The evolution and formation of dwarf galaxies has great importance to our knowledge of cosmological history from the Big Bang through the present day structure we observe in our local universe. Dwarf galaxies are believed to be the "building blocks" of larger galaxies, which implies that interactions and mergers of these small systems must have occurred frequently in the early universe. There is a population of starburst dwarf irregular (dIm) galaxies that seem to have characteristics indicative of interactions or mergers. One of these dIm galaxies is the nearby post-starburst NGC 1569. This dissertation project explores the stellar and gas kinematics of NGC 1569 as well as examines a deep neutral Hydrogen (HI) map made using the Robert C. Byrd Green Bank Telescope (GBT). From these observations, this dissertation analyzes the evolution of NGC 1569 by understanding the three-dimensional shape of this dIm system for the first time. The structure of dIm galaxies is an important fundamental, physical property necessary to understand the evolution and formation of these common systems. However, the intrinsic shape of dIm galaxies remains controversial. Projected minor-to-major axis ratios provide insucient data to determine the shapes of dIm galaxies. Fortunately, there is another method by which accurate structures can be measured. The stellar velocity dispersion, coupled with the maximum rotational velocity derived from HI observations, gives a measure of how kinematically hot a system is, and, therefore, indicates its structure. In this dissertation, we present the stellar kinematics, including the stellar velocity dispersion, of NGC 1569 obtained using the Kitt Peak National Observatory (KPNO) Mayall 4-m+Echelle spectrograph. These data are combined with an in depth analysis of high resolution HI data and a discussion of the nature of this starburst dwarf system. The dissertation concludes with a deep HI map of NGC 1569 and three of its nearest neighbors in the IC 342 galaxy group. Extended HI structures are observed in this map and are likely associated with NGC 1569. However, distinguishing if these structures are from an interaction or a merger is not possible and hydrodynamic simulations are needed. These simulations are for future work.

This dissertation presents a detailed computational investigation into the vibrational properties of quinones involved in solar energy conversion processes in photosynthetic reaction centers. In particular, we focus on the vibrational properties of the ubiquinone molecule that occupies the QA binding site in purple bacterial photosynthetic reaction centers. To provide a foundation upon which to base computational studies of pigments in protein binding sites density functional theory based calculations of the vibrational properties of neutral ubiquinone in the gas phase and in solvent were undertaken. From single point energy calculations it was shown that at least eight ubiquinone conformers, each with slightly different FTIR spectra, could be present in solvent at room temperature. The calculated and experimental spectra for neutral ubiquinone in solution are very different from the spectra associated with ubiquinone in the QA binding in purple bacterial reaction centers. For this reason an ONIOM method was undertaken in which the pigment was treated using density functional theory based methods while the protein was treated using molecular mechanics. The ONIOM calculations not only modeled the experimental QA FTIR difference spectra but also resolved the long standing issue of whether a very strong hydrogen bond exists between the bound ubiquinone and the imidazole nitrogen of a histidine residue (HisM219). To further validate the usefulness of the ONIOM approach experimental isotope edited FTIR spectra obtained using purple bacterial reaction centers with a range of chainless symmetrical quinones incorporated were modeled. Again, the agreement between the calculated and experimental spectra is outstanding. We also modeled the vibrational properties of the ubisemiquinone anion radical both in solvent and in the QA binding site. Vibrational modes of ubisemiquinone display a greater degree of mixing of the various molecular groups of the molecule. Nonetheless the calculated FTIR spectra for ubisemiquinone in solution and in the QA site agree very well with that found experimentally. Vibrational frequencies of ubisemiquinone obtained from ONIOM calculated Raman spectra also agree very well with that found in experimental resonance Raman spectra associated with the ubisemiquinone anion radical in the QA binding site.

Optical absorption spectroscopy has been applied to study properties such as the fundamental absorption edge and defect absorption centers of group III-nitride compound semiconductor epilayers. The investigation in this thesis focused on analyzing the band gap of indium-rich In1-xGaxN epilayers, which where grown by the high-pressure chemical vapor deposition (HPCVD) technique. Our results - together with literature data for gallium-rich In1-xGaxN alloys indicate that the shift of the fundamental band gap of In1-xGaxN with composition x can be described with a bowing parameter of b = 2.2eV. Temperature dependent transmission measurements show that the band gap variation with temperature follows a S-shape behavior for small gallium concentration and shifts towards a Varshni type behavior for a higher gallium concentrations. The S-shape behavior is attributed to nanoscale compositional fluctuations/clustering in the ternary alloy system. The thicknesses of the measured In1-xGaxN epilayers have been analyzed through multilayer stack model calculations of the transmission spectra. The free electron concentration in the In1-xGaxN epilayers has been obtained from simulations of infrared reflectance spectra.

