Polymeric waveguide-on-flex has the potential to replace complex and costly light-turning devices in optoelectronic applications. As light signals are propagated and confined through the definition of core-cladding interface, the light guiding structure is required to adhere well and ensure long term interfacial stability. This thesis addresses the gap that has emerged in the fundamental material issues such as the polymeric optical waveguide materials deposited on the flexible substrates. In addition, this thesis investigates the feasibility of a new approach using electrostatic-induced lithography in micro-patterning of polymer, in optical waveguide fabrication. Plasma treatment is applied to enhance interfacial adhesion between flex substrates and optical cladding layers. The modified flex surfaces of polyimide KaptonHNTM and liquid crystal polymer VecstarTM materials are characterised. In addition, sonochemical surface treatment is evaluated on these flexible substrates. ToF-SIMS depth profiling has confirmed the interface reaction mechanisms where it has shown that plasma treatment increases the interfacial interpenetration. The larger interfacial width increases the possible entanglement mechanism between the polymer chains. These results, together with the double cantilever beam testing, indicate the strengthening of the polymeric interface upon plasma treatment, which is essential for long term optical and mechanical stability of waveguide-on-flex applications. A new method of micro-pattering of polymer material has been adopted for fabricating multimode waveguide-on-flex. The method, using an electrostatic-induced lithography, is developed to produce 50 μm x 50 μm arrays of polysiloxane LightlinkTM waveguide on flex. This thesis looks at various process recipes of the technique and reports the pattern formation of polymeric optical core. By adjusting the spin-coated liquid core thickness, pre-bake condition, UV exposure and applied voltage, the aspect ratio and profile of the optical core microstructure can be varied. As the electrostatic pressure overcoming the surface tension of spin-coated waveguide material induces the optical core formation, the core structure is smooth, making it ideal for low scattering loss waveguide. The propagation loss of fabricated waveguide is measured at 1.97 dB/cm at 850 nm wavelength. The result shows that the use of electrostatic-induced lithography in optical polymer is a promising approach for low cost and low temperature (<150 °C) processing at back end optical-electrical integrated circuitry assembly.

An artificial oyster reef constructed in Boca Ciega Bay, off of the War Veteran's Memorial Park, St. Petersburg, Florida, in 2005, was used to compare a mined shell material to the typical oyster shell substrate used in artificial reef projects as an alternative substrate and cultch material. Half of the reef's veneer was the fresh oyster shell and the other half was mined material. Experimental trays were deployed on top of the sediment along the leeward reef base and sampled quarterly to test the hypothesis that fresh shell is the preferential cultch material of the Eastern Oyster, Crassostrea virginica, promoting more oyster and epifaunal community development than the mined material. Monthly field observations along the reef face monitored the oyster community development on both substrates. The unanticipated influence of the reef's presence on the local current flows resulted in significant sediment loading on the reef. The sediment inundated and smothered the experimental trays over the course of the study, thereby converting the trays from hard substrate to soft bottom habitats. Any influence the different substrates might have had on community development was overwhelmed by sediment burial. Monthly field observations revealed positive oyster community development on both substrates. Live oyster abundance was significantly dissimilar between June and December 2006 on the fresh shell compared to the mined material (R = 0.241, p = 0.001). Epifaunal abundance showed even greater dissimilarity over the same time period (R = 0.474, p< [or] = 0.001). Greater abundances of large oysters were found on the fresh shell substrate due to an instability and deterioration of the larger pieces of mined material. A low replicate sample size of n = 3 leaves results from between month and between quarter sampling analyses open to interpretation. Though no definitive conclusions were drawn, the data from the community analyses provides useful information on the species inhabiting and utilizing oyster reefs in the Tampa Bay area.

