With the increasing global energy demand and the decreasing availability of good quality coals, a better understanding of the important properties that control the behaviour of low–grade coals and the subsequent chars in various utilisation processes, becomes pertinent. An investigation was therefore undertaken, to study the effects of chemical and physical properties imparted on chars during pyrolysis on the subsequent gasification reaction kinetics of typical South African inertinite–rich, high ash Highveld coals. An attempt was made at following these changes in the transition from coals to chars by a detailed characterisation of both the parent coals and the respective chars. These changes were determined using various conventional and advanced techniques, which included among others, carbon crystallite analysis using XRD and char carbon forms analysis using petrography. Three of the four original coals were characterised as Bituminous Medium rank C (coals B, C and C2), while coal D2 was found to be slightly lower in rank (Bituminous Medium rank D). The coals were rich in inertinites (> 54 vol. %, mmb with coal C2 having as high as 79 vol. %, mmb) and high in ash content (> 26.7 wt. %, db) and cabominerite and minerite contents (26 – 39 vol. %, mmb). The inertinitevitrinite ratios of the coals were found to range from 1.93 to 26.3. Characterization results show that both volatile matter and inherent moisture content decreased, while ash, fixed carbon and elemental carbon contents increased from coals to chars, indicating that the pyrolysis process was efficient. Elemental hydrogen, oxygen and nitrogen contents decreased, whereas total sulphur contents increased from coals to chars. This reveals that the total sulphur contained in the char samples was associated with the char carbon matrix and the minerals. Hydrogen–carbon and oxygen–carbon ratios decreased considerably from coals to chars showing that the chars are more aromatic and denser products than the original coals. Despite the fact that mineral matter increased from coals to chars, the relative abundance of the different mineral phases and ash components did not exhibit significant variation amongst the samples. The alkali index was, however, found to vary considerably among the subsequent chars. Petrographic analysis of the coals and char carbon forms analysis of the chars reveal that total reactive components (TRC) decrease while the total inert components (TIC) increase from coals to chars. The 0% gain in TIC observed in char C2 was attributed to its relatively high partially reacted maceral char carbon forms content. Total maceral reflectance shifted to higher values in the chars (4.43 – 5.28 Rsc%) relative to the coals (1.15 – 1.63 Rsc%) suggesting a higher structural ordering in the chars. Carbon crystallite analyses revealed that the chars were condensed (smaller in size) relative to the parent coals. Lattice parameters: interlayer spacing, d002, increased, while the average crystallite height, Lc, crystallite diameter, La, and number of aromatic layers per crystallite, Nave, decreased from coals to chars. Carbon aromaticity generally increased whereas the fraction of amorphous carbon and the degree of disorder index decreased from parent coals to the respective chars. Both micropore surface area and microporosity were observed to increase while the average micropore diameter decreased from coals to chars. This shows that blind and closed micropores were “opened up” during the charring process. Despite the original coal samples not showing much variation in their properties (except for their maceral content), it was generally observed that the subsequent chars exhibited substantial differences, both amongst themselves and from the parent coals. The increasing orders of magnitude of micropore surface area, microporosity, fraction of amorphous carbon and structural disorderliness were found to change in the transition, a good indication that the chars’ properties varied from that of the respective parent coals. Isothermal CO2 gasification experiments were conducted on the chars in a Thermax 500 thermogravimetric analyser in the temperature range of 900 – 950 °C with varying concentrations of CO2 (25 – 100 mol. %) in the CO2–N2 reaction gas mixture at ambient pressure (0.875 bar in Potchefstroom). The effects of temperature and CO2 concentration were observed to be in conformity with established trends. The initial reactivity of the chars was found to increase in the order: chars C2 < C < B < D2, with char D2 reactivity greater than the reactivity of the other chars by a factor > 4. Gasification reactivity results were correlated with properties of the parent coals and chars. Except for the rank parameter (the vitrinite reflectance), no significant trend was observed with any other coal petrographic property. Correlations with char properties gave more significant and systematic trends. Major factors affecting the gasification reactivity of the chars as it pertains to this investigation are: parent coal vitrinite reflectance, and: aromaticity, fraction of amorphous carbon, degree of disorder and alkali indices, micropore surface area, microporosity and average micropore diameter of the chars. The random pore model (chemical reaction controlling) was found to adequately describe the gasification reaction experimental data (both conversions and conversion rates). The determined activation energy ranged from 163.3 kJ·mol–1 for char D2 to 235.7 kJ·mol–1 for char B; while the order of reaction with respect to CO2 concentration ranged between 0.52 to 0.67 for the four chars. The lower activation energy of char D2 was possibly due to its lower rank, lower coal vitrinite reflectance and higher alkali index. The estimated kinetic parameters of the chars in this study correspond very well with published results in open literature. It was possible to express the intrinsic reactivity, rs, of the chars (rate of carbon conversion per unit total surface area) using kinetic results, in empirical Arrhenius forms. / Thesis (M.Ing. (Chemical Engineering))--North-West University, Potchefstroom Campus, 2011.