I report 1684 new proper motion systems in the southern sky (declinations -90 degrees to -47 degrees) with 0.50 arcsec/yr > mu >= 0.18 arcsec/yr. This effort is a continuation of the SuperCOSMOS-RECONS (SCR) proper motion search to lower proper motions than reported in Hambly et al. (2004); Henry et al. (2004); Subasavage et al. (2005a,b). Distance estimates are presented for the new systems, assuming that all stars are on the main sequence. I find that 34 systems are within 25 pc, including three systems --- SCR 0838-5855, SCR 1826-6542, and SCR 0630-7643AB --- anticipated to be within 10 pc. These mini-motion (MINIMO) discoveries constitute a more than ten-fold increase in new systems found in the same region of sky searched for systems with mu >= 0.50 arcsec/yr, suggesting a happy hunting ground for new nearby slower proper motion systems in the region just north (declinations -47 degrees to 0 degrees), much of which has not been rigorously searched during previous efforts.

This thesis presents an engineering project measuring the effective wavelength of the CHARA Classic beam combiner on the CHARA Array. Knowing the actual effective wavelength of light observed is very important because that value is necessary for determining astrophysical parameters of stars. Currently, the value used for CHARA Classic data comes from a model of the system and is based on numbers published by the manufacturer of the filter; it is not derived from measurements done on the system directly. We use two data collection methods to observe standard stars of different spectral types and calculate the wavelength of light recorded by the instrument for each star. We find the best estimate of the effective wavelength for the CHARA Classic K′-band configuration to be 2.138±0.003μm, a 0.56% decrease from the previously adopted value of 2.150μm. Our result establishes the first estimate of the uncertainty in the effective wavelength.

The co-existence of bursting activity and silence is a common property of various neuronal models. We describe a novel mechanism explaining the co-existence of and the transition between these two regimes. It is based on the specific homoclinic and Andronov-Hopf bifurcations of the hyper- and depolarized steady states that determine the co-existence domain in the parameter space of the leech heart interneuron models: canonical and simplified. We found that a sub-critical Andronov-Hopf bifurcation of the hyperpolarized steady state gives rise to small amplitude sub-threshold oscillations terminating through the secondary homoclinic bifurcation. Near the corresponding boundary the system can exhibit long transition from bursting oscillations into silence, as well as the bi-stability where the observed regime is determined by the initial state of the neuron. The mechanism found is shown to be generic for the simplified 4D and the original 14D leech heart interneuron models.

The apparent rarity of taxonomic A-class asteroids poses a significant paradox for understanding asteroid differentiation and the dynamical evolution of the early solar system. Based on results from asteroid taxonomic surveys, and on the abundances and mineralogy of different achondrite meteorites, it appears that olivine-dominated mantle remnants are missing from both the asteroid population and in meteorite collections. Several scenarios to explain this paradox have been proposed: (1) olivine mantle material has been stripped away by collisions and only remains as small fragments (< ~5 km), (2) A-class asteroids are abundant but have been altered in some way masking their presence, or (3) differentiated asteroids did not form thick olivine-rich mantles. We have approached these questions through the collection of taxonomic and observational data on known A-class asteroids, and the geochemical characterization of olivine grains from pallasite and ureilite igneous meteorites. Examination of four taxonomic surveys reveals discrepancies in the classification of A-class objects. Recent data with spectral coverage to 2.45 μm have reclassified some asteroids previously thought to belong to the class. Data complied from these taxonomies reveal only 17 A-class asteroids out of ~2100 individual objects surveyed (<1%). Physical and orbital characteristics of A-class asteroids indicate that the majority are small (<13 km) collisional fragments that reside in orbits interior to, or within the inner main-belt. Photometric observations of five A-class asteroids obtained during this study have constrained the rotational periods of, 246 Asporina, 289 Nenetta, 446 Aeternitas, 1600 Vyssotsky, and the Mars-crossing asteroid 1951 Lick. Robust photometric data for 446 Aeternitas collected over three apparitions yielded a precise rotation period (15.737496 ± 0.000005 h) and a pole orientation of Β = 49º, and λ = 342º. A shape model produced from these data revealed that 446 Aeternitas has a distinctly angular shape suggestive of a collisional fragment. Olivine compositions between our pallasite meteorites span a narrow range (Fa10.5 - Fa13.4), while the ureilite olivine compositions, generally more fayalitic, display wide variations in the eight examined meteorites (Fa8.5 - Fa22.1). Major and trace element behavior in olivines from pallasite meteorites is consistent with a model of slow, in situ cooling and crystallization, allowing for near-equilibrium exchange between crystallizing olivines and coexisting silicate and FeNi melt, preserving near-uniform olivine major element compositions, and limited trace element variation. Trace element signatures of ureilite silicates (olivine and pigeonite) show large variations, consistent with residual solids from fractional melting processes. Ureilite olivines are uniformly more enriched in both compatible lithophile and siderophile elements (Ca, Li, Sc, V, Cr, Ni, and Mn) than pallasite olivines. corroborating models for ureilite petrogenesis as low-degree partial melting residues in the absence of an FeNi melt phase. Uniformity of elemental signatures among different pallasites point to a chemically homogeneous parent body.

