Thesis (MScConEcol)--University of Stellenbosch, 2008. / Bibliography. Also available via the Internet.

The Fynbos biome in south-western South Africa is a global biodiversity hotspot vulnerable to climate change. Of the six Fynbos-endemic passerines, Cape Rockjumpers (hereafter Rockjumpers; Chaetops frenatus) are most vulnerable to increases in temperature, with population declines correlated with warming, and low physiological heat thresholds. Rockjumper’s preferred mountain habitat is predicted to decrease as they lack opportunity to move to cooler regions as temperatures warm. As Rockjumpers currently occupy the coldest regions of the Fynbos, I hypothesized their thermal physiology would show cold adaptation at the expense of lowered ability to cope with higher temperatures. I aimed to determine the seasonal 1) maintenance metabolism and cold tolerance, and 2) thermoregulatory responses to high temperatures of Rockjumpers. I measured seasonal maintenance metabolic rate, thermal conductance, and maximum thermogenic capacity. I also measured seasonal resting metabolic rate, evaporative water loss, evaporative cooling efficiency, and body temperature at high air temperatures. In winter, Rockjumpers had higher maximum thermogenic capacity, lower maintenance metabolic rate, and lower thermal conductance. Lower maintenance metabolic rates (and thus, lower metabolic heat production) combined with the decreased thermal conductance, confers substantial energy savings in winter. The increased winter maximum thermogenic capacity of Rockjumpers was expected, although the mean seasonal values fell below those expected for a ~ 50 g bird using a global data set, suggesting Rockjumpers are not especially cold tolerant. I further show that in summer Rockjumpers had higher elevations in resting metabolic rates, evaporative water loss, and body temperature, denoting higher rates of heat production and lower heat thresholds in summer compared to winter. My results suggest that Rockjumpers are best suited for relatively mild Krista Oswald Dissertation Chapter 1: General Introduction temperatures. While I found further support for a physiological basis for declining Rockjumper populations, further studies on other mechanisms Rockjumpers may possess to cope with climate warming (e.g. behavioural adjustments) are needed in order to truly understand their vulnerability to climate change.

Honey has been shown to have bioactivity. Fynbos (FB) honey was investigated for its bioactivity as this vegetation type is from a unique bio diverse region in the Cape Floristic Kingdom. Six FB and one medical grade Manuka (MAN) UMF 15+ honeys that were of quality grade (Codex Alimentarius) were used. Each honey sample was subjected to in vitro simulated gastro-duodenal digestion and the antioxidant and anti-inflammatory activity of each fraction was determined. These fractions were undigested/raw honey (UD), gastric digest (GD) and gastro-duodenal digest (GDD). Included were pH and digestive enzyme controls. The total polyphenol and the flavonoid content (TPC and TFC) were determined with the Folin-Ciocalteu (F-C) and aluminium chloride methods respectively. Antioxidant activity was measured with the trolox equivalent antioxidant capacity (TEAC) and oxygen radical absorbance capacity (ORAC) assays. Cellular antioxidant activity (CAA) in the Caco-2 and SC-1 cell lines using the dichloroflourescein diacetate (DCFH DA) assay was investigated. Nitric oxide (NO) scavenging activity was determined with the sodium nitroprusside (SNP) assay. Pro-inflammatory and anti-inflammatory effects of honey were evaluated in non-stimulated and stimulated with LPS/IFN γ murine macrophage RAW 264.7 cells, respectively. Cell viability using the 3-(4,5-dimethylthiazol-2-yl)-2,5-diphenyltetrazolium bromide (MTT) assay was done. TPC and TFC of MAN were higher than that of FB honeys. With GD, TPC and TFC of MAN increased and following GDD, TPC decreased and TFC remained unchanged. In contrast TPC and TFC of FB honey were maintained with GD and GDD. TEAC assay revealed activity by MAN being higher than that of FB honeys. With GD digestion, the antioxidant activity of MAN was unchanged but following GDD, activity was reduced. For FB honeys, TEAC was maintained with GD and GDD. ORAC assay revealed that the activity of MAN was similar to that of FB. Digestion had no effect on activity of both MAN and FB honeys. CAA in the Caco-2 and SC-1 cell line was higher for MAN compared to FB honey. In both cell lines a similar trend was observed where with GD, CAA was unchanged while with GDD, CAA was reduced. This loss of CAA following GDD was found to be due to H2O2 formation as a result of polyphenol degradation in an alkaline environment containing sodium bicarbonate and pancreatin. NO scavenging activity of MAN was greater than FB. For both types of honey with GD, NO scavenging activity was unchanged and with GDD for MAN was reduced and for FB unchanged. Digestion showed an increased pro-inflammatory effect for MAN, FB1, FB2 and FB3. The UD fractions of MAN, FB1 and FB6 had anti-inflammatory effects. FB5 and FB6 honeys showed increased anti-inflammatory activity after GD and GDD. All honey fractions did not show any cytotoxicity. In conclusion, FB honey has antioxidant, pro- and anti-inflammatory properties. With digestion, GD activity was either increased or unchanged while with GDD activity was reduced, lost or unchanged. Observed effects were either due to pH and/or digestive enzyme activity. FB honey with its shown bioactivity could be an important local nutraceutical product. / Dissertation (MSc)--University of Pretoria, 2017. / Anatomy / MSc / Unrestricted