<p>Intervertebral disc (IVD) disorders can cause pain and disability for affected individuals. A subset of IVD disorders are thought to originate in the nucleus pulposus (NP) region of the IVD, due to alterations in tissue structure and composition with age and injury. Cells of the NP undergo a phenotypic and behavioral shift with age, changes that are thought to disrupt tissue homeostasis and lead to disc degeneration. There is significant interest in developing biomaterials and strategies to revert adult degenerate NP cells to healthy, young NP cell phenotypes with increased biosynthesis and cell clustering. Studies demonstrate that healthy porcine NP cells interact with laminin proteins through specific integrin subunits on soft substrates in a process that regulates cell morphology and biosynthesis. The central hypothesis of this dissertation is that the engagement of cell-surface adhesion receptors, using laminin-mimetic peptides on a controlled stiffness material, can revert adult degenerate NP cellular phenotype and behaviors to their healthy, biosynthetically active form.</p><p>In the first part of this dissertation, integrin subunits used by adult degenerate human NP cells to attach to laminin were revealed using flow cytometric analyses, function blocking antibodies, and immunohistochemistry. Secondly, NP cell recognition peptides were identified by screening laminin-mimetic peptides for cell attachment. Finally, human NP cells were cultured on peptide functionalized polyacrylamide gels to examine the effect of ligand and substrate stiffness in regulating adult human NP cell phenotype and biosynthesis. </p><p>Findings reveal that adult human NP cells express and utilize integrin subunits α3, α5, and β1 to attach to laminins, in contrast to integrin α6β1 found previously for healthy porcine NP cells. This difference between current and previous findings likely arises from aging-associated difference in NP cells between human and porcine tissues. Select laminin-mimetic peptides, chosen from the literature and informed by NP cell integrin expression, were found to promote significant NP cell attachment in a concentration dependent manner. Finally, a subset of laminin mimetic peptides were found to promote a young NP cell phenotype by increasing cell clustering on soft (0.3 kPa) and stiff (14 kPa) substrates as well as increasing proteoglycan synthesis on soft substrates. </p><p>The studies presented in this dissertation demonstrate that adult degenerate human NP cells attach to laminin proteins in an integrin dependent manner. Furthermore, laminin-mimetic peptides are able to mediate human NP cell attachment at levels comparable to full-length laminin, increase cell clustering when presented on soft and stiff substrates, and can increase NP cell biosynthesis when presented on soft substrates. Utilizing laminin-mimetic peptides may allow for the design of biomaterials that promote a healthy young NP phenotype for a variety of disc therapies.</p> / Dissertation

Discovery of protein-metabolite and protein-substrate interactions that can specifically regulate genes involved in human biology is an important pursuit, as the study of such interactions can expand our understanding of human physiology and reveal novel therapeutic targets. The identification and characterization of these interactions can be approached from different perspectives. Chemists often use bioactive small molecules, such as natural products or synthetic compounds, as probes to identify therapeutically relevant protein targets. Biochemists and biologists often begin with a specific protein and seek to identify the endogenous ligands that bind to it. These interests have led to the development of methodology that relies heavily on synthetic and analytical chemistry to identify interactions, an approach that is complemented by in vivo strategies for validating the biological consequences of specific interactions.

In the era of VLSI the technological advancements have lead us to integrate not only digital circuits of high device density but both digital and analog circuits on to the same chip. In recent years the number of devices on a chip has spectacularly increased, all because of the downward scaling in sizes of the devices. But because of this dramatic scaling the devices have become more sensitive to the power-ground noise. Now in designing a mix signal system within single silicon die that has high speed digital circuits along with high performance analog circuits the digital switching noise becomes a foremost concern for the correct functioning of the system. The purpose of the thesis is to evaluate the reduction of Simultaneous Switching Noise in analog signal band with in the chip. The experiment is done by the use of DCVSL circuits combined with a novel method of implementation, instead of the common static circuits in the core design. These DCVSL circuits have the property to draw periodic currents from the power supply. So if the circuit draws equal amount of current at each clock cycle independent of the input fed to it, the generated noise’s frequency content, produced due to current spikes will then be shifted above the input clock frequency. The idea is to reduce Simultaneous Switching Noise (SSN) by half of the clock frequency in the frequency band. This frequency band often contains to the analog signal band of a digital-to-analog converter. To evaluate the method two pipelined adders have been implemented in 0.13 μm CMOS technology. The proposed method (test circuit) is implemented using DCVSL techniques and the reference circuit using static CMOS logic. For testing of the design we generated the input data on-chip. The pseudo-random data is generated by implementing two different length PRBS. We have also implemented a ROM containing specific test patterns. In the end, we have achieved a 10 dB decrease of noise level at the substrate node on the chip.

