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Silicon has been the mainstay of the microelectroncs industry for over four decades. There is no material which can match the balance it affords between cost-benefit, mass consumability, process versatility, and nano-scale electron device performance. It is, therefore, the logical (and perhaps inevitable) platform for the development of integrated opto-electronics - a technology that is being aggressively developed to meet the next generation of bandwidth demands that are already beginning to strain interconnect architectures all the way down to the intra-chip level. While silicon-based materials already provide a variety of passive optical functionalities, the success of a genuine silicon-based optoelectronics will depend upon the ability of engineers to overcome those limitations in the optical properties of bulk silicon that occur at critical junctions in device requirements (eg. modulator and laser). Such solutions must not render the device processing incompatible with CMOS, for then the "silicon advantage" is lost. Achieving reliable and efficient electroluminescence in silicon remains the most intractable of these problems to date. Reliability problems in recently developed light emitting devices operating near a wavelength of 1.54 f..Lm, based on the thermally induced formation of silicon nano-clusters in erbium-doped silicon rich silicon oxide thin films, has reinforced the need for a further understanding of the luminescence mechanisms in this material. Indeed, the efficient and stable sensitized photoluminescence from Er3+ ions (near the telecom wavelength), embedded in an oxide matrix, based on a quasi-resonant energy transfer from nanostructured silicon, has the potential to make possible compact waveguide amplifiers and thin film electroluminescence. This thesis represents a study into the luminescence mechanisms in erbium-doped silicon oxide (SiOx, x~2) thin films grown by electron cyclotron resonance plasma enhanced chemical vapour deposition. Importantly, the film growth relies on in-situ erbium doping through the cracking of a volatile organalanthanide Er(tmhd)3 source. Rutherford backscattering spectroscopy has been used to map the film composition space generated from an ECR-PECVD parameter subspace consisting of precursor gas flow rates and the erbium precursor temperature. The response of the film photoluminescence spectra in both visible and infrared bands consistenly reveals three classes of luminescence centres, whose relative ability to emit light is shown in this study to exhibit a considerable degree of variability through the control of the film composition, subsequent thermal anneal temperature, duration, and process ambient. These three classes consist of optically active Er3 + ions, silicon nano-clusters phase separated during thermal annealing, and oxide-based defects (which may additionally include organic chromophores). The latter two of these species show the ability to sensitize the Er3 + luminescence. In fact, sensitization by intrinsically luminescent defects is a rarely studied phenomenon, which seems to be an important phenomenon in the present films owing to a potentially unique Er incorporation complex. To further investigate the ability of the oxide defects in this regard, an optimally luminescent film has been subject to a damaging ion irradiation to induce a photoluminescence quenching. The subsequent recovery of this luminescence with stepwise isochronous annealing has been correlated with Doppler broadening positron annihilation spectroscopy measurements made with a slow positron beam. Irradiation to a sufficiently high fluence has demonstrated a unique ability to de-couple luminescent sensitizers and Er3+ ions, producing enhanced blue and violet emissions. / Thesis / Master of Science (MS)

In biochemical networks, complex dynamical features such as superlinear growth and oscillations are classically considered a consequence of autocatalysis. For the large class of parameter-rich kinetic models, which includes Generalized Mass Ac- tion kinetics and Michaelis-Menten kinetics, we show that certain submatrices of the stoichiometric matrix, so-called unstable cores, are sufficient for a reaction network to admit instability and potentially give rise to such complex dynami- cal behavior. The determinant of the submatrix distinguishes unstable-positive feedbacks, with a single real-positive eigenvalue, and unstable-negative feedbacks without real-positive eigenvalues. Autocatalytic cores turn out to be exactly the unstable-positive feedbacks that are Metzler matrices. Thus there are sources of dynamical instability in chemical networks that are unrelated to autocatalysis. We use such intuition to design non-autocatalytic biochemical networks with su- perlinear growth and oscillations.

