Matching Items (21)
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Description
The taxonomic and metabolic profile of the microbial community inhabiting a natural system is largely determined by the physical and geochemical properties of the system. However, the influences of parameters beyond temperature, pH and salinity have been poorly analyzed with few studies incorporating the comprehensive suite of physical and geochemical

The taxonomic and metabolic profile of the microbial community inhabiting a natural system is largely determined by the physical and geochemical properties of the system. However, the influences of parameters beyond temperature, pH and salinity have been poorly analyzed with few studies incorporating the comprehensive suite of physical and geochemical measurements required to fully investigate the complex interactions known to exist between biology and the environment. Further, the techniques used to classify the taxonomic and functional composition of a microbial community are fragmented and unwieldy, resulting in unnecessarily complex and often non-consilient results.

This dissertation integrates environmental metagenomes with extensive geochemical metadata for the development and application of multidimensional biogeochemical metrics. Analysis techniques including a Markov cluster-based evolutionary distance between whole communities, oligonucleotide signature-based taxonomic binning and principal component analysis of geochemical parameters allow for the determination of correlations between microbial community dynamics and environmental parameters. Together, these techniques allow for the taxonomic classification and functional analysis of the evolution of hot spring communities. Further, these techniques provide insight into specific geochemistry-biology interactions which enable targeted analyses of community taxonomic and functional diversity. Finally, analysis of synonymous substitution rates among physically separated microbial communities provides insights into microbial dispersion patterns and the roles of environmental geochemistry and community metabolism on DNA transfer among hot spring communities.

The data presented here confirms temperature and pH as the primary factors shaping the evolutionary trajectories of microbial communities. However, the integration of extensive geochemical metadata reveals new links between geochemical parameters and the distribution and functional diversification of communities. Further, an overall geochemical gradient (from multivariate analyses) between natural systems provides one of the most complete predictions of microbial community functional composition and inter-community DNA transfer rates. Finally, the taxonomic classification and clustering techniques developed within this dissertation will facilitate future genomic and metagenomic studies through enhanced community profiling obtainable via Markov clustering, longer oligonucleotide signatures and insight into PCR primer biases.
ContributorsAlsop, Eric Bennie (Author) / Raymond, Jason (Thesis advisor) / Anbar, Ariel (Committee member) / Farmer, Jack (Committee member) / Shock, Everett (Committee member) / Walker, Sarah (Committee member) / Arizona State University (Publisher)
Created2014
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Description
Much of Mars' surface is mantled by bright dust, which masks the spectral features used to interpret the mineralogy of the underlying bedrock. Despite the wealth of near-infrared (NIR) and thermal infrared data returned from orbiting spacecraft in recent decades, the detailed bedrock composition of approximately half of the martian

Much of Mars' surface is mantled by bright dust, which masks the spectral features used to interpret the mineralogy of the underlying bedrock. Despite the wealth of near-infrared (NIR) and thermal infrared data returned from orbiting spacecraft in recent decades, the detailed bedrock composition of approximately half of the martian surface remains relatively unknown due to dust cover. To address this issue, and to help gain a better understanding of the bedrock mineralogy in dusty regions, data from the Thermal Emission Spectrometer (TES) Dust Cover Index (DCI) and Mars Reconnaissance Orbiter (MRO) Mars Color Imager (MARCI) were used to identify 63 small localized areas within the classical bright dusty regions of Arabia Terra, Elysium Planitia, and Tharsis as potential "windows" through the dust; that is, areas where the dust cover is thin enough to permit infrared remote sensing of the underlying bedrock. The bedrock mineralogy of each candidate "window" was inferred using processed spectra from the Mars Express (MEx) Observatoire pour la Mineralogie, l'Eau, les Glaces et l'Activité (OMEGA) NIR spectrometer and, where possible, TES. 12 areas of interest returned spectra that are consistent with mineral species expected to be present at the regional scale, such as high- and low-calcium pyroxene, olivine, and iron-bearing glass. Distribution maps were created using previously defined index parameters for each species present within an area. High-quality TES spectra, if present within an area of interest, were deconvolved to estimate modal mineralogy and support NIR results. OMEGA data from Arabia Terra and Elysium Planitia are largely similar and indicate the presence of high-calcium pyroxene with significant contributions of glass and olivine, while TES data suggest an intermediate between the established southern highlands and Syrtis Major compositions. Limited data from Tharsis indicate low-calcium pyroxene mixed with lesser amounts of high-calcium pyroxene and perhaps glass. TES data from southern Tharsis correlate well with the previously inferred compositions of the Aonium and Mare Sirenum highlands immediately to the south.
ContributorsLai, Jason Chi-Shun (Author) / Bell, James (Thesis advisor) / Christensen, Philip R. (Philip Russel) (Committee member) / Hervig, Richard (Committee member) / Arizona State University (Publisher)
Created2014
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Description
A new analytical method is proposed for measuring the deuterium to hydrogen ratio (D/H) of non-stoichiometric water in hydrous minerals via pyrolysis facilitated gas-chromatography - isotope ratio mass spectrometry (GC-IRMS). Previously published analytical methods have reported a poorly understood nonlinear dependence of D/H on sample size, for which any