The FT-Raman techniques were developed to quantify reactions that follow on mixing aqueous solutions of bis-(1,3-diaminopropane)diaquacobalt( III) ion ([Co(tn)2(0H)(H20)]2+) and p-nitrophenylphosphate (PNPP). For the development and validation of the kinetic modelling technique, the well-studied inversion of sucrose was utilized. Rate constants and concentrations could be estimated using calibration solutions and modelling methods. It was found that the results obtained are comparable to literature values. Hence this technique could be further used for the [Co(tn)2(0H)(H20)]2+ assisted hydrolysis of PNPP. It was found that rate constants where the pH is maintained at 7.30 give results which differ from those where the pH is started at 7.30 and allowed to change during the reaction. The average rate constant for 2:1 ([Co(tn)2(0H)(H20)]2+:PNPP reactions was found to be approximately 3 x 104 times the unassisted PNPP hydrolysis rate. / Chemistry / M. Sc. (Chemistry)

The fate and behaviour of estrogens in the environment are of concern due to the compounds’ endocrine disruption potential. Estrogens, namely 17β-estradiol (E2), estrone (E1), and estrogen sulphates, i.e. 17β-estradiol-3-sulphate (E2-3S) and estrone-3-sulphate (E1-3S) excreted by livestock constitute a potential source for estrogen contamination in the environment. A method was developed to separate and quantify the hormones by high-performance-liquid-chromatography (HPLC) and ultraviolet detection (UV). A combination of dichloromethane (DCM) and dicyclohexylamine hydrochloride (DCH·HCl) gave recoveries from 97.3 to 107% for E1-3S extraction from aqueous solutions. The recoveries from soil samples ranged from 80.9 to 95.2% (E2-3S), and from 86.3 to 91.7% (E1-3S), respectively. Results of batch sorption studies showed that Freundlich isotherms were nonlinear (N ≠ 1) with Kf values ranging from 34.2 to 57.2, and from 3.42 to 4.18 mg¹-N LN kg⁻¹ for E1, and E1-3S, respectively, indicating the sorption affinity of E1-3S was about an order of magnitude lower than that of E1. The hydrophilic sulphate group of E1-3S possibly shielded the compound from hydrophobic interactions with the soil organic matter and allophanic clay minerals that were proposed as sorbents for E1. Contraction of clay minerals, “salting out” and competitive sorption of artificial urine constituents were likely to have been responsible for observed changes in Freundlich parameters when artificial urine was used as mediator matrix. Plotting the effective distribution coefficient as a function of hypothetical exposure concentrations facilitated the comparison of the sorption behaviour of both compounds as influenced by the mediator solution. The results emphasized that using the CaCl₂ matrix might result in false inferences for the sorption behaviour of these compounds in a dairying environment. The four hormones rapidly degraded in the agricultural soils under aerobic conditions, and the majority of the compounds degraded > 50% within the first 24 hrs. Soil arylsulphatase activities were directly correlated with degradation rate constants of the estrogen sulphates. Estrone was identified as a metabolite of E2 and E1-3S, and these three compounds were observed as metabolites of E2-3S. Single-first order (SFO) and double first-order in parallel (DFOP) kinetics were used to model the degradation and metabolite formation data. The results showed that the DFOP model was in most cases better able to predict the parent compound degradation than the SFO model, and also enabled to estimate accurate degradation endpoints. ER-CALUX® analysis revealed the formation of estrogenicity during E2-3S degradation, which could partly be explained by the formation of the metabolites E2 and E1. Transport studies with E1-3S and E1 showed that the transport and retention of both compounds were significantly influenced by the mediator matrix. While no breakthrough curves (BTCs) were recorded during hormone application in CaCl₂ (10 mM) both hormones were detected in the leachate when applied in artificial urine. Rate-limited sorption processes were proposed for the delayed arrival of the hormone BTCs compared with a conservative bromide tracer. Intense colouration of the leachate during the artificial urine experiments suggested the hormones were likely to be moved by colloid-facilitated transport. Furthermore, the detection of residue hormone and metabolite concentrations implied that degradation of E1-3S and E1 was hampered by urine constituents such as glycine and urea.