Platelet rich plasma (PRP) is a popular autologous biological therapy used for the treatment of various equine ailments, including tendon and ligament injuries, osteoarthritis, and cutaneous wounds. A number of commercial products are available for producing PRP, each generating a slightly different product. Variations in platelet numbers and white blood cell (WBC) counts are believed to be the most critical variables, as they are directly related to concentrations of growth factors and inflammatory cytokines. Accurate documentation of platelet numbers is essential for prospective evaluation of clinical outcomes, but can be problematic in platelet concentrates depending on the counting method employed. The objectives of this study were to compare the performance of four platelet counting technologies in equine platelet concentrates and to evaluate the ability of the Magellan PRP system to concentrate equine platelets. We hypothesized that there would be no differences in platelet counts among the four counting technologies and that the Magellan system would generate platelet concentrations greater than 500,000/μL. Citrated whole blood was collected from 32 horses and platelet, WBC, and red blood cell concentrations were measured using a commercial hematology analyzer (Advia 2120) prior to preparation of PRP using the Magellan system. Platelets were quantified in individual identical aliquots of equine PRP produced by the Magellan system (n=32) using three different technologies: optical scatter (Advia 2120), impedance (CellDyn 3700), and hand count using direct microscopy (Thrombo-TIC). An immunofluorescent counting method was performed on a subset of 15 of the 32 samples using a mouse monoclonal anti-sheep antibody against integrin alpha αIIbβ₃ (anti-CD41/CD61) and a fluorescent secondary antibody. Measured platelet concentrations were compared using Passing and Bablok regression analyses and mixed model ANOVA. The Magellan PRP system yielded mean (± SD) platelet and WBC counts of 893,090 ± 226,610/μL and 35,806 ± 9,971/μL, respectively. Platelet counts generated by optical scatter were consistently higher than those generated by impedance. Systematic and proportional biases were observed between these two automated methods. No bias (systematic or proportional) was observed among any of the other counting methods. Despite the bias detected between the two automated systems, there were no significant differences on average among the four counting methods evaluated, based on the ANOVA. All four platelet counting methods tested are therefore suitable for quantifying platelets in equine PRP for clinical applications. The Magellan PRP system consistently generated desirably high platelet concentrations as well as higher than expected WBC concentrations. The high platelet concentrations served as a good test medium for the study; however, the concurrent high WBC counts may be undesirable for selected orthopedic applications. / Master of Science

Yes / The photoperiod is the main environmental cue that drives seasonal adaptive responses in reproduction, behavior, and metabolism in seasonal animals. Increasing evidence suggests that (poly)phenols contained in fruits can also modulate seasonal rhythms. (Poly)phenol-rich diets are associated with an improvement in cognitive function and neuroprotection due to their anti-inflammatory and antioxidative properties. However, it is unknown whether cherries affect neuroprotection in a photoperiod-dependent manner. To test this, F344 rats were exposed to L6 (6 h light/day), L12 (12 h light/day) and L18 (18 h light/day) photoperiods and fed a standard chow diet supplemented with either a control, lyophilized cherry 1 or cherry 2 with distinctive phenolic hallmarks. Physiological parameters (body weight, eating pattern index (EPI), testosterone, T4/T3) and hypothalamic key genes (Dio2, Dio3, Raldh1 and Ghrh) were strongly regulated by the photoperiod and/or fruit consumption. Importantly, we show for the first time that neurotrophs (Bdnf, Sod1 and Gpx1) in the hippocampus are also regulated by the photoperiod. Furthermore, the consumption of cherry 2, which was richer in total flavonols, but not cherry 1, which was richer in total anthocyanins and flavanols, enhanced neuroprotection in the hippocampus. Our results show that the seasonal consumption of cherry with a specific phenolic composition plays an important role in the hippocampal activation of neuroprotection in a photoperiod-dependent manner. / This work was supported by grant number PID2020-113739RB-I00 funded by MCIN/AEI/10.13039/501100011033 and by Pect-Nutrisalt funded by the European Regional Development Fund of the European Commission through the Operative Program Erdf of Catalonia 2014–2020. The authors thank the British Society for Neuroendocrinology (BSN) for providing a research visit Grant to F.M (Grant number: BSN-2022-1452). F.M. is the recipient of a predoctoral fellowship from Universitat Rovira i Virgili—Martí i Franquès (Grant number: 2019PMF-PIPF-19).