A new analytical method is proposed for measuring the deuterium to hydrogen ratio (D/H) of non-stoichiometric water in hydrous minerals via pyrolysis facilitated gas-chromatography - isotope ratio mass spectrometry (GC-IRMS). Previously published analytical methods have reported a poorly understood nonlinear dependence of D/H on sample size, for which any accurate correction is difficult. This sample size effect been variously attributed to kinetic isotope fractionation within the mass spectrometer and peripheral instruments, ion source linearity issues, and an unstable H_3^+-factor or incorrect H_3^+-factor calculations. The cause of the sample size effect is here identified by examinations of individual chromatograms as well as bulk data from chromatographic peaks. It is here determined that it is primarily an artifact of the calculations employed by the manufacturer's computer program, used to both monitor the functions of the mass spectrometer and to collect data. Ancillary causes of the sample size effect include a combination of persistent background interferences and chromatographic separation of the isotopologues of molecular hydrogen. Previously published methods are evaluated in light of these findings. A new method of H_3^+-factor and D/H calculation is proposed which makes portions of the Isodat software as well as other published calculation methods unnecessary. Using this new method, D/H is measured in non-stoichiometric water in chert from the Cretaceous Edwards Group, Texas, as well as the Precambrian Kromberg Formation, South Africa, to assess hydrological conditions as well as to estimate the maximum average surface temperature during precipitation of the chert. Data from Cretaceous chert are consistent with previously published data and interpretations, based upon conventional analyses of large samples. Data from Precambrian chert are consistent with maximum average surface temperatures approaching 65°C during the Archean, instead of the much lower temperatures derived from erroneous methods of sample preparation and analysis. D/H is likewise measured in non-stoichiometric water in silicified basalt from the Precambrian Hooggenoeg Complex, South Africa. Data are shown to be consistent with D/H of the Archean ocean similar to present day values.
ContributorsSheehan, Michael Robert (Author) / Knauth, Leroy P (Thesis advisor) / Anbar, Ariel (Committee member) / Farmer, Jack (Committee member) / Arizona State University (Publisher)
Created2011
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Description
The spectacular geological panoramas of Grand Canyon National Park (GCNP) motivate the curiosity of visitors about geology. However, there is little research on how well these visitors understand the basic geologic principles on display in the Canyon walls. The new Trail of Time (ToT) interpretative exhibit along the South Rim

