Cellular stress invokes a protective response in which heat shock factor 1 (HSF1) is activated to increase heat shock protein (Hsp) expression. HSF1 exists as a latent monomer in unstressed cells. Upon stress HSF1 forms homotrimers, increasing its affinity for the heat shock DNA element upstream of all Hsp genes. A second conformational change is required for HSF1 to gain transcriptional competence. During prolonged heat shock or following the resumption of normal conditions HSF1 DNA-binding and transcriptional activities are reduced and HSF1 returns to the monomeric state in a process called attenuation. During the activation/deactivation cycle HSF1 is modified by small ubiquitin-related modifier (SUMO-1) conjugation and undergoes several phosphorylation and dephosphorylation events that modulate HSF1 activity. Hyperphosphorylation of HSF1 is hypothesized to trigger HSF1 transcriptional activity. HSF1 also interacts with a dynamic series of Hsp90/Hsp70-based chaperone heterocomplexes that negatively regulate DNA-binding, and transcriptional activity, and promote attenuation. This thesis was aimed at characterizing the mechanisms regulating HSF1 DNA-binding, and transcriptional activity. Expression of human HSF1 in Xenopus oocytes altered the set-point of DNA-binding in response to heat indicating that both the cellular environment and innate properties of the molecule allow HSF1 to set its activation/deactivation set-point in response to stress in vivo. HSF1 DNA-binding but not transcription was activated in oocytes treated with a high temperature heat shock. Further characterization of this observation determined that HSF1 activated by a brief high temperature heat shock inhibited transcriptionally competent HSF1 from activating transcription. It was hypothesized that this phenomenon exists to ensure the eventual death of the cell due to the accumulation of excessive damage and potential mutation caused by severe stress. The most significant observation made in this thesis is that Hsp expression was detected in oocytes injected with reporter plasmid only during recovery from a high temperature heat shock. These results led to the proposal of a model in which HSF1 trimers are either assembled in a transcriptionally incompetent form or one that has the potential to become transcriptionally competent during stress, prior to DNA-binding. The identity of HSF1-binding proteins that interact with HSF1 at different stages of activation/deactivation was characterized in an effort to assign regulatory roles to these proteins. HSF1 was detected in a high molecular weight complex (350-600 kDa) during all phases of the activation/deactivation cycle. HSF1 at different stages of activation was tested for interaction with specific molecular chaperones by electrophoretic mobility supershift analysis. Hsp90, p23, FKBP52, Hip and Hop are all associated with transcriptionally active and inactive HSF1 suggesting that interaction of HSF1 with any of these molecules does not activate HSF1 transcriptional activity. These results do not exclude the possibility that the function of these molecular chaperones may change during activation of HSF1 transcription or that post-translational modifications may be the primary mechanism that drives HSF1 from a transcriptionally inactive to active form.

Numerical simulations of Mach shock reflections have shown that the Mach stem can bifurcate as a result of the slip line jetting forward. Numerical simulations were conducted in this study which determined that these bifurcations occur when the Mach number is high, the ramp angle is high, and specific heat ratio is low. It was clarified that the bifurcation is a result of a sufficiently large velocity difference across the slip line which drives the jet. This bifurcation phenomenon has also been observed after triple point collisions in detonation simulations. A triple point reflection was modelled as an inert shock reflecting off a wedge, and the accuracy of the model at early times after reflection indicates that bifurcations in detonations are a result of the shock reflection process. Further investigations revealed that bifurcations likely contribute to the irregular structure observed in certain detonations.