Magister Scientiae (Biodiversity and Conservation Biology) / Nearly 40 years ago McLachlan and Moll highlighted the need for a well-defined path system on the Western Table of Table Mountain in the immediate vicinity of the Upper Cable Station (UCS). At that time the numbers of people using the cableway was heavily impacting the vegetation on the Western Table, particularly in the vicinity of the UCS. This prompted a study by Coley (1977) to assess the long-term impacts of trampling in this area. In order to monitor changes in the vegetation through time Coley set up 12 permanently marked plots (each ~4x4 m), arranged at increasing distances from the UCS. Plot positions were carefully selected so that the effects of trampling on the vegetation could be measured at various points (distance being a surrogate for trampling intensity). Field observations in 1977 revealed that Mountain Fynbos vegetation was heavily impacted by cableway tourists. Furthermore the vegetation was most damaged closest to the UCS, with a sharp decrease in damage with increasing distance from the station. In order to monitor the vegetation change Coley used aerial photographs of permanently marked plots, so that visual comparisons of species cover, condition and composition could be made over time. The vegetation was then assessed in terms of percentage cover, and percentage damaged for each plot. My study marks the fifth time data were collected since Coley (1977) and the results show that there has been a marked improvement in vegetation quality since the construction of well-defined paths and a concerted effort by managers to ensure tourists do not leave the paths; which has greatly reduced trampling since the 1997 upgrade. The implications of this study provided evidence of the importance of restricting iv tourist traffic in areas that are regularly visited and, therefore, highly impacted. It also shows that denuded fynbos is resilient and does recover over time, provided that the substrate is not eroded too heavily by trampling. Finally, I present several management recommendations, of which the most controversial, albeit important, is for a rotational block burn programme on the Western Table; since fire is a keystone ecological process that has been absent of the Western Table for at least 80 to 90 years.

>Magister Scientiae - MSc / Riparian vegetation occurs in two distinct zones, the wet bank and the dry bank. Knowledge on how the flow regime influences the zonal structure of riparian vegetation is required to mitigate the adverse effects of water resource utilization on riparian vegetation. The first objective of this study was to determine whether flow exerts a physical influence on zonal structure pre- or post-recruitment. An examination of the survival of seedlings and saplings was conducted along Western Cape rivers to investigate seedling persistence and survival on lateral zones. A comparison of the ratios of seedlings, saplings and adults in different riparian zones for the years, 2004, 2011 and 2013, was carried out. The results suggest that in general seeds are deposited randomly on the banks, where they germinate and become seedlings. Seedlings that become established at locations unsuitable for their persistence into adulthood are removed either by high flows or perish during dry conditions. Thus, lateral zonation eventually develops due to species differences in tolerance to conditions at different positions on the banks. The second objective was to explore the effects of the reduction in dry season low flows on the recruitment success of riparian species at sites upstream and downstream of abstraction points. At most sites plants were arranged into different lateral zones and the numbers of species between upstream and downstream sites were not significantly different. There were significant differences in the abundances between up- and downstream sites, with the loss of herbaceous plants and sedges at downstream sites, both of which favour moist conditions. Also, in the absence of dry season flows, the seedlings of dry bank tree species recruited closer to the channel than those at the sites with summer flows. The shifting of the dry bank into the channel narrows the channel, which may affect the hydraulic pressures exerted during floods. The spatial arrangement in the riparian zone has as much to do with flow conditions post recruitment as it does with conditions during recruitment. This shows that the structure of riparian plants is determined not only by whether or not the minimum flows are met, this points to the need to reinstate the naturally variable flow and adopting a holistic approach for the understanding and management of aquatic systems.

