deposition are again shown to be species-specific. A quick response results when RWA feeds, even at a very low population level, while a response occurs only at a higher infestation level by BCA, and this response was shown as not regulated at the transcriptional level. Differences in the damage to leaf tissues and wound callose deposition eventually lead to varying degrees of damage to the transport capacity of the phloem. These differences in the damage signatures are hereby suggested to be the cause of the diversity in the observed damage symptoms and the yield losses upon infestation by the two aphid species.
- Full Text:
- Date Issued: 2008
An analysis of how the Senior Certificate examination constructs the language needs of English second language learners
- Authors: Blunt, Sandra Viki
- Date: 2006 , 2013-06-11
- Subjects: Habermas, Jürgen Education, Secondary -- South Africa Examinations -- South Africa -- Evaluation English language -- Examinations -- South Africa English language -- Study and teaching -- South Africa -- Foreign speakers Language and education -- South Africa
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:1902 , http://hdl.handle.net/10962/d1006243
- Description: The Senior Certificate (SC) examination, a focus of the research described in this thesis, has an important function in terms of the quality of the education system overall and also in terms of the contribution of education to the achievement of national goals. The SC examination functions i) as a measure of achievement at school ii) as an indicator of work readiness and iii) as an indicator of the potential to succeed in higher education. This thesis offers a critique of the SC examination in respect of its functions. The way in which learners' language related needs are constructed is crucial in discussing the SC examination's legitimacy since perceptions about the needs of learners are reflected in what is taught and assessed. Since the majority of candidates writing the SC exarnination do so using a language which is not their mother tongue, the research described in the thesis attempted to identify the way in which the English second language (ESL) SC examination papers construct learners' needs. Examination papers represent a particular domain of social practice and are constructed through discourse. In the context of the research described in this thesis, discourses are understood as sets of ideas which are shared by communities of people and which give rise to practices which then define and sustain those communities and, thus, the discourses themselves. Discourse is language insofar as it converges with power and positions people in the interests of power. The ideological nature of discourse necessitates a critical orientation to research which interrogates, challenges and critiques the status quo. To identify the discourses constructing ESL learners' needs I conducted a critical discourse analysis on a representative sarnple of ESL SC exarnination papers and also interviewed six ESL examiners to corroborate the findings of the analysis. This then allowed me to identify several dominant discourses constructing ESL learners' needs: meaning-related, literature-related and process-related. The first meaning-related discourse, 'Received Tradition' discourse, focuses on the rules of grammar and spelling. Rather than approaching language as a resource to enable learners to understand the ideas to which they are exposed, learners are being taught discrete 'skills' to equip them for higher education study and the workplace. It is argued that school-based language literacy practices are not generalizable to the workplace and to higher education. Another aspect of 'Received Tradition' discourse holds that the study of English literature is a medium for understanding life and that there is moral value in teaching English literature. Learners are therefore constructed as lacking these values and their needs as having to acquire them. 'Received Tradition' discourse also overlaps with a second meaning-related discourse, 'Autonomous Text' discourse, which holds that the text's meaning is explicit and that if the learners can manipulate the rules of English grammar, 'have' vocabulary and can spell, they can retrieve meanings from texts they encounter in a wide range of contexts and construct texts for themselves. It is argued that a lack of awareness that meaning is constructed through recourse to other contexts, texts and the learner's experience is disadvantaging ESL candidates. 'Language as an Instrument of Communication' discourse, the last meaning-related discourse identified, sees language as the vehicle used to convey ideas, thoughts, information and beliefs, which are viewed as having been constructed independently of language. It is assumed that the answers, which, according to 'Autonomous Text' discourse, are in the text, can be conveyed if the tools of language are used correctly. The first literature-related discourse identified is 'Literature Study Develops Language Proficiency'. It is argued this is a misperception since language is learned as part of situated practice and instruction must thus be embedded in meaningful communicative contexts involving situated practice. The second literature-related discourse identified, 'Literature Study is a Medium for Understanding Life', is connected to the 'Received Tradition' discourse referred to above which holds that there is moral value in teaching English literature. This research identifies the ideological implications of these discourses, arguing that values are culture-specific and learners from diverse socio-cultural backgrounds experience life differently from the way it is depicted in English literature. Process-related discourses, which are part of the processes of teaching and assessment, concern the inadequacy of the ESL learner and of the markers and therefore dictate what can and cannot be expected of ESL learners in the SC examination. The research showed how all of the above discourses work through the SC curriculum to impose the values and beliefs of particular dominant groups on the ESL learner. Because of the robust and invidious nature of discourses this is a cause for concern. Although it is difficult to set a school leaving examination which serves both workplace and academic functions, there is a need to move beyond traditional, hegemonic approaches to understanding language learning. This thesis offers an analysis which can be used to inform practice.
- Full Text:
- Date Issued: 2006
The chemistry of naturally occurring long chain unsaturated compounds
- Authors: Silk, M H
- Date: 1954
- Subjects: Compounds, Unsaturated
- Language: English
- Type: Thesis , Doctoral , PhD
- Identifier: vital:4518 , http://hdl.handle.net/10962/d1014332
- Description: [From Introduction, p. 3] Raw marine oils are subject to considerable variation in composition with season and are moreover very unbalanced oils for direct use in the paint industry. Further refining is undertaken chiefly by Messrs Marine Oil Refiners of Africa Ltd., whose factory is situated at Simonstown. In their plant marine oils and others are treated by the Solexol process involving counter current extraction of the oil with liquid propane in a tower over which a temperature gradient is maintained. The process achieves the removal of a large proportion of the relatively saturated glycerides, the natural antitioxidants, and the relatively highly unsaturated components, all of which are detrimental to the eventual formation of good paint films. The segregated marine oil from the Solexol process is then bodied or polymerised at high temperatures to yield a "drying oil" which is used as a substitute for bodied linseed oil in paints. The chemical reactions taking place during the polymerisation and drying of these oils are of an exemely complex nature, and for their understanding it is necessary to have an accurate knowledge of the chemical nature of the component fatty acids in the natural glycerides ... The term "marine oils" in this work should be understood to mean marine fish body oils, marine mammal oils being excluded from consideration.
- Full Text:
- Date Issued: 1954