With increasing energy demand globally and, in particular, in South Africa coupled with depletion of the earth’s fossil energy resources and growing problem of disposal of nonbiodegradable waste such as waste tyres, there is a need and effort globally to find alternative energy from waste material including waste tyres. One possible way of exploiting waste tyre for energy or chemicals recovery is through gasification for the production of syngas, and this is what was investigated in this study. The possibility of gasification of waste tyre blended with coal after pyrolysis was investigated and two Bituminous coals were selected for blending with the waste tyre in co-gasification. A sample of ground waste tyre / waste tire, WT, a high vitrinite coal from the Waterberg coalfield (GG coal) and a high inertinite coal from the Highveld coalfield (SF coal) were used in this investigation. The waste tyre sample had the highest volatile matter content of 63.8%, followed by GG coal with 27% and SF coal with 23.8%. SF coal had the highest ash content of 21.6%, GG coal had 12.6% and waste tyre had the lowest of 6.6%. For the chars, SF char still had the highest ash of 24.8%, but WT char had higher ash, 14.7%, when compared to GG char with 13.9% ash. The vitrinite content in GG coal was 86.3%, whilst in SF coal it was 25% and SF coal had a higher inertinite content of 71% when compared to GG coal with 7.7%. SF char had the highest BET surface area of 126m2/g, followed by GG char with 113m2/g, and WT had the lowest value of 35.09m2/g. The alkali indices of the SF, WT and GG chars were calculated to be 8.2, 4.2 and 1.7 respectively. Coal samples were prepared by crushing and milling to particle sizes less than 75μm before charring in a packed bed balance reactor at temperatures up to 1000oC.Waste tyre samples were charred at the same conditions before milling to < 75μm particle size. Coal and WT chars were blended in ratios of 75:25, 50:50 and 25:75 before gasification experimentation. Carbon dioxide gasification was conducted on the blends and the pure coal and WT chars in a Thermogravimetric analyser (TGA) at 900oC, 925oC, 950oC and 975oC and ambient pressure. 100% CO2 was used at a flow rate of 2L/min. Reactivity of the pure char samples was found to be in the order SF > GG > WT, and the relationship between the coal chars’ reactivities could be explained by the high ash content of the SF char and low reactivity of the WT char corresponds to its low BET surface area. In general, the coal/WT char mixtures were less reactive than the respective coal, but more reactive than the pure WT char, the only exception being the 75% GG char blend which was initially more reactive than the GG char, and reactivity decreased with increasing WT content. For all samples reactivity increased with increasing temperature. The relationship between the reactivities of the GG char and its blends and that of the SF char and its blends was found to be affected by the amount of WT char added, especially at the lower temperatures 900oC and 925oC. SF coal is more reactive than GG coal, but at 900oC and 925oC, the reactivity of GG/WT blends improves in relation to the SF/WT blends with an increase in the ratio of WT in the blends, i.e. the 25% GG char blend is more reactive than the 25% SF char blend. The reactivity of the coal/WT blends was also checked against predicted conversion rates based on the conversion rates of the pure WT and coal samples. At 900oC and 925oC, the reactivities of the blends of both coal chars with WT char were found to be greater than the predicted conversion rates, and for the GG/WT blends the deviation increased with increasing WT ratios, while for the SF/WT blends the deviation increased with increasing SF ratios. These findings suggest the presence of synergism or enhancement between the coal chars and WT char in gasification reactions. The random pore model (RPM) was used to model the gasification results and it was found to adequately describe the experimental data. Activation energies determined with the RPM were found to be 205.4kJ/mol, 189.9kJ/mol and 173.9kJ/mol for SF char, WT char and GG char respectively. The activation energies of the coal/WT blends were found to be lower than those of both the pure coal and the pure WT chars. For the GG/WT blends the activation energy decreased with increasing WT char ratio, while for the SF/WT blends the activation energy decreased with increasing SF char ratio. The trends of the activation energies and conversion rates of the blends point to synergism or enhancement between the coal and WT chars in CO2 gasification reactions, and in the GG/WT blends this enhancement is driven more by the WT char, while in SF/WT blends it is driven by SF chars. It is possible that enhancement of the reactions is caused by mineral matter catalysis of the gasification reactions. The ash contents and alkali indices of the pure samples follow the order SF > WT > GG. / MIng (Chemical Engineering), North-West University, Potchefstroom Campus, 2015