Thamnochortus insignis (Albertinia thatching reed) is a restio specie which is endemic in the narrow (20 km wide) coastal dune veld, from the Gouritz River in the east to the Breede River in the west (120 km). The area within this belt, where this reed is the dominant restio, covers 65 500 hectares. The culms of the reed is harvested as a natural product from the veld and used as thatch on roofs of houses. The traditional use has been as roofing material in Cape Dutch architecture. At this time, thatch roofs are regarded as a luxury commodity and are used in prestigious residential areas and also eco-friendly housing developments. The first section of the research project was based on a Delphi technique questionnaire completed first by 37 and secondly by 10 stakeholders in the industry. This group of growers, contract harvesters, crop agents and thatchers represented 80 percent percent of the estimated 2005 harvest and 87 percent of the estimated farm gate crop value. The thatching reed industry is the main agricultural enterprise situated in the coastal dune veld of the Southern Cape, i.e. 55 percent of total Gross Product Value generated by the survey respondents. The second section is based on an analysis of experimental harvest plots (50 m2), selected at random (4 replications per site) in the 2 x 3 different production systems, i.e. traditional harvest from natural veld, harvest from veld which had been subjected to mechanical injury ("sleep") and harvest from established orchard-type lands. Harvest data was collected at each site in terms of the following components, i.e. number of harvestable tussocks, circumference of tussocks and number of reed bundles (minimum circumference 210 mm, minimum length 1,2 m). The gross income per site was calculated on the basis of R1,80 per bundle (2006-price level). Economic analysis (Gross Margin above selected costs) indicates that plant density (reed tussocks/ha) is a critical factor, in order to offset the establishment cost of R2 100/ha in established lands, which is not incurred in the other two production systems. Economic returns from the first planted lands (2 100 and 2 900 plants/ha) averaged R7 666/ha against R8 781/ha for the mechanical-injury plants. However, at a density of 5 000 plants/ha, the projected Gross Margin increases to R15 765/ha. The use of mechanicalinjury and natural vegetation production systems both interfere with biodiversity and raise major concerns with regard to sustainability of the sensitive coastal dune fynbos. ANOVA-analysis of the data indicates a highly significant difference (p = 0,01) for all sites and production systems. Statistical analysis of averages indicates that mechanical injury treatment results in a significant increase in the number of tussocks, when compared to established and natural veld, respectively. The variance in the circumference of tussocks was greatest in natural veld (55 to 71 percent) and mechanical injury (54 to 61 percent). Tussocks harvested from established plantings reflected the least level of variance (28 to 38 percent). The larger reed tussocks in the established lands produced more bundles of marketable reed (8 200/ha) than the mechanical-injury (7 625/ha) and natural veld (3 450/ha) respectively. Establishment of T. insignis plantlets in an "orchard" system at spacings of 2 m x 1 m on previous winter cereal lands or old pastures, is shown to meet all the requirements within a sustainable production system, i.e. viability, productivity, environmental-friendly, risk management and social acceptance. Furthermore, the quality of the yield was in line with the proposed grading standard for thatching reed, i.e. minimum circumference 210 mm, minimum length 1,2 m and less than 6,5 percent grey culm content.