Glutathione transferases (GSTs, EC 2.5.1.18) possess multiple functions and have potential applications in biotechnology. This thesis contributes to knowledge about glutathione transferases from Sus scrofa (pig). The study is needed for better understanding of biochemical processes in this species and is desirable for drug development, for food industry research and in medicine. A primary role of GSTs is detoxication of electrophilic compounds. Our study presents porcine GST A1-1 as a detoxication enzyme expressed in many tissues, in particular adipose tissue, liver and pituitary gland. Based on comparison of activity and expression profiles, this enzyme can be expected to function in vivo similarly to human GST A2-2 (Paper II). In addition to its protective function, human GST A3-3 is an efficient steroid isomerase and contributes to the biosynthesis of steroid hormones in vivo. We characterized a porcine enzyme, pGST A2-2, displaying high steroid-isomerase activity and resembling hGST A3-3 in other properties as well. High levels of pGST A2-2 expression were found in ovary, testis and liver. The properties of porcine enzyme strengthen the notion that particular GSTs play an important role in steroidogenesis (Paper I). Combination of time-dependent and enzyme concentration-dependent losses of activity as well as the choice of the organic solvent for substrates were found to cause irreproducibility of activity measurements of GSTs. Enzyme adsorption to surfaces was found to be the main explanation of high variability of activity values of porcine GST A2-2 and human Alpha-class GSTs reported in the literature. Several approaches to improved functional comparison of highly active GSTs were proposed (Paper III). / Felaktigt tryckt som Digital Comprehensive Summaries of Uppsala Dissertations from the Faculty of Science and Technology 733

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The function of the metalloenzymes is mainly determined by four structural features: the metal core, the metal binding motif, the second sphere residues in the active site and the electronic statistics. Cysteamine dioxygenase (ADO) and cysteine dioxygenase (CDO) are the only known enzymes that oxidize free thiol containing molecules in mammals by inserting of a dioxygen molecue. Both ADO and CDO are known as non-heme iron dependent enzymes with 3-His metal binding motif. However, the mechanistic understanding of both enzymes is obscure. The understanding of the mechanistic features of the two thiol dioxygenases is approached through spectroscopic and metal substitution in this dissertation. Another focus of the dissertation is the understanding of the function of a second sphere residue His228 in a 3-His-1-carboxyl zinc binding decarboxylase α-amino-β-carboxymuconate-ε-semialdehyde decarboxylase (ACMSD). ACMSD catalyzes the decarboxylation through a hydrolase-like mechanism that is initialized by the deprotonation of metal bounded water molecule. Our study reveled that the second sphere residue His228 is responsible for the water deprotonation through hydrogen bonding. The spectroscopic and crystallographic data showed the H228Y mutation binds ferric iron instead of native zinc metal and the active site water is replaced by the Tyr228 residue ligation. Thus, we concluded that, H228Y not only plays a role of stabilizing and deprotonating the active site water but also is an essential residue on metal selectivity.

To determine the relationship between the abundance and density of benthic invertebrates, and the critical shear stress of individual grain sizes, a reach along Smith Creek, was divided into ten 2m x 2m quadrants. Within each quadrant, five randomly selected clasts for each grain size ranging from 2.26 to 25.6 cm were cleaned for benthic invertebrates. Wolman pebble counts for each quadrant were also conducted and used to determine the critical Shields stress per grain size fraction from the model given by Wiberg and Smith (1987) that explicitly accounts for particle hiding/sheltering effects in mixed-bed rivers. Particle entrainment values were then compared with estimated bankfull Shields stress values to determine sediment transport potential during bankfull flow. Invertebrate abundance was strongly positively correlated with critical Shields stress up to the 18.0 cm grain size, indicating a preference for certain grain sizes; while density was positively correlated with all grain sizes present.

The bacteria Streptomyces venezuelae produce the novel antibiotic jadomycin. The study of growth characteristics and metabolic behavior of the bacteria are necessary to scale up antibiotic production and facilitate further research. In this study, a method for producing consistent inoculum was developed that showed good repeatability when used in growth trials. The rod shaped spores of Streptomyces venezuelae were determined to be approximately 0.8 x 0.2 ?m with a smooth surface type. The effects of temperature and pH on bacterial growth and substrate consumption were examined in a 7 L bioreactor. Of the range of parameters tested (28, 32, 36 °C, and media pH of 5, 7 and 9), 32 °C with a media pH of 7 yielded the highest rate of growth (µmax of 1.43 hours-1 with a lag time of 7.7 hours). The results of all trials showed that free glucose was consumed before the maltose, which was the major sugar substrate in the media. The initiation of exponential bacterial growth occurred after rapid consumption of free glucose. A heat balance analysis was also performed over the bioreactor to identify the heat generated through agitation, losses over the vessel and the heat of metabolism from Streptomyces venezuelae. Under normal operating parameters 33 - 24 % of the heat generated through mixing was lost with the exhaust gas, while 56 - 64 % was lost through the bioreactor wall. The heat of mixing was calculated to be 1.62 J•s-1 while the maximum amount of heat generated by Streptomyces venezuelae metabolism and activity during a growth trial was 2.28 J•s-1 for 60 x 109 CFU?mL-1.