An investigation was undertaken to compare the kinetics of combustion and gasification reactions of chars prepared from two South African coals in different reaction atmospheres: air, steam, and carbon dioxide. The two original coals were characterised as vitrinite-rich (Greenside) and inertinite-rich (Inyanda) coals with relatively low ash content (12.5-16.7 wt. %, adb). Chars were prepared from the parent coals under nitrogen atmosphere at 900 °C. Characterisation results show that the volatiles and moisture were almost completely driven off from the parent coals, indicating that the pyrolysis process was efficient. Physicalstructural properties such as porosity and surface area generally increased from the parent coals to the subsequent chars. The heterogeneous char-gas reactions were conducted isothermally in a TGA on ~1 mm size particles. To ensure that the reactions are under chemical reaction kinetic control regime, different temperatures zones were selected for the three different reaction atmospheres. Combustion reactivity experiments were carried out with air in the temperature range of 387 °C to 425 °C; gasification reactivity with pure steam were conducted at higher temperatures (775 °C - 850 °C) and within 825 °C to 900 °C with carbon dioxide. Experimental results show differences in the specific reaction rate with carbon conversion in different reaction atmospheres and char types. Reaction rates in all three reaction atmospheres were strongly dependent on temperature, and follow the Arrhenius type kinetics. All the investigated reactions (combustion with air and gasification with CO2 and steam) were found to be under chemical reaction control regime (Regime I) for both chars. The inertinite-rich coals exhibit longer burn-out time than chars produced from vitrinite-rich coals, as higher specific reaction rate were observed for the vitrinite-rich coals in the three different reaction atmospheres. The determined random pore model (RPM) structural parameters did not show any significant difference during steam gasification of Greenside and Inyanda chars, whereas higher structural parameter values were observed for Greenside chars during air combustion and CO2 gasification (ψ > 2). However a negative ψ value was determined during CO2 gasification and air combustion of Inyanda chars. The RPM predictions was validated with the experimental data and exhibited adequate fitting to the specific rate of reaction versus carbon conversion plots of the char samples at the different reaction conditions chosen for this study. The activation energy determined was minimal for air and maximum for CO2 for both coals; and ranged from 127-175 kJ·mol-1 for combustion, 214-228 kJ·mol-1 and 210-240 kJ·mol-1 for steam and CO2 gasification respectively. / MIng (Chemical Engineering), North-West University, Potchefstroom Campus, 2015

With increasing energy demand globally and, in particular, in South Africa coupled with depletion of the earth’s fossil energy resources and growing problem of disposal of nonbiodegradable waste such as waste tyres, there is a need and effort globally to find alternative energy from waste material including waste tyres. One possible way of exploiting waste tyre for energy or chemicals recovery is through gasification for the production of syngas, and this is what was investigated in this study. The possibility of gasification of waste tyre blended with coal after pyrolysis was investigated and two Bituminous coals were selected for blending with the waste tyre in co-gasification. A sample of ground waste tyre / waste tire, WT, a high vitrinite coal from the Waterberg coalfield (GG coal) and a high inertinite coal from the Highveld coalfield (SF coal) were used in this investigation. The waste tyre sample had the highest volatile matter content of 63.8%, followed by GG coal with 27% and SF coal with 23.8%. SF coal had the highest ash content of 21.6%, GG coal had 12.6% and waste tyre had the lowest of 6.6%. For the chars, SF char still had the highest ash of 24.8%, but WT char had higher ash, 14.7%, when compared to GG char with 13.9% ash. The vitrinite content in GG coal was 86.3%, whilst in SF coal it was 25% and SF coal had a higher inertinite content of 71% when compared to GG coal with 7.7%. SF char had the