Sodium arsenite and cadmium chloride are two widespread environmental toxicants which have deleterious effects on living organisms. At the cellular level, sodium arsenite and cadmium chloride cause oxidative stress, dysregulation of gene expression, apoptosis, and the unfolding of protein. Furthermore, both chemical stressors individually have the ability to induce heat shock protein (HSP) accumulation. HSPs are molecular chaperones that aid in protein folding, translocation and in preventing stress-induced protein aggregation. Previously, our laboratory demonstrated that treatment of A6 kidney epithelial cells of the frog Xenopus laevis, with either cadmium chloride or sodium arsenite plus a concurrent mild heat shock resulted in an enhanced accumulation of HSPs that was greater than found with the sum of the individual stressors. To the best of our knowledge, no information is available to date on the effect that these two chemical stressors have in combination on HSP accumulation in aquatic organisms. The present study examined the effect of simultaneous sodium arsenite and cadmium chloride treatment on the pattern of HSP30 and HSP70 accumulation in Xenopus A6 cells. Immunoblot analysis revealed that the relative levels of HSP30 and HSP70 accumulation in A6 cells treated concurrently with sodium arsenite and cadmium chloride for 12 h were significantly higher than the sum of HSP30 or HSP70 accumulation from cells subjected to the treatments individually. For instance, the combined 10 µM sodium arsenite plus 100 µM cadmium chloride treatment resulted in a 3.5 fold increase in HSP30 accumulation and a 2.5 fold increase in HSP70 accumulation compared to the sum of the stressors individually. This finding suggested a synergistic action between the two stressors. Pretreatment of cells with KNK437, an HSF1 inhibitor, inhibited the combined sodium arsenite- and cadmium chloride-induced accumulation of HSP30 and HSP70 suggesting that this accumulation of HSPs may be regulated, at least in part, at the level of transcription. Immunocytochemical analysis employing the use of laser scanning confocal microscopy (LSCM) revealed that simultaneous treatment of cells with the two stressors induced HSP30 accumulation primarily in the cytoplasm in a punctate pattern with some dysregulation of F-actin structure. Increased ubiquitinated protein accumulation was observed with combined 10 µM sodium arsenite and 10, 50 or 100 µM cadmium chloride treatment compared to individual stressors suggesting an impairment of the ubiquitin-proteasome degradation system. Finally, while incubation of A6 cells with 1 µM sodium arsenite plus 10 µM cadmium chloride did not induce a detectable accumulation of HSPs, the addition of a 30 °C mild heat shock resulted in a strong accumulation of HSP30 and HSP70. This study has demonstrated that concurrent sodium arsenite and cadmium chloride treatment can enhance HSP accumulation. Since HSP accumulation is triggered by proteotoxic stress, these findings are relevant given the fact that aquatic amphibians in their natural habitat may be exposed to multiple chemical stressors simultaneously.