The spectacular geological panoramas of Grand Canyon National Park (GCNP) motivate the curiosity of visitors about geology. However, there is little research on how well these visitors understand the basic geologic principles on display in the Canyon walls. The new Trail of Time (ToT) interpretative exhibit along the South Rim uses Grand Canyon vistas to teach these principles. Now being visited by thousands daily, the ToT is a uniquely valuable setting for research on informal learning of geologic time and other basic geologic concepts. At the ToT, visitors are not only asked to comprehend a linear timeline, but to associate it with the strata exposed in the walls of the Canyon. The research addressed two primary questions: (1) how do visitors of the National Park use elements of the geologic landscape of the Grand Canyon to explain fundamental principles of relative geologic time? and (2) how do visitors reconcile the relationship between the horizontal ToT timeline and the vertical encoding of time in the strata exposed in the Canyon walls? Semi-structured interviews tracked participants' understanding of the ToT exhibit and of basic principles of geologic time. Administering the verbal analysis method of Chi (1997) to the interview transcripts, the researcher identified emergent themes related to how the respondents utilized the landscape to answer interview questions. Results indicate that a majority of respondents are able to understand principles of relative geologic time by utilizing both the observed and inferred landscape of Grand Canyon. Results also show that by applying the same integrated approach to the landscape, a majority of respondents are able to reconcile stratigraphic time with the horizontal ToT timeline. To gain deeper insight into the cognitive skills activated to correctly understand geologic principles the researcher used Dodick and Orion's application of Montangero's (1996) diachronic thinking model to code responses into three schemes: (1) transformation, (2) temporal organization, and (3) interstage linkage. Results show that correct responses required activation of the temporal organization scheme or the more advanced interstage linkage scheme. Appropriate application of these results can help inform the development of future outdoor interpretive geoscience exhibits.
ContributorsFrus, Rebecca (Author) / Semken, Steven (Thesis advisor) / Baker, Dale (Committee member) / Farmer, Jack (Committee member) / Arizona State University (Publisher)
Created2011
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Early spacecraft missions to Mars, including the Marnier and Viking orbiters and landers revealed a morphologically and compositionally diverse landscape that reshaped widely held views of Mars. More recent spacecraft including Mars Global Surveyor, Mars Odyssey, Mars Express, Mars Reconnaissance Orbiter, and the Mars Exploration Rovers have further refined, enhanced,

Early spacecraft missions to Mars, including the Marnier and Viking orbiters and landers revealed a morphologically and compositionally diverse landscape that reshaped widely held views of Mars. More recent spacecraft including Mars Global Surveyor, Mars Odyssey, Mars Express, Mars Reconnaissance Orbiter, and the Mars Exploration Rovers have further refined, enhanced, and diversified our understanding of Mars. In this dissertation, I take a multiple-path approach to planetary and Mars science including data analysis and instrument development. First, I present several tools necessary to effectively use new, complex datasets by highlighting unique and innovative data processing techniques that allow for the regional to global scale comparison of multiple datasets. Second, I present three studies that characterize several processes on early Mars, where I identify a regional, compositionally distinct, in situ, stratigraphically significant layer in Ganges and Eos Chasmata that formed early in martian history. This layer represents a unique period in martian history where primitive mantle materials were emplaced over large sections of the martian surface. While I originally characterized this layer as an effusive lava flow, based on the newly identified regional or global extent of this layer, I find the only likely scenario for its emplacement is the ejecta deposit of the Borealis Basin forming impact event. I also re-examine high thermal inertia, flat-floored craters identified in Viking data and conclude they are typically more mafic than the surrounding plains and were likely infilled by primitive volcanic materials during, or shortly after the Late Heavy Bombardment. Furthermore, the only plausible source for these magmas is directly related to the impact process, where mantle decompression melting occurs as result of the removal of overlying material by the impactor. Finally, I developed a new laboratory microscopic emission and reflectance spectrometer designed to help improve the interpretation of current remote sensing or in situ data from planetary bodies. I present the design, implementation, calibration, system performance, and preliminary results of this instrument. This instrument is a strong candidate for the next generation in situ rover instruments designed to definitively assess sample mineralogy and petrology while preserving geologic context.
ContributorsEdwards, Christopher (Author) / Christensen, Philip R. (Thesis advisor) / Bell, James (Committee member) / Sharp, Thomas (Committee member) / Clarke, Amanda B (Committee member) / Shock, Everett (Committee member) / Arizona State University (Publisher)
Created2012
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Description
The composition of planets and their volatile contents are intimately connected to the structure and evolution of their parent protoplanetary disks. The transport of momentum and volatiles is often parameterized by a turbulent viscosity parameter $\alpha$, which is usually assumed to be spatially and temporally uniform across the disk. I