The fire-prone mountain fynbos of the southwestern Cape Province of South Africa has been severely invaded by introduced trees and shrubs. These invasions have transformed fynbos shrublands to dense thickets of trees and shrubs in many parts of the region, thus disrupting various natural ecosystem processes. The ecology of invasions by species of Pinus and Hakea (the most successful genera) was studied using a series of natural experiments in conjunction with autecological studies. The study was divided into main four parts: (i) case studies to elucidate major patterns and processes of invasion; (ii) studies of the life history and population ecology of selected invaders; (iii) studies of the determinants of invasibility; and (iv) assessments of the consequences of invasion and of control programmes. Bibliography: pages 235-272.

>Magister Scientiae - MSc / Groundwater dependent vegetation (GDV) communities are increasingly threatened by the transformation of the natural environment to different land use/land cover, over-exploitation of groundwater resources and the proliferation of invasive species within the Cape Floristic Region (CFR). These changes affect the groundwater regime, level, and quality, which supports GDV. Natural resource managers often lack an understanding at appropriate scales of the nature of dependency of GDV to make informed sustainable decisions. This work thus assesses the spatial distribution of GDV and their responses to groundwater variability within the Cape floristic region from June 2017 to July 2018. To achieve this aim, firstly a literature review on the background of GDV, threats and the impact of climate change was assessed.

Thesis (MSc (Microbiology))--Stellenbosch University, 2008. / Penicillium is a well‐known cosmopolitan genus with more than 225 accepted species. Species from this diverse genus, in general, are considered to primarily be soil fungi, with decomposition as its main function. Therefore, together with its ubiquitous nature, these species are of great importance in ecosystems, agriculture and biotechnology. However, in South Africa, very little research has been done on this complex genus, as species identification were often found to be problematic, even for experienced taxonomists. This lead to a number of South African studies only mentioning that a Penicillium spp. were isolated, without making any attempt of showing the extent of diversity within the genus from the unique habitats. The present study set out to explore the extent of the species diversity in Penicillium isolated from the Cape Floristic Region, specifically focusing on coastal fynbos soil. Soil samples were collected from this region, at sites situated outside Malmesbury. Four hundred and thirty four Penicillium strains were isolated from soil‐dilutions. The strains were characterized using morphological characters and subsequently placed into 24 morphological groups. There were, also, more or less 40 strains that could not be grouped with any other isolates. Groupings were made according to conidiophore branching patterns which divided the strains into their respective subgenera. Eight species from subgenus Aspergilloides, seven from subgenus Furcatum, eight from subgenus Biverticillium and one from subgenus Penicillium were isolated. The species were further characterized in subsequent chapters. In the second chapter of this thesis, one of the taxonomic groups in subgenus Biverticillium, isolated from coastal fynbos soil, Protea infructescences and on moth‐damaged Riesling grapes in Canada, was examined. This species was characterized using morphology and were found to have several unique characters, such as the very short synnema produced after prolonged incubation. These characters did not conform to descriptions of previously described species. Its novelty was confirmed by an ITS phylogeny and the strains were subsequently described as Penicillium ramulosum prov. nom. with P. cecidicola and P. dendriticumas its sister taxa. In chapter three, a further seven groups belonging to Penicillium subgenus Biverticillium were characterized. These strains were identified as P. minioluteum, P. verruculosum and P. rugulosum‐like, respectively. Four of the groups showed unique morphological characters, with the ITS phylogeny resolving the fynbos strains separate from all previously described species. The strains were, therefore, considered to be new to science and described as P. solicola prov. nom., P. ptychoconidium prov. nom., P. occultum prov. nom. and P. chloroloma prov. nom., respectively. A key to species from subgenus Biverticilliumcluded. is also inPenicillium subgenus Furcatum was the subject of the fourth chapter of this thesis. Our survey found that although the species diversity in this group was not as high as for the other subgenera, it was the group most often isolated in this study. Species were identified as P. janczewskii, P. canescens, P. melinii, P. corylophilum and P. citrinum using morphological characters. One species belonging to subgenus Penicillium, P. expansum, was also isolated and compared to species recorded during a previous survey. Amongst the identified species, were two groups that could not be identified using published keys, with their novelty confirmed by an ITS phylogeny. They are, therefore, described here as P. subturcoseum prov. nom. and P. hemitrachum prov. nom. A key to species in this subgenus is also provided. In Chapter 5 the presence of Penicillium subgenus Aspergilloides, which is characterized by monoverticillate conidiophores, were investigated. Species were identified as P. roseopurpureum, P. restrictum, P. hirayamae and P. toxicarium. Amongst the identified species, were four groups that did not conform to previously described species and are described here as P. brachycaulon prov. nom., P. malacosphaerula prov. nom., P. cumulacinatum prov. nom. and P. vulgaris prov. nom., respectively. The newly described species have been included in a key, together with closely related species and the other species of subgenus Aspergilloides from the fynbos soil. Species identifications in Penicillium is often problematic and South African taxonomists have often not attempt to identify strains down to species level. During this study, Penicillium was found to be well represented in the soil, with a large proportion being previously undescribed. For this reason, a dichotomous and synoptic key to species isolated during this study are provided in the final chapter. This study should thus serve as a basis for further explorations into the diversity and ecological role of this group of organisms in this ecologically mportant biome.