Exposure of cells to environmental or chemical stressors will initiate the heat shock response, which is mediated by heat shock proteins. Heat shock proteins are molecular chaperones which are classified by size into six main families: HSP100, HSP90, HSP70, HSP60, HSP40 and the small heat shock proteins (sHsps). The sHsp family members bind to denatured proteins and maintain them in a folding competent state such that they may be refolded by other molecular chaperones. <br /><br /> The present study examined the expression and function of two amphibian sHsps, namely, <em>Rana catesbeiana</em> HSP30 and <em>Xenopus laevis</em> HSP27. Initially, an antisense riboprobe was produced to study the mRNA accumulation of <em>Rana hsp30</em> in cultured tongue fibroblast (FT) cells. Results showed that <em>Rana hsp30</em> mRNA was optimally induced when maintained at 35&deg;C for 2 h. An antibody to the recombinant <em>Rana</em> HSP30 protein was also produced in order to study HSP30 protein accumulation in <em>Rana</em> FT cells. Analysis showed that <em>Rana</em> HSP30 was heat-inducible and accumulated maximally at 4 h when maintained at 35&deg;C and then allowed to recover at 22&deg;C for 2 h. Immunocytochemical analysis indicated that <em>Rana</em> HSP30 protein was present primarily in the nucleus, with diffuse localization in the cytoplasm. Additional immunocytochemical analysis showed that <em>Rana</em> HSP30 remained in the nucleus following heat stress and extended periods of recovery. <br /><br /> The molecular chaperone function of <em>Rana</em> HSP30 was also studied. Recombinant <em>Rana</em> HSP30 was found to inhibit the heat induced aggregation of various target proteins including citrate synthase, luciferase and malate dehydrogenase. Also, no major difference was detected between <em>Rana</em> HSP30 and <em>Xenopus</em> HSP30C in the inhibition of heat-induced aggregation of target proteins. <br /><br /> This study also examined the expression and function of <em>Xenopus laevis</em> HSP27. Analysis of the putative amino acid sequence of the <em>Xenopus hsp27</em> cDNA revealed that it had an identity of 71% with chicken, 65% with zebrafish, 63% with human and 53% with topminnow. Most of the identity was located within the &alpha;-crystallin domain of the protein. Interestingly, <em>Xenopus</em> HSP27 shared only a 19% identity with 2 other <em>Xenopus</em> sHsps, HSP30C and HSP30D. <br /><br /> Western blot analysis using an anti-<em>Xenopus</em> HSP27 antibody revealed that HSP27 was not detectable in cultured kidney epithelial cells. However, examination of early <em>Xenopus</em> embryos revealed that HSP27 was first detected in tadpole embryos (stage 44). Heat-inducible HSP27 was also first detected at this stage. The accumulation pattern of <em>Xenopus</em> HSP27 protein was distinct from <em>Xenopus</em> HSP30, which was heat-inducible at midtailbud stage 26, approximately two and a half days earlier in development. <br /><br /> Analysis of recombinant HSP27 by native pore exclusion limit electrophoresis showed that it formed high molecular weight, multimeric complexes. The molecular chaperone function of HSP27 was assessed by means of thermal aggregation assays employing citrate synthase, luciferase and malate dehydrogenase. <em>Xenopus</em> HSP27 inhibited the heat-induced aggregation of all of these target proteins. This study has revealed that <em>Xenopus</em> HSP27 is a member of the HSP27 subfamily of small heat shock proteins in <em>Xenopus</em> and distinct from the HSP30 family. The accumulation of HSP27 under constitutive and stress-inducible conditions is developmentally regulated. Finally, this sHsp appears to function as a molecular chaperone.

In eukaryotes, the ubiquitin-proteasome system (UPS) degrades most cellular protein. Inhibition of the UPS has been associated with different disease states and can affect various intracellular processes including the activation of heat shock protein (hsp) gene expression. During cellular stress, HSPs act as molecular chaperones by inhibiting protein aggregation and assisting in their refolding once normal conditions are re-established. In the present study, Withaferin A (WA), a steroidal lactone with possible anti-inflammatory and antitumor properties, was found to inhibit proteasome activity and induce the expression of hsp genes in the amphibian model system, Xenopus laevis. Treatment of Xenopus kidney epithelial A6 cells with WA produced an increase in the accumulation of ubiquitinated protein and a significant decrease in chymotrypsin-like activity. Furthermore, immunoblot analysis revealed that WA induced HSP30 and HSP70 accumulation. For example, cells treated with 5 μM WA for 18 h resulted in the optimal accumulation of HSP30 and HSP70. Northern blot analysis revealed that exposure of cells to 5 μM WA induced hsp30 and hsp70 mRNA accumulation in a time-dependent manner up to 12 h. The activation of heat shock factor 1 (HSF1) DNA-binding may be involved in WA-induced hsp gene expression in A6 cells, since pretreatment with the HSF1 inhibitor, KNK437, reduced the accumulation of HSP30 and HSP70. Also, WA acted synergistically with mild heat shock to enhance HSP accumulation to a greater extent than the sum of both stressors individually. In cells recovering from WA, the relative levels of HSP30 and HSP70 accumulation remained elevated from 6 to 12 h after removal of WA. Immuocytochemical analysis and laser scanning confocal microscopy revealed that WA-induced HSP30 accumulation occurred primarily in the cytoplasm with some staining in the nucleus in a granular or punctate pattern. Prolonged exposure to WA resulted in some disorganization of the actin cytoskeleton as well as large cytoplasmic HSP30 staining structures in some cells. Prior exposure of cells to WA treatment conferred thermotolerance since it protected them against a subsequent thermal challenge at 37 °C. In conclusion, this study has shown that WA can induce an inhibition of proteasome activity and an increase hsp gene expression. Activating the heat shock response is a potential avenue for novel drug therapies, which can confer cytoprotection in disease states involving cytotoxic protein aggregation.