In spite of remarkable progress in molecular biology, our understanding of the dynamics and functions of intra- and inter-cellular biological networks has been hampered by their complexity. Kinetics modelling, an important type of mathematical modelling, provides a rigorous and reliable way to reveal the complexity of biological networks. In this thesis, two genetic regulatory networks have been investigated via kinetic models. In the first part of the study, a model is developed to represent the transcriptional regulatory network essential for the circadian rhythms in Drosophila. The model incorporates the transcriptional feedback loops revealed so far in the network of the circadian clock (PER/TIM and VRI/PDP1 loops). Conventional Hill functions are not used to describe the regulation of genes, instead the explicit reactions of binding and unbinding processes of transcription factors to promoters are modelled. The model is described by a set of ordinary differential equations and the parameters are estimated from the in vitro experimental data of the clocks' components. The simulation results show that the model reproduces sustained circadian oscillations in mRNA and protein concentrations that are in agreement with experimental observations. It also simulates the entrainment by light-dark cycles, the disappearance of the rhythmicity in constant light and the shape of phase response curves resembling that of experimental results. The model is robust over a wide range of parameter variations. In addition, the simulated E-box mutation, perS and perL mutants are similar to that observed in the experiments. The deficiency between the simulated mRNA levels and experimental observations in per01, tim01 and clkJrk mutants suggests some differences in the model from reality. Finally, a possible function of VRI/PDP1 loops is proposed to increase the robustness of the clock. In the second part of the study, the sources of intrinsic noise and the influence of extrinsic noise are investigated on an intracellular viral infection system. The contribution of the intrinsic noise from each reaction is measured by means of a special form of stochastic differential equation, the chemical Langevin equation. The intrinsic noise of the system is the linear sum of the noise in each of the reactions. The intrinsic noise arises mainly from the degradation of mRNA and the transcription processes. Then, the effects of extrinsic noise are studied by means of a general form of stochastic differential equation. It is found that the noise of the viral components grows logarithmically with increasing noise intensities. The system is most susceptible to noise in the virus assembly process. A high level of noise in this process can even inhibit the replication of the viruses. In summary, the success of this thesis demonstrates the usefulness of models for interpreting experimental data, developing hypotheses, as well as for understanding the design principles of genetic regulatory networks.

The kinetics of drugs photodegradation have traditionally been treated using thermal kinetic analysis methods consisting most commonly in zero and first order kinetics. These treatment strategies were shown to lack specificity and present a number of limitations when applied to photoreactions kinetics. Nevertheless, these methods have widely been used due to a lack of integrated rate-laws for the majority of photoreactions types, in turn, due to the presence of a variable time-dependent factor in most photoreactions rate-laws that prevents their mathematical integration. To address these limitations, a new methodology for the development and validation of semi-empirical integrated rate-laws that faithfully describe photoreactions kinetics and photoreactions simulated cases generated by numerical integration methods (NIMs), is hereby presented. Using this methodology, a new kinetic order was ascribed to photoreactions namely the Φ-order kinetics. Semi-empirical integrated rate-laws were, thus, developed for three photoreaction types namely, unimolecular, AB(1Φ), photoreversible ,AB(2Φ), and consecutive, AB4(4Φ), photoreactions. The proposed models were further tested experimentally on drugs following these photodegradation mechanisms using; nifedipine and nisoldipine for unimolecular photoreactions; montelukast and fluvoxamine for photoreversible reactions; and riboflavin for consecutive photoreactions. The developed models not only accurately described the photoreaction kinetics of these drugs but also allowed the determination of all the kinetic parameters that characterise them. Furthermore, the above studied drugs were shown to act as precise and simple actinometers when analytically treated with the Φ-order kinetic methods, hereby presented. A universal standard method for the precise and worldwide reproducible study of drugs stability and compounds photoreactions, based on monochromatic irradiation and Φ-kinetics data analysis, is also detailed and adopted throughout the thesis. Finally, two new kinetic parameters namely, the pseudo-rate-constant and pseudo-initial velocity have been identified and shown to be more reliable and accurate in the description and universal comparison of photoreactions kinetics.