Thesis (MSc)--University of Stellenbosch, 2002. / ENGLISH ABSTRACT: Five new species of ophiostomatoid fungi, colon ising the infructescences of serotinous Protea species, have recently been discovered in South Africa. Prior to this, ophostomatoid fungi were thought to be restricted to the Northern Hemisphere. The discovery of these five species thus extensively expanded the known geographical range of these fungi, now also to include the Southern Hemisphere. Since this discovery, few studies have focused on the interesting ecology of this group, which is uniquely adapted for spore dispersal by arthropods. Studies focussed on ophiostomatoid fungi provide an unique opportunity to study inter-organism interactions between fungi, their host plants and the arthropods responsible for their spore dispersal. Very few similar studies have been undertaken, particularly in the Fynbos Biome, to which most of our economically important Protea species are confined. The current study provides insight into some ecological aspects of these complex interactions. The seasonal distribution of the ophiostomatoid fungi associated with the infructescences of members of the Proteaceae was investigated. Definite seasonal patterns were observed, with peak fungal colonisation occurring during the wetter winter months. While determining the host specificity of these fungi, a new Protea host for Ophiostoma splendens was identified, and a new species of Rhyncomeliola was discovered. All ophiostomatoid species native to Fynbos in the Stellenbosch region are exclusively associated with the infructescences of species in the plant genus Protea. By employing a multiplex Polymerase Chain Reaction (PCR), a set of group specific primers was developed for the identification of South African Ophiostoma and Gondwanamyces fungal DNA. This newly developed method was used to scan arthropods collected from the infructescences of P. repens for the presence of 0. splendens and G. proteae spores. By using these group-specific primers, three insects possibly responsible for long range dispersal of fungal spores were identified. Three further insect species, possibly contributing to the short-range dispersal of ophiostomatoid spores, were also implicated through this method. All arthropods associated with the fruiting structures of selected members of the Proteaceae were also investigated. A total of 62 pseudospecies (ca. 7500 individuals), belonging to 45 different arthropod families, were collected. Proteaceae species with larger fruiting structures housed more arthropod species and higher numbers of individuals than Proteaceae taxa with smaller fruiting structures. Some plant species housed similar arthropod communities, while others housed unique suites of arthropods. Seasonal patterns in arthropod numbers were observed, and it was found that, in most instances, arthropod numbers peaked during the autumn and winter months. Twenty-five fungal taxa were isolated from various Proteaceae arthropods, many of which are genera known to include Proteaceae pathogenic species. Ophiostomatoid fungi have a saprophytic relationship with their Protea hosts, and may deter some of these potentially harmful fungi from colon ising the infrutescences. Some fungi showed a high degree of specificity towards potential vectors, while others were found on a diverse range of arthropods. This study highlights the existence of complex inter-organismal interactions within the Fynbos Biome, a study area where the interactions between plants, fungi and insects have been grossly neglected. The few studies that have been conducted in this field have mostly focussed on a limited number of organisms, and no wide-scale attempts, such as presented here, have been published. It is important to obtain a holistic view in any ecological study that focuses on interactions between different suites of