Pulsed laser ablation (PLA) in single shot on polycrystalline Al thin foil ca. 50£gm in thickness was conducted in air and water to study the heat and shock affected zone (HSAZ) under specific wave length (532 nm), pulse duration time (16 ns) and laser input energy (400, 600 and 800 mJ/pulse) with a specified spot size of 0.03 mm2. The combined optical and electron microscopic observations indicated water is more effective than air to reduce HSAZ which increases with the increase of pulse energy yet with negligible recrystallization of Al substrate. Oxidation of the Al foil and redeposition of aluminum oxide nanocondensates on the laser incident side caused thermal mismatch between the coating and the Al substrate (especially when only 30£gm in thickness), and hence intra- and intergranular cracking along thermally etched subgrain boundary and grain boundary, respectively. The minimum interspacing of successive shots for effective fabrication of aluminum oxide nanocondesates from Al substrate are 470 and 250£gm, for the present PLA in air and water, respectively. PLA fragmentation of £\-Al2O3 powder (mainly 100 nm in size) in water was also conducted under free-run mode (1064 nm, 240 £gs pulse duration) vs Q-switch mode (532 nm, 16 ns pulse duration) having laser spot size 0.03 mm2 and focal point 5 mm beneath the water level for an accumulation time of 20 min at 10 Hz. Comparing with the case of 1064 nm, the 532 nm laser incidence suffered less water absorption and was more effective to produce nanocondensates mainly in the form of £^ and £_* derived phases ranging from 5 to 20 nm in diameter which were occasionally (111)-specifically coalesced as twinned bicrystals.

Synthesis of heat shock proteins (Hsps) in response to elevated temperatures and other denaturing agents (including UV, heavy metals, and energy depletion) is a common productive response of prokaryotic and eukaryotic cells. Therefore, increasing in production of heat shock protein has been considered a sign of cells under stress. The phylum Sipuncula comprises of about 300 species worldwide; they are bilaterally symmetrical, unsegmented, and deposit feeding marine worms common in the substrate of wetland. In this research, I studied the dominant species Sipunculus nudus and analyzed it proteomics to reveal how it responses to persistent organic pollution. In order to compare the difference between HSP70 and HSP90, Sipunculans were sampling from two wetland (Xiangshan and Wanggong) in Hsinchu and Changhua,, respectively. The results showed that the concentrations of PAHs and OCPs both in substrate and S. nudus tissues from Xiangshan were higher than Wanggong. The concentrations of PAHs and OCPs in both areas showed that the environmental- sediment levels were higher than the sediment inside the gut or the body tissues. Principal component analysis showed that the compositions in S. nudus from both area were similar; however PAHs compositions from the environmental sediment or the sediment of the gut were similar. When the concentrations of HSP70 and HSP90 between both areas were compared, HSP70 expressions did not significant differed in both areas, while HSP90 express was higher in the S. nudus from Xiangshan than Wanggong. For S. nudus Hsp90 was upregulated in highly polluted area (i.e. Xiangshan). I propose that tissue expression of HSP90 plays an important role in the survival of S. nudus, and detection of HSP90 may provide pollution information of the surrounding environment.

A new shock tube targeting low temperature, high pressure, and long test times was designed and installed at the Turbomachinery Laboratory in December of 2008. The single-pulse shock tube uses either lexan diaphragms or die-scored aluminum disks of up to 4 mm in thickness. The modular design of the tube allows for optimum operation over a large range of thermodynamic conditions from 1 to 100 atm and between 600-4000 K behind the reflected shock wave. The new facility allows for ignition delay time, chemical kinetics, high-temperature spectroscopy, vaporization, atomization, and solid particulate experiments. An example series of ignition delay time experiments was made on mixtures of CH4/C2H6/O2/Ar at pressures from 1 to 30.7 atm, intermediate temperatures from 1082 to 2248 K, varying dilutions (between 75 and 98% diluent), and equivalence ratios ranging from fuel lean (0.5) to fuel rich (2.0) in this new facility. The percentage by volume variation and equivalence ratios for the mixtures studied were chosen to cover a wide parameter space not previously well studied. Results are then used to validate and improve a detailed kinetics mechanism which models the oxidation and ignition of methane and other higher order hydrocarbons, through C4, with interest in further developing reactions important to methane- and ethane-related chemistry.

