Acute lymphoblastic leukemia, one of the most malignant cancer forms in children is commonly treated with the thiopurine 6-mercaptopurine (6-MP) in combination with a high dose of methotrexate (MTX). 6-Mercaptopurine is in the body metabolized by the enzyme thiopurine S-methyltransferase (TPMT). Polymorphic variants of TPMT express different catalytic activities, and for this reason the dosage of 6-MP needs to be individualized. In order to better optimize the treatment it is important to understand how mutations in TPMT affect its enzymatic activity. In this thesis we have investigated how the wild type and two variants of TPMT interact with different ligands using fluorescence and isothermal titration calorimetry. Experiments with MTX, ANS and furosemide resulted in a similar binding strength for the wild type and the variant TPMT*8, while the other variant TPMT*6 showed a slightly weaker binding. A binding affinity for polyglutamated MTX to TPMTwt was also determined which resulted in an almost twice as strong binding compared to MTX. Today’s methods to determine enzymatic activity are either based on radioactivity, time consuming or expensive. As an alternative the use of a spectrophotometric assay using 5-thio-2-nitrobenzoic acid (TNB) was investigated. The method showed positive results and could hopefully be adapted to plate readers in future experiments. Using 5.5’-dithiobis-(2-nitrobenzoic acid) (DTNB, also known as Ellman’s reagent) the amount of accessible thiol groups on the protein was estimated. This revealed a similar relationship between TPMTwt and TPMT*6, while the result for TPMT*8 was inconclusive.

Waterborne disease is a significant contributor to the global burden of disease, in particular among high-risk populations in developing nations. State-of-the-art methods for the enumeration of microbial pathogens in drinking water sources have important limitations, including high initial cost, 24-48 hour delays in results, high staffing and facility requirements, and training requirements which all become especially problematic in the developing nation context. A number of alternative approaches to microbial water quality testing have been proposed, with the goal of decreasing the required testing time, decreasing overall costs, leveraging appropriate technology approaches, or improving sensitivity or specificity of the water quality testing method. One approach that may offer solutions to some of these limitations involves the deployment of sensor networks using fluorescent spectroscopy to detect intrinsic protein fluorescence in water samples as a proxy for microbial activity. In recent years, a number of researchers have found significant and meaningful correlations between indicator bacteria species and the protein fluorescence of drinking water samples. Additionally, advances in the semiconductor industry could be used to drive down the cost of such sensors. This technology may also be extensible to other water quality parameters, including dissolved organic matter or the presence of fluorescent pollutants. In this thesis, a literature review describes the fundamentals of fluorescence spectroscopy, historical and recent work regarding the fluorescence of the amino acid tryptophan and associated bacterial fluorescence, possible mechanisms for this association, and potential applications of this technology for drinking water quality monitoring and waste water process control. Extensibility of the technology is also discussed. Next, experimental methodology in reproduction of similar results is described. Samples were taken from seven (7) surface water sources and tested using membrane filtration and an off-the-shelf fluorescence spectrometer to help examine the association between the presence of indicator bacteria and the tryptophan fluorescence of the water sample. The results, showing an association of R2 = 0.560, are compared to the results of recent similar experiments. Finally, two prototypes are described, including their design requirements and data from prototype testing. The results of the testing are briefly discussed, and next steps are outlined with the goal of developing a low-cost, in-situ microbial water quality sensor using fluorescence spectroscopy principles.