This document describes studies of two independent regions of the interstellar medium (ISM). These studies have the common element that both pertain to regions in our Galaxy that are known to be associated with present-day star formation. These studies aim to help us understand the ISM, star formation, and ultimately where we came from, since, after all, our star, the Sun, is itself the product of star formation 4.5 billion years ago. The first project measured the Zeeman Effect on the 21 cm H I absorption line in order to create a map of the line of sight magnetic fields near a star forming region called W3. From the map of the field, it was possible to create a three dimensional model of the magnetic field morphology. Also, calculating the various energies associated with W3 revealed that it is most likely in virial equilibrium, not expanding or contracting. The second project used an instrument on the Hubble Space Telescope (HST) to measure the abundance of iron in a neutral region near the Orion Nebula called Orion’s Veil. One of the goals of this project is to investigate whether solid dust grains can be destroyed by ionizing radiation by comparing the amount of solid iron in Orion’s Veil to the amount in the nearby ionized regions. By measuring the depletion of iron in the neutral Veil and comparing it to the depletion of iron the H+ regions of the Orion Nebula, it was possible to conclude that iron was not being released into the gas phase by ultraviolet photons. In addition, oscillator strengths for two Fe II transitions were measured.

All classes of Active Galactic Nuclei (AGN) are fundamentally powered by accretion of gas onto a supermassive black hole. The process converts the potential energy of the infalling matter to X-ray and ultraviolet (UV) radiation, releasing up to several 1012 solar luminosities. Observations show that the accreting "central engines" in AGN are surrounded by dusty matter. The dust occupies a "torus" around the AGN which is comprised of discrete clumps. If the AGN radiation is propagating through the torus on its way to an observer, it will be heavily re-processed by the dust, i.e. converted from UV to infrared (IR) wavelengths. Much of the information about the input radiation is lost in this conversion process while an imprint of the dusty torus is left in the released IR photons. Our group was the first to formulate a consistent treatment of radiative transfer in a clumpy medium an important improvement over simpler models with smooth dust distributions previously used by researchers. Our code CLUMPY computes spectral energy distributions (SED) for any set of model parameters values. Fitting these models to observed AGN SEDs allows us to determine important quantities, such as the torus size, the spatial distribution of clumps, the torus covering factor, or the intrinsic AGN luminosity. Detailed modeling also permits us to study the complex behavior of certain spectral features. IR radiative transfer introduces degeneracies to the solution space: different parameter values can yield similar SEDs. The geometry of the torus further exacerbates the problem. Knowing the amount of parameter degeneracy present in our models is important for quantifying the confidence in data fits. When matching the models to observed SEDs we must employ modern statistical methods. In my research I use Bayesian statistics to determine the likely ranges of parameter values. I have developed all tools required for fitting observed SEDs with our large model database: the latest implementation of CLUMPY, the fit algorithms, the Markov Chain Monte Carlo sampler, and the Bayesian estimator. In collaboration with observing groups we have applied our methods to a multitude of real-life AGN.

We calculated the fraction of ‘clumpy’ galaxies (fclumpy) for three samples of nearby galaxies. These samples include interacting galaxies with strong tidal features, collisional ring galaxies, and normal spiral galaxies. We define a ‘clumpy’ galaxy as a galaxy that has luminous star-forming regions contributing more than 8% of the total flux for the galaxy. We calculate fclumpy for 16 different wavelengths. We find that fclumpy is highest in the ultraviolet, Hα, and 24μm, while fclumpy is the lowest in optical and near-infrared wavelengths. We also see a significant increase in fclumpy for the interacting samples compared to the normal spirals.