highest BET surface area of 126m2/g, followed by GG char with 113m2/g, and WT had the lowest value of 35.09m2/g. The alkali indices of the SF, WT and GG chars were calculated to be 8.2, 4.2 and 1.7 respectively. Coal samples were prepared by crushing and milling to particle sizes less than 75μm before charring in a packed bed balance reactor at temperatures up to 1000oC.Waste tyre samples were charred at the same conditions before milling to < 75μm particle size. Coal and WT chars were blended in ratios of 75:25, 50:50 and 25:75 before gasification experimentation. Carbon dioxide gasification was conducted on the blends and the pure coal and WT chars in a Thermogravimetric analyser (TGA) at 900oC, 925oC, 950oC and 975oC and ambient pressure. 100% CO2 was used at a flow rate of 2L/min. Reactivity of the pure char samples was found to be in the order SF > GG > WT, and the relationship between the coal chars’ reactivities could be explained by the high ash content of the SF char and low reactivity of the WT char corresponds to its low BET surface area. In general, the coal/WT char mixtures were less reactive than the respective coal, but more reactive than the pure WT char, the only exception being the 75% GG char blend which was initially more reactive than the GG char, and reactivity decreased with increasing WT content. For all samples reactivity increased with increasing temperature. The relationship between the reactivities of the GG char and its blends and that of the SF char and its blends was found to be affected by the amount of WT char added, especially at the lower temperatures 900oC and 925oC. SF coal is more reactive than GG coal, but at 900oC and 925oC, the reactivity of GG/WT blends improves in relation to the SF/WT blends with an increase in the ratio of WT in the blends, i.e. the 25% GG char blend is more reactive than the 25% SF char blend. The reactivity of the coal/WT blends was also checked against predicted conversion rates based on the conversion rates of the pure WT and coal samples. At 900oC and 925oC, the reactivities of the blends of both coal chars with WT char were found to be greater than the predicted conversion rates, and for the GG/WT blends the deviation increased with increasing WT ratios, while for the SF/WT blends the deviation increased with increasing SF ratios. These findings suggest the presence of synergism or enhancement between the coal chars and WT char in gasification reactions. The random pore model (RPM) was used to model the gasification results and it was found to adequately describe the experimental data. Activation energies determined with the RPM were found to be 205.4kJ/mol, 189.9kJ/mol and 173.9kJ/mol for SF char, WT char and GG char respectively. The activation energies of the coal/WT blends were found to be lower than those of both the pure coal and the pure WT chars. For the GG/WT blends the activation energy decreased with increasing WT char ratio, while for the SF/WT blends the activation energy decreased with increasing SF char ratio. The trends of the activation energies and conversion rates of the blends point to synergism or enhancement between the coal and WT chars in CO2 gasification reactions, and in the GG/WT blends this enhancement is driven more by the WT char, while in SF/WT blends it is driven by SF chars. It is possible that enhancement of the reactions is caused by mineral matter catalysis of the gasification reactions. The ash contents and alkali indices of the pure samples follow the order SF > WT > GG. / MIng (Chemical Engineering), North-West University, Potchefstroom Campus, 2015

An investigation was undertaken to compare the kinetics of combustion and gasification reactions of chars prepared from two South African coals in different reaction atmospheres: air, steam, and carbon dioxide. The two original coals were characterised as vitrinite-rich (Greenside) and inertinite-rich (Inyanda) coals with relatively low ash content (12.5-16.7 wt. %, adb). Chars were prepared from the parent coals under nitrogen atmosphere at 900 °C. Characterisation results show that the volatiles and moisture were almost completely driven off from the parent coals, indicating that the pyrolysis process was efficient. Physicalstructural properties such as porosity and surface area generally increased from the parent coals to the subsequent chars. The heterogeneous char-gas reactions were conducted isothermally in a TGA on ~1 mm size particles. To ensure that the reactions are under chemical reaction kinetic control regime, different temperatures zones were selected for the three different reaction atmospheres. Combustion reactivity experiments were