At present, the United States generates biofuels (ethanol) from corn grain. Unfortunately, low crop yields and limited growth regions result in limited availability. Furthermore, the use of staple food crops for ethanol production has generated a highly controversial food vs. fuel debate. Because of its high abundance and relatively low cost, lignocellulosic biomass is a promising alternative feedstock for biofuel production; however, structural features of lignocellulose limit accessibility of enzymes or microorganisms. These structural barriers include high lignin content, acetyl groups on hemicellulose, high cellulose crystallinity, cellulose degree of polymerization, and small pore volume. To overcome these barriers, a variety of pretreatment processes (chemical and mechanical) have been developed. Oxidative-lime pretreatment (OLP) is highly effective at reducing lignin content and removing acetyl groups from hemicellulose. Combining OLP with a mechanical treatment process greatly enhances the enzymatic digestibility of lignocellulose. Recommended OLP conditions were determined for Dacotah (120 °C, 6.89-bar O2, 240 min) and Alamo (110 °C, 6-89-bar O2, 240 min) switchgrass. Using recommended conditions, 72-h glucan digestibilities (g glucan hydrolyzed/100 g glucan in raw biomass; 15 filter paper units/g raw glucan) of 85.2 and 88.5 were achieved for Dacotah and Alamo, respectively. Adding ball milling to OLP further enhanced glucan digestibility to 91.1 (Dacotah) and 90.0 (Alamo). In previous studies, shock treatment achieved promising results, but was often inconsistent. This work refined shock treatment with a focus on using consistent procedures and performance analysis. The combination of OLP and shock treatment enhanced the 72-h glucan digestibility of several promising biomass feedstocks: bagasse (74.0), corn stover (92.0), poplar wood (94.0), sorghum (71.8), and switchgrass (89.0). Highly digestible lignocellulose can also be used as ruminant animal feed. Shock treatment plus OLP increased the total digestible nutrients (TDNN; g nutrients digested/100 g organic matter) of corn stover from 51.9 (untreated) to 72.6. Adding in pre-washed corn stover solubles to produce a combined feed (17.8 percent corn stover solubles and 82.2 percent shock OLP corn stover) increased TDNN to 74.9. Mixing in enough solubilized protein to match the crude protein content of corn grain further improved TDNN to 75.5, only 12.6 less than corn grain.

The E. coli ArsA is involved in arsenic detoxification but the role of yArsA (ArsA homologue of Saccharomyces cerevisiae, encoded by YDL100c ORF) in yeast is still undefined. Disruption of YDL100c ORF is not lethal but the disrupted strain (KO) shows decreased thermotolerance. To study the role of yArsA in thermotolerance, wild type (WT) and KO were grown at 25¢Jand 37¢J, and assayed for the intracellular levels of trehalose accumulation and molecular oxidation, and the biosynthesis of heat shock proteins. The results show that molecular oxidation is higher and trehalose accumulation is lower in KO compared with WT grown at 37¢J, suggesting that increased ROS and decreased trehalose content are the cause of cell death. Further analysis of the expression of ROS defense mechanisms show that there is no significant difference in TSL1 and SOD1 expression in WT and KO grown at 25¢J or 37¢J but the CTT1 expression in KO was much less than WT grown at 37¢J. These observations are consistent with the assays of enzymatic activity of catalase and antioxidant GSH contents. Loss of catalase activity, decreased trehalose contents and Hsp104p expression suggest a deficiency in activation of general but not specific stress response in KO when grown at 37¢J. Therefore, yArsA was involved in signaling the general stress response in stress tolerance network.