Dissolved organic carbon (DOC) plays an important role in the global carbon (C) cycle because increases in aqueous C potentially contribute to rising atmospheric CO2 levels. Over the past few decades, headwater streams of the northern hemisphere have shown increased amounts of DOC coinciding with decreased acid deposition. Although the issue is widely discussed in the literature, a mechanistic link between precipitation composition and stream water DOC has not yet been proposed. In this study, the breakup of soil aggregates is hypothesized as the mechanistic link between reduced acid deposition and DOC increases in surface waters. Specific hypotheses state that soil aggregate dispersion (and the ensuing release of DOC from these aggregates) is driven by a decrease in soil solution ionic strength (IS, decreasing the tendency of flocculation) as well as a shift from divalent to monovalent cations (reducing the propensity for cation bridging) in soil solution. These hypotheses were tested on soil samples collected from several riparian zone and hillslope positions along three flagged transects in the acid-impacted Sleepers River Research Watershed in northeastern Vermont. To determine soil C content by landscape position, samples from transects spanning hilltop to hillslope and riparian area, as well as replicated hillslope and riparian samples (n=40) were analyzed. Aqueous soil extracts simulate the flushing of soils during hydrologic events (e.g. rain or snowmelt) and were used to test the effect of soil solution chemistry on DOC release. Extracts were prepared with solutions of varying IS (0-0.005M) and composition (CaCl2 and NaCl) on replicated soil samples (n=54) and changes in DOC release and aggregate size were monitored. As IS of the extraction solution increased, the amount of DOC in solution decreased, and aggregate size increased. This was presumably due to cations bridging and diffuse double layer effects. This effect was reversed in low ionic strength solutions where DOC release was significantly higher and average aggregate size was smaller. While extraction solution controlled the amount of C liberated, landscape position impacted the quality, but not quantity, of released DOC. This study is the first to propose a mechanistic link observed changes in DOC in surface waters and recovery from acidification and provides initial experimental evidence that soil aggregates indeed play a role in the generation of DOC.

Nanoporous materials have been widely used in the fields of biological and chemical sensing, chemical separation, heterogeneous catalysis and biomedicine due to their merits of high surface area-to-volume ratio, chemical and thermal stabilities, and flexible surface modification. However, as the nature of nanoporous materials, they are inherently heterogeneous in the micro- and nanoenvironments. The environmental heterogeneity plays a decisive role in determining the performance of various applications of nanoporous materials. In order to provide an in-depth understanding of the nanoporous materials, it is of great interest to investigate the environmental heterogeneity in them. Single molecule spectroscopy, combined the quantitative confocal fluorescence imaging which possesses the capability of optical sectioning, has demonstrated to be a powerful tool to approach the environmental heterogeneity inside nanoporous materials. Single molecule spectroscopy is an ultrasensitive technique for probing molecular transport and properties of individual molecules. This technique has been extensively used in the research of environmental heterogeneity in nanoporous materials since it removes the issues of ensemble averaging and directly approaches detailed information that is obscured in ensemble measurements. In order to proficiently interpret single molecule data, we developed a comprehensive methodology – single molecule counting – for characterizing molecular transport in nanoporous silica. With this methodology as a tool, the nanoenvironmental heterogeneity inside the nanopores of C18-derivatized silica particles was explored by probing single molecular diffusion inside the pores. By employing single molecule ratiometric spectroscopy and a solvatochromic fluorophore as viii reporter of local environment, the gradient in nanopolarity as well as the nanoviscosity along the C18 layer after the inclusion of solvent was uncovered. The chemical properties of solute molecules at the nanopore surface are ultimately controlled by the energetics of the solute-interface interactions. The imaging of distribution of energies would be a decisive approach to assess the fundamental heterogeneity of the interface. To this end, we investigated the ΔG distribution of C18-derivatized nanoporous silica particles with quantitative confocal imaging. The pixel-to-pixel and particle-to-particle analysis showed the existence of ΔG heterogeneity between particles as well as within individual particles. The heterogeneity in ΔG could be partially responsible for band broadening in chemical separations and significantly affect overall reaction yield when using nanoporous materials as solid support for heterogeneous catalysis.

Thesis (Ph.D.)--McMaster University, 2006. / Supervisor: Yingfy Li. Includes bibliographical references (leaves 151-167).

Boronic acids play an important role in the design and synthesis of chemosensors for carbohydrates due to their ability to reversibly bind with diol-containing compounds. Along this line, the availability of boronic acids that change fluorescence upon sugar binding is critical to a successful sensor design effort. Here, two boronic acids that show strong fluorescent intensity changes upon sugar binding are reported: isoquinoline-7-boronic acid (7-IQBA) and phenoxathiin-4-boronic acid (4-POBA).