The composition of planets and their volatile contents are intimately connected to the structure and evolution of their parent protoplanetary disks. The transport of momentum and volatiles is often parameterized by a turbulent viscosity parameter $\alpha$, which is usually assumed to be spatially and temporally uniform across the disk. I show that variable $\alpha$(r,z) (where $r$ is radius, and $z$ is height from the midplane) attributable to angular momentum transport due to MRI can yield disks with significantly different structure, as mass piles up in the 1-10 AU region resulting in steep slopes of p $>$ 2 here (where p is the power law exponent in $\Sigma \propto r^{-p}$). I also show that the transition radius (where bulk mass flow switches from inward to outward) can move as close in as 3 AU; this effect (especially prominent in externally photoevaporated disks) may significantly influence the radial water content available during planet formation.

I then investigate the transport of water in disks with different variable α profiles. While radial temperature profile sets the location of the water snowline (i.e., inside of which water is present as vapor; outside of which, as ice on solids), it is the rates of diffusion and drift of small icy solids and diffusion of vapor across the snow line that determine the radial water distribution. All of these processes are highly sensitive to local $\alpha$. I calculate the effect of radially varying α on water transport, by tracking the abundance of vapor in the inner disk, and fraction of ice in particles and larger asteroids beyond the snow line. I find one α profile attributable to winds and hydrodynamical instabilities, and motivated by meteoritic constraints, to show considerable agreement with inferred water contents observed in solar system asteroids.

Finally, I calculate the timing of gap formation due to the formation of a planet in disks around different stars. Here, I assume that pebble accretion is the dominant mechanism for planetary growth and that the core of the first protoplanet forms at the water snow line. I discuss the dependence of gap timing to various stellar and disk properties.
ContributorsKalyaan, Anusha (Author) / Desch, Steven J (Thesis advisor) / Groppi, Christopher (Committee member) / Young, Patrick (Committee member) / Shkolnik, Evgenya (Committee member) / Bell, James (Committee member) / Arizona State University (Publisher)
Created2018
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Description
Finding life beyond Earth could change our understanding of life and habitability. The best place to look for life beyond Earth is Jupiter's moon, Europa. It has been estimated Europa may have a liquid, salt-water subsurface with 2 to 3 times the volume of all Earth's oceans. Knowing that all

Finding life beyond Earth could change our understanding of life and habitability. The best place to look for life beyond Earth is Jupiter's moon, Europa. It has been estimated Europa may have a liquid, salt-water subsurface with 2 to 3 times the volume of all Earth's oceans. Knowing that all life requires water, it is in our best interest to explore Europa. This thesis explored the plausibility of life on Europa in four of its environments: on the surface, under the ice shell, in the liquid subsurface, and at the bottom of the liquid subsurface. Each of these environments were defined from science literature and compared to known Earth analogs. Europa's surface is not likely to support life, as there is not liquid water present. There is also extremely high radiation bombardment and extremely low surface temperatures that are estimated to be well out of the range for supporting life. It is more plausible that life could be under Europa's ice shell than on the surface. Under the surface, radiation exposure dramatically reduces. Researchers have found organisms on Earth that can live in similar environments as Europa's ice as well. These organisms require some interaction with liquid water though. Uncertainties about Europa's ice shell thickness and radiation load per depth it experiences, as well as there being limited research on organisms in ice environments, hinder us from definitively assessing the plausibility of life under the surface. The best environment on Europa to look for life on Europa is the subsurface. There remain a lot of uncertainties about the subsurface, however, that make it difficult to assess the plausibility of finding life. These uncertainties include its depth, water activity, salinity, temperature, pressure, and structure. This subsurface may be suitable for life, but until we can further understand the environment of the subsurface, we cannot make definite conclusions. As for assessing the plausibility of life at the bottom of Europa's subsurface, there is not much we know about this environment either. It has been suggested there may be hydrothermal vents, but no evidence has either supported or rejected this idea. Without a clear understanding of the environment at the bottom of the subsurface, the plausibility of life here cannot be definitively answered. It is apparent we need to further study Europa. In particular, we need to focus on understanding the subsurface. When the subsurface is better defined, we can better assess the plausibility of life being present. Fortunately, both NASA and the ESA are currently planning missions to Europa that are scheduled to launch in the 2020s.
ContributorsHoward, Cheyenne Whiffen (Author) / Farmer, Jack (Thesis director) / Shock, Everett (Committee member) / School of Earth and Space Exploration (Contributor) / Barrett, The Honors College (Contributor)
Created2017-05
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The Kuiper Belt Object Haumea is one of the most fascinating objects in the solar system. Spectral reflectance observations reveal a surface of almost pure water ice, yet it has a mass of 4.006 × 1021 kg, measured from orbits of its moons, along with an inferred mean radius