carried out with air in the temperature range of 387 °C to 425 °C; gasification reactivity with pure steam were conducted at higher temperatures (775 °C - 850 °C) and within 825 °C to 900 °C with carbon dioxide. Experimental results show differences in the specific reaction rate with carbon conversion in different reaction atmospheres and char types. Reaction rates in all three reaction atmospheres were strongly dependent on temperature, and follow the Arrhenius type kinetics. All the investigated reactions (combustion with air and gasification with CO2 and steam) were found to be under chemical reaction control regime (Regime I) for both chars. The inertinite-rich coals exhibit longer burn-out time than chars produced from vitrinite-rich coals, as higher specific reaction rate were observed for the vitrinite-rich coals in the three different reaction atmospheres. The determined random pore model (RPM) structural parameters did not show any significant difference during steam gasification of Greenside and Inyanda chars, whereas higher structural parameter values were observed for Greenside chars during air combustion and CO2 gasification (ψ > 2). However a negative ψ value was determined during CO2 gasification and air combustion of Inyanda chars. The RPM predictions was validated with the experimental data and exhibited adequate fitting to the specific rate of reaction versus carbon conversion plots of the char samples at the different reaction conditions chosen for this study. The activation energy determined was minimal for air and maximum for CO2 for both coals; and ranged from 127-175 kJ·mol-1 for combustion, 214-228 kJ·mol-1 and 210-240 kJ·mol-1 for steam and CO2 gasification respectively. / MIng (Chemical Engineering), North-West University, Potchefstroom Campus, 2015

MicroRNAs (miRNAs) are short, non-coding RNAs involved in the regulation of several processes associated with inflammatory diseases and infection. Bacterial infection modulates miRNA expression to subvert innate immune response. In this study, we analyzed bacterial modulation of miRNAs in bone-marrow-derived macrophages (BMMs), in which activity was induced by infection with Porphyromonas gingivalis (Pg) through a microarray analysis. Several miRNA expressions levels were modulated 3 hours post infection (at a multiplicity of infection (MOI) of 25). A bioinformatics analysis was performed to further identify pathways related to the innate immune host-response pathways that are under the influence of the selected miRNAs. To assess the effects of the identified miRNAs on cytokines secretion (pro inflammatory TNF-α and anti-inflammatory IL-10), BMMs were transfected with selected miRNAs mimics or inhibitors. Transfection with mmu-miR-155 and mmu-miR- 2137 did not modify TNF-α secretion while their inhibitors increased it. Inhibitors of mmumiR-2137 and mmu-miR-7674 increased the secretion of the anti-inflammatory IL-10. In Pginfected BMMs, mmu-miR-155-5p significantly decreased TNF-α secretion while inhibitor of mmu-miR-2137 increased IL-10 secretion. In vivo, in a Pg-induced calvarial bone resorption mouse model, injection of mmu-miR-155-5p or anti-mmu-miR-2137 reduced the size of the lesion significantly. Furthermore, anti-mmu-miR-2137 significantly reduced inflammatorycell infiltration, osteoclast activity and bone loss. Bioinformatics analysis demonstrated that pathways related to cytokines and chemokines related pathways but also osteoclast differentiation may be involved in the observed effects. The study highlights the potential therapeutic merits of targeting mmu-miR-155-5p and mmu-miR-2137 to control inflammation induced by Pg infection. To assess the regenerative process in the same animal model, we aimed to compare the effect of Bone Morphogenic Protien 2 (BMP2), Platelets Rich Plasma (PRP), Leukocyte-Platelets Rich Fibrin (L-PRF), and Polygucosamine (PGIcNAc) on bone formation in critical size bone defects in mice. One-hundred-thirty-eight mice were divided into 23 groups (n=6), negative control, different combinations of the PGIcNAc with or without of BMP2, Collagen Sponge (SurgiFoam), PRP, and L-PRF. The 5mm defect, then, was allowed to heal. After six weeks, samples were analyzed for bone formation utilizing radiographs, H&E staining, alkaline phosphatase staining. Our results show that BMP2 were able to produce 90-95% healing of critical size defects after six weeks histologically and radiographically. However, SurgiFoam, PRP and L-PRF with or without PGIcNAc were able to close 60% of the original defect. This study supports that BMP2 is more effective for bone regeneration than SurgiFoam, PRP, L-PRF and PGIcNAc.