organisms. Ultimately this will aid in the development of better conservation strategies. This study thus provides a muchneeded start in studies on multi-organismal interactions in the Fynbos Biome. / AFRIKAANSE OPSOMMING: Vyf nuwe ophiostoma-agtige fungus spesies is onlangs in die vrug-liggame van Suid Afrikaanse Protea plante ontdek. Voor hierdie ontdekking, was die algemene opvatting dat ophiostoma-agtige fungi beperk is tot die Noordelike Halfrond. Die ontdekking van hierdie vyf spesies het dus die bekende geografiese verspreiding van hierdie tipe fungi vergroot om nou ook die Suidelike Halfrond in te sluit. Sederdien het min studies gefokus op die interesante ekologie van hierdie groep, wat aangepas is vir spoorverspreiding deur geleedpotiges. Studies wat fokus op die ophiostoma-agtige fungi voorsien 'n unieke geleentheid om die inter-organismiese-interaksies tussen fungi, hul gasheer plante en die geleedpotiges wat hul spore versprei, te bestudeer. Baie min soortgelyke studies is al voorheen in die Fynbos Bioom, waar die meeste van ons ekonomies-belangrike Protea spesies voorkom, onderneem. Die huidige studie verleen meer inligting oor sommige ekologiese aspekte van hierdie komplekse interaksies. Seisoenale verspreidingspatrone van ophiostoma-agtige fungi geassosieer met die vrug-liggame van lede van die Proteaceae, is ondersoek. Daar is defnitiewe seisoenale patrone in die aanwesigheid van fungi gevind, met 'n piek in fungi kolonisasie-getalle gedurende die vogtiger wintermaande. 'n Nuwe Protea gasheer vir Ophiostoma splendens en 'n nuwe fungus spesie (Rhyncomeliola sp.), is ontdek. Alle Fynbos ophiostoma-agtige spesies in die Stellenbosch area, is beperk tot Protea spesies. 'n Multipleks Polimerase Ketting Reaksie is ontwikkel om die spesifieke DNS van ophiostoma-agtige fungi te herken. Hierdie metode is gebruik om te toets vir die aanwesigheid van spore van hierdie fungi op die liggame van geleedpotiges (geassosieerd met P. repens). Hierdeur is drie insekte wat waarskynlik verantwoordelik is vir die langafstand verspreiding van spore geidentifiseer. Drie verdere insekte wat moontlik verantwoordelik is vir die kortafstand verspreiding van ophiostoma-agtige fungi is ook aangewys. Alle geleedpotiges geassosieer met die vrugstrukture van geselekteerde lede van die Proteaceae is ondersoek. 'n Totaal van 62 pseudo-spesies (omtrent 7500 individue), wat tot 45 families behoort, is versamel. Proteaceae spesies met groter vrugstrukture het meer geleedpotige spesies en individue gehuisves as taksa met kleiner vrugstrukture. Sommige plant spesies het soortgelyke geleedpotige gemeenskappe gehuisves, terwyl unieke groepe geleedpotiges in ander plante voorgekom het. Alhoewel die geleedpotiges seisonale variasies in getalle geopenbaar het, het die meeste groepe 'n piek in getalle getoon gedurende die herfs- en wintermaande. Vyf-en-twintig fungi taksa is geïsoleer vanaf verskeie Proteaceae geleedpotiges. Sommige van hierdie is genera wat Proteaceae patogeniese spesies insluit. Sommige fungi het 'n hoë graad van spesifisiteit teenoor potensiële vektore getoon, terwyl ander weer algemeen op verskeie geleedpotige spesies gevind is. Hierdie studie dui op die bestaan van komplekse inter-organismiese-interaksies in die Fynbos Bioom, in 'n area waar die studie van interaksies tussen plante, fungi en insekte nog baie min aandag geniet het. Die beperkte aantal studies wat tot dusver in hierdie veld onderneem is, fokus gewoonlik slegs op 'n paar organismes. Geen grootskaalse studies, soos die een hier voorgelê, is al gepubliseer nie. In enige ekologiese studie wat fokus op interaksies tussen verskeie organismes, is dit belangrik om 'n holistiese siening te probeer verkry. Uiteindelik sal dit bydra tot die ontwikkeling van beter bewarings-strategië. Hierdie studie verleen dus 'n noodsaaklike begin tot studies op multiorganismiese- interaksies.