Cerebral blood flow quantification is a vital diagnostic tool for disease monitoring and used for diagnosing a variation of pathological conditions. The human brain requires roughly about 20 % of the total cardiac output to sustain normal functioning, hence the perfusion of blood is an important factor to deliver oxygenated blood. The golden standard for quantifying the cerebral blood flow follows by measurement with dynamic positron emission tomography of 15O-labelled water modelled by tracer kinetic compartments. For implementation, knowledge of an input function must exist which is in general being sampled through arterial cannulation of the radial artery with a continuous sampling instrument. The core of this thesis is to establish if two sampling instruments contradicts in comparison to each other when sampling the data to the input function.  In total 22 subjects underwent a 10-minute dynamic  15O-labeled water brain PET scan on two imaging modalities PET/CT and PET/MR. Continuous arterial sampling was performed either by a Veenstra on PET/CT or a Swisstrace on PET/MR during a baseline scan. In two subjects the two sampling instruments were coupled in series and imaged solely on the PET/CT.  Cerebral blood flow analysis was done comparing varying dispersion times, the two imaging modalities compared each other and comparing the calculated and measured blood flows obtained through this study with the values obtained prior. To be able to compare the values showing inconsistency to the values obtained through this thesis, a comparison between two different iterative reconstruction methods was done. Here the method of ordered subsets expectation maximum was compared to a Bayesian penalized-likelihood method. To further compare the two sampling instruments an image derived input function was constructed and compared with the blood sampled input function. The results showed that there was no significant difference between measured cerebral blood flow between the two imaging modalities with the currently used reconstruction method based on Bayesian penalized likelihood but presented in the earlier data there was an inconsistency. A dispersion analysis with variation on the external dispersion time shows that if the time was chosen to low or to high compared to the standard time used it introduced distorted fitted models of the activity curves. This distortion creates further errors in the calculation of the cerebral blood flow, however with the analysis the standard dispersion time could be confirmed as an accurate fit. Subjects imaged with the two sampling instruments in series showed no significant difference except for the measured values on Veenstra to be slightly higher. Lastly the correlation between the image derived input function and the blood sampled input function showed poorly performance. Only a R2 value of 0.42 was achieved on the PET/CT while a meagre R2 value of 0.18 was achieved on the PET/MR. Although the correlation was poorly, the plotted activity curves from the two functions showed a representable appearance between each other. / Kvantifiering av det cerebrala blodflödet är ett nödvändigt diagnostiskt verktyg som används för att kontrollera och diagnostisera en variation av patologiska sjukdomstillstånd. Den mänskliga hjärnan kräver kring 20 %av den totala produktionen från hjärtat för att upprätthålla normal funktion, följaktligen är perfusion av blod en viktig faktor för att distribuera syrerikt blod runt om i kroppen. Den gyllene standarden för kvantifiering av det cerebrala blodflödet följer som undersökning med dynamisk positron emission tomografi av 15O-märkt vatten, modellerat  med kinetisk kompartment teori. För att kunna implementera detta måste information om en input-funktion erhållas, generellt erhålls detta genom att blod tags genom arteriell kanylering av antingen den radiella artären med ett kontinuerligt samplings instrument. Målet med detta arbete är att fastställa om två samplings instrument motsäger varandra vid mätning av data till input-funktionen. Totalt deltagande är 22 patienter som genomgick en 10-minuters dynamisk 15O-märkt vatten PET undersökning av hjärnan på två bildtagningsmodaliteter PET/CT och PET/MR. Kontinuerlig blodtagning genomfördes antingen med en Veenstra sampler instrument på PET/CT eller en Swisstrace sampler instrument på PET/MR tillsammans med en baseline undersökning. Vid två undersökningar seriekopplades de två instrumenten och patienterna blev endast undersökta vid PET/CT. För ytterligare kunna utvärdera de två instrumenten, konstruerades en bild framtagen input-funktion som sedan kunde jämföras med den blod samplade input-funktionen. Cerebrala blodflödes analyser gjordes med olika dispersions tider, även för att kunna jämföra de två bildtagningsmodaliteterna mot varandra och jämföra erhållna värden framtagna under denna studie med en tidigare studie. För att kunna jämföra avvikelserna i de uppmätta värdena har även två olika rekonstruerings metoder studerats. Resultaten visar ingen signifikant skillnad mellan de uppmätta cerebrala blodflödena mellan de två bildtagningsmodaliteterna rekonstruerade med den nuvarande standarden. Dispersions analysen med varierande extern dispersions tid visar att om tiden är för kort eller för lång jämfört med standardtiden, introduceras en osann anpassning av aktivitets kurvorna. Denna förvrängning av datat resulterar till fler avvikelser i beräkningarna av blodflödet, likväl var det möjligt att bekräfta standardtiderna som används. Patienter som undersöktes med instrumenten i seriekoppling visade ingen signifikant skillnad förutom att det uppmättes en aningens högre värden hos patienter med Veenstra som blod sampler. Slutligen, korrelationen mellan den bild framtagna input-funktionen och den blod samplade input-funktionen visade ett dåligt resultat. Endast ett R2 värde på 0.42 erhölls för PET/CT medan endast ett R2 värde på 0.18 på PET/MR erhölls. Trotts att korrelationen var dålig, visade de plottade aktivitets kurvorna ett representativt utseende mellan de två typerna av input funktion.