The Kuiper Belt Object Haumea is one of the most fascinating objects in the solar system. Spectral reflectance observations reveal a surface of almost pure water ice, yet it has a mass of 4.006 × 1021 kg, measured from orbits of its moons, along with an inferred mean radius of 715 km, and these imply a mean density of around 2600 kg m−3. Thus the surface ice must be a veneer over a rocky core. This model is supported by observations of Haumea's light curve, which shows large photometric variations over an anomalously rapid 3.9154-hour rotational period. Haumea's surface composition is uniform, therefore the light curve must be due to a varying area presented to the observer, implying that Haumea has an oblong, ellipsoidal shape. If Haumea's rotation axis is normal to our line of sight, and Haumea reflects with a lunar-like scattering function, then its axis ratios are p = b/a = 0.80 (in the equatorial cross section) and q = c/a = 0.52 (in the polar cross section). In this work, I assume that Haumea is in hydrostatic equilibrium, and I model it as a two-phase ellipsoid with an ice mantle and a rocky core. I model the core assuming it has a given density in the range between 2700–3300 kg m−3 with axis ratios that are free to vary. The metric which my code uses calculates the angle between the gravity vector and the surface normal, then averages this over both the outer surface and the core-mantle boundary. When this fit angle is minimized, it allows an interpretation of the size and shape of the core, as well as the thickness of the ice mantle. Results of my calculations show that Haumea's most likely core density is 2700–2800 kg m−3, with ice thicknesses anywhere from 12–32 km over the poles and as thin as 4–18 km over the equator.
ContributorsProbst, Luke (Author) / Desch, Steven (Thesis advisor) / Asphaug, Erik (Committee member) / Bell, James (Committee member) / Arizona State University (Publisher)
Created2015
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Understanding the structural evolution of planetary surfaces provides key insights to their physical properties and processes. On the Moon, large-scale tectonism was thought to have ended over a billion years ago. However, new Lunar Reconnaissance Orbiter Camera (LROC) Narrow Angle Camera (NAC) high resolution images show the Moon’s surface in

Understanding the structural evolution of planetary surfaces provides key insights to their physical properties and processes. On the Moon, large-scale tectonism was thought to have ended over a billion years ago. However, new Lunar Reconnaissance Orbiter Camera (LROC) Narrow Angle Camera (NAC) high resolution images show the Moon’s surface in unprecedented detail and show many previously unidentified tectonic landforms, forcing a re-assessment of our views of lunar tectonism. I mapped lobate scarps, wrinkle ridges, and graben across Mare Frigoris – selected as a type area due to its excellent imaging conditions, abundance of tectonic landforms, and range of inferred structural controls. The distribution, morphology, and crosscutting relationships of these newly identified populations of tectonic landforms imply a more complex and longer-lasting history of deformation that continues to today. I also performed additional numerical modeling of lobate scarp structures that indicates the upper kilometer of the lunar surface has experienced 3.5-18.6 MPa of differential stress in the recent past, likely due to global compression from radial thermal contraction.