The design and development of a versatile time resolved fluorescence spectroscopy (TRFS) system capable of near real time data acquisition and processing for potential clinical diagnostic applications is reported. The TRFS apparatus is portable, versatile and compatible with the clinical environment. The main excitation source is a UV nitrogen laser with a nanosecond pulse width and the detection part consists of a dual grating spectrograph coupled with an MCP-PMT. The nitrogen laser also has a dye module attached to it, which enables broadband excitation of the sample. This setup allows rapid acquisition (250 ms for fluorescence decay at a wavelength) of time resolved fluorescence data with a high spectral (as low as 0.5 nm) and temporal (as low as 25 picoseconds) resolution. Alternatively, a state diode pumped pulsed laser can be used for excitation to improve data collection speed. The TRFS system is capable of measuring a broad range of fluorescence emission spectra (visible to near infra-red) and resolving a broad range of lifetimes (ranging from a few hundred picoseconds to several microseconds). The optical setup of the system is flexible permitting the connection of different light sources as well as optical fiber based probes for light delivery/collection depending on the need of the application. This permits the use of the TRFS apparatus in in vitro, ex vivo and in vivo applications. The system is fully automated for real-time data acquisition and processing, facilitating near-real time clinical diagnostic applications.

Time-resolved fluorescence spectroscopy (TRFS) is a powerful analytical tool for quantifying the biochemical composition of organic and inorganic materials. The potentials of TRFS as nondestructive clinical tool for tissue diagnosis have been recently demonstrated. To facilitate the translation of TRFS technology to the clinical arena, algorithms for online TRFS data analysis are of great need. A fast model-free TRFS deconvolution algorithm based on the Laguerre expansion method has been previously introduced, demonstrating faster performance than standard multiexponential methods, and the ability to estimate complex fluorescence decay without any a-priori assumption of its functional form. One limitation of this method, however, was the need to select, a priori, the Laguerre parameter a and the expansion order, which are crucial for accurate estimation of the fluorescence decay. In this thesis, a new implementation of the Laguerre deconvolution method is introduced, in which a nonlinear least-square optimization of the Laguerre parameter is performed, and the selection of optimal expansion order is attained based on a Minimum Description Length (MDL) criterion. In addition, estimation of the zero-time delay between the recorded instrument response and fluorescence decay is also performed based on a normalized means square error criterion. The method was fully validated on fluorescence lifetime, endogenous tissue fluorophores, and human tissue. The automated Laguerre deconvolution method is expected to facilitate online applications of TRFS, such as clinical real-time tissue diagnosis.

In the first part of this study, 4-(2,5-di-2-thiophen-2-yl-pyrrol-1-yl)-phthalonitrile (SNS-PN) was synthesized by utilizing 1,4-di(2-thienyl)-1,4- butadione (SOOS) and 4-aminophthalonitrile via Knorr-Paal Reaction. Nuclear magnetic resonance (1H NMR and 13C NMR) and fourier transform infrared (FTIR) spectroscopies were utilized for the characterization of this compound. SNS-PN monomer was then electrochemically polymerized in acetonitrile/0.2 M LiClO4 solvent/electrolyte couple. Characterizations of the resulting polymer P(SNS-PN) were carried out by cyclic voltammetry (CV), UV&ndash / vis and FTIR spectroscopic techniques. Spectroelectrochemical studies revealed that P(SNS-PN) has an electronic band gap of 2.5 eV and exhibits electrochromic behaviour. The switching ability of polymer was also monitored. It was also found that P(SNS-PN) was fluorescent and its fluorescence intensity enhanced in the presence of cations. In the second part, novel tetrakis (4-(2,5-di-2-thiophen-2-yl-pyrrol-1-yl)) substituted metal-free (H2Pc-SNS), zinc (ZnPc-SNS) and nickel phthalocyanine (NiPc-SNS) complexes were synthesized and characterized by elemental analysis, FTIR and UV-Vis spectroscopies. The solution redox properties of these complexes were also studied by using CV and differential pulse voltammetry. All of the complexes showed two reversible reduction peaks having ligand-based character and one irreversible oxidation peak. Also, the electrochemical polymerization of these complexes was performed in dichloromethane/tetrabutylammonium perchlorate solvent/electrolyte couple. Resulting polymer films were characterized by UV&ndash / vis and FTIR spectroscopic techniques and their electrochemical behaviors were investigated utilizing CV. In-situ spectroelectrochemical investigations revealed that all the polymer films could be reversibly cycled and exhibit electrochromic behavior. Furthermore, the band gap of P(H2Pc-SNS), P(ZnPc-SNS) and P(NiPc-SNS) were calculated as 2.38 eV, 2.25 eV and 2.69 eV, respectively. Moreover, the fluorescence property of the P(ZnPc-SNS) was investigated in dimethyl sulfoxide and toluene.

Thesis (M.S.)--University of North Carolina at Wilmington, 2003. / Includes bibliographical references (leaves : [56]-59).