Central pit craters on Mars are another instance of intriguing structures that probe subsurface physical properties. These kilometer-scale pits are nested in the centers of many impact craters on Mars as well as on icy satellites. They are inferred to form in the presence of a water-ice rich substrate; however, the process(es) responsible for their formation is still debated. Previous models invoke origins by either explosive excavation of potentially water-bearing crustal material, or by subsurface drainage of meltwater and/or collapse. I assessed radial trends in grain size around central pits using thermal inertias calculated from Thermal Emission Imaging System (THEMIS) thermal infrared images. Average grain size decreases with radial distance from pit rims – consistent with pit-derived ejecta but not expected for collapse models. I present a melt-contact model that might enable a delayed explosion, in which a central uplift brings ice-bearing substrate into contact with impact melt to generate steam explosions and excavate central pits during the impact modification stage.
ContributorsWilliams, Nathan Robert (Author) / Bell, James (Thesis advisor) / Robinson, Mark (Committee member) / Christenen, Philip (Committee member) / Farmer, Jack (Committee member) / Shirzaei, Manoochehr (Committee member) / Arizona State University (Publisher)
Created2016
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The search for life on Mars is a major NASA priority. A Mars Sample Return

(MSR) mission, Mars 2020, will be NASA's next step towards this goal, carrying an instrument suite that can identify samples containing potential biosignatures. Those samples will be later returned to Earth for detailed analysis. This dissertation

The search for life on Mars is a major NASA priority. A Mars Sample Return

(MSR) mission, Mars 2020, will be NASA's next step towards this goal, carrying an instrument suite that can identify samples containing potential biosignatures. Those samples will be later returned to Earth for detailed analysis. This dissertation is intended to inform strategies for fossil biosignature detection in Mars analog samples targeted for their high biosignature preservation potential (BPP) using in situ rover-based instruments. In chapter 2, I assessed the diagenesis and BPP of one relevant analog habitable Martian environment: a playa evaporite sequence within the Verde Formation, Arizona. Coupling outcrop-scale observations with laboratory analyses, results revealed four diagenetic pathways, each with distinct impacts on BPP. When MSR occurs, the sample mass returned will be restricted, highlighting the importance of developing instruments that can select the most promising samples for MSR. Raman spectroscopy is one favored technique for this purpose. Three Raman instruments will be sent onboard two upcoming Mars rover missions for the first time. In chapters 3-4, I investigated the challenges of Raman to identify samples for MSR. I examined two Raman systems, each optimized in a different way to mitigate a major problem commonly suffered by Raman instruments: background fluorescence. In Chapter 3, I focused on visible laser excitation wavelength (532 nm) gated (or time-resolved Raman, TRR) spectroscopy. Results showed occasional improvement over conventional Raman for mitigating fluorescence in samples. It was hypothesized that results were wavelength-dependent and that greater fluorescence reduction was possible with UV laser excitation. In Chapter 4, I tested this hypothesis with a time-resolved UV (266 nm) gated Raman and UV fluorescence spectroscopy capability. I acquired Raman and fluorescence data sets on samples and showed that the UV system enabled identifications of minerals and biosignatures in samples with high confidence. The results obtained in this dissertation may inform approaches for MSR by: (1) refining models for biosignature preservation in habitable Mars environments; (2) improving sample selection and caching strategies, which may increase the success of Earth-based biogenicity studies; and (3) informing the development of Raman instruments for upcoming rover-based missions.
ContributorsShkolyar, Svetlana (Author) / Farmer, Jack (Thesis advisor) / Semken, Steven (Committee member) / Sharp, Thomas (Committee member) / Shim, Sang-Heon Dan (Committee member) / Youngbull, Aaron Cody (Committee member) / Arizona State University (Publisher)
Created2016