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Filtering by: Advisor Hawkes, Stephen J. Remove constraint Advisor: Hawkes, Stephen J. License All rights reserved Remove constraint License: All rights reserved Non-Academic Affiliation Oregon State University. Graduate School Remove constraint Non-Academic Affiliation: Oregon State University. Graduate School

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  • Quantification of Osmolytes in the Sargasso Sea Surface Layer Water Column

    Creator:
    Muslin, Omran
    Abstract:
    Oceanic carbon cycling plays a major role in determining global atmospheric CO₂. A better understanding of dissolved organic matter and its constituents in the water column and how it affects marine carbon cycling is sought after. This study successfully measured osmolytes, low molecular zwitterionic compounds derived from amino acids, in...
    Resource Type:
    Masters Thesis
    Full Text:
    : ______________________________________________________ Stephen J. Giovannoni Oceanic carbon cycling plays a major role in determining

  • Single-Cell Genomics of Uncultivated Marine Bacteria

    Creator:
    Landry, Zachary
    Abstract:
    Historically, the difficulty of obtaining pure cultures of abundant marine microbial plankton has an obstacle to reconstructing the underlying mechanisms of biogeochemistry in the ocean. While a number of dominant marine species from the ocean surface have been cultured, the dominant microbial plankton of the dark ocean proved far more...
    Resource Type:
    Dissertation
    Full Text:
    : ______________________________________________________ Stephen Giovannoni Historically, the difficulty of obtaining pure cultures of abundant marine

  • Disturbances in a marine bacterioplankton system drive community assembly towards niche-based processes

    Creator:
    Vergin, Kevin L.
    Abstract:
    Over 100 monthly bacterioplankton DNA samples, from each of the surface and 200 m depths at the Bermuda Atlantic Time-series Study (BATS) site, were analyzed for community assembly processes. Correlation networks, filtered for potential autocorrelation artifacts, were constructed for each depth. Network characteristics for the two depths were remarkably similar...
    Resource Type:
    Masters Thesis
    Full Text:
    . Abstract approved: ______________________________________________________ Stephen J. Giovannoni

  • Metabolism of one carbon (C1) and methylated compounds in SAR11 bacteria

    Creator:
    Sun, Jing
    Abstract:
    SAR11 Alphaproteobacteria are the most abundant aerobic chemoheterotrophs in ocean surface waters. Previous studies have indicated SAR11 cells play an important role in marine carbon cycling and consume up to half of some common dissolved organic compounds, such as amino acids. During sequencing of the first SAR11 genome, genes for...
    Resource Type:
    Dissertation
    Full Text:
    in SAR11 Bacteria Abstract approved: Stephen J. Giovannoni SAR11 Alphaproteobacteria are

  • Genome-enabled investigation of the minimal growth requirements andphosphate metabolism for Pelagibacter marine bacteria

    Creator:
    Carini, Paul J.
    Abstract:
    Members of the SAR11 clade of heterotrophic α-proteobacteria are ubiquitous and abundant in the world's oceans where they are thought to play a pivotal role in the global carbon cycle. The first SAR11 bacterium cultivated in vitro, 'Candidatus Pelagibacter ubique' HTCC1062 (Ca. P. ubique), was isolated by dilution into sterile...
    Resource Type:
    Dissertation
    Full Text:
    Phosphate Metabolism for Pelagibacter Marine Bacteria Abstract approved: Stephen J. Giovannoni

  • Culturing uncultured environmental microorganisms

    Creator:
    Connon, Stephanie A.
    Abstract:
    Research on natural environments, over the last decade, is replete with microbial diversity studies that used culture-independent approaches. The cloning and sequencing of the 16S rRNA genes has been the driving force in the expansion of awareness about the great diversity of previously undiscovered microorganisms. Well-known uncultured groups of microorganisms...
    Resource Type:
    Dissertation
    Full Text:
    Redacted for privacy ACKNOWLEDGMENTS I thank Stephen J. Giovannoni and Lewis Semprini for their

  • Microbial diversity, metabolic potential, and transcriptional activity along the inner continental shelf of the Northeast Pacific Ocean

    Creator:
    Bertagnolli, Anthony D.
    Abstract:
    Continental shelves located along eastern boundary currents occupy relatively small volumes of the world’s oceans, yet are responsible for a large proportion of global primary production. The Oregon coast is among these ecosystems. Recent analyses of dissolved oxygen at shallow depths in the water column has suggested increasing episodes of...
    Resource Type:
    Dissertation
    Full Text:
    : _____________________________________________________ Stephen J. Giovannoni Continental shelves located along eastern boundary currents occupy

  • Marine bacterioplankton abundances and distributions

    Creator:
    Morris, Robert M.
    Abstract:
    Microorganisms play key roles in ocean biogeochemistry. However, several predominant groups of uncultured bacterioplankton thought to contribute to important biogeochemical processes in the oceans are known primarily from gene cloning studies. Although these studies have greatly expanded our view of microbial diversity in the oceans, they are not quantitative and...
    Resource Type:
    Dissertation
    Full Text:
    ', Kevin L. Vergin', William A. Siebold1, Craig A. Carlson2, and Stephen J. Giovannoni' 'Department of

  • The proteomic and transcriptomic responses to iron, sulfur, and nitrogen limitation in the abundant marine bacterium Candidatus Pelagibacter ubique

    Creator:
    Smith, Daniel P.
    Abstract:
    Batch cultures of Candidatus Pelagibacter ubique were grown under iron-, organosulfur-, and nitrogen-limiting conditions to understand how this ubiquitous marine bacterium responds to and interacts with environments where growth is limited by the availability of these nutrients. Global gene expression was monitored using microarrays and quantitative mass spectrometry to observe...
    Resource Type:
    Dissertation
    Full Text:
    Abstract approved: ___________________________________________________ Stephen J. Giovannoni Batch

  • Microbial alteration of the seafloor

    Creator:
    Josef, Jennifer A.
    Abstract:
    In the early 1980's the first evidence of biological alteration of basalt glass (sideromelane) was published. Since that time additional evidence, including DNA staining, isotopic abundance and chemical mapping, has come to light suggesting that this unique alteration of glass can be attributed to microbial activity. Microbial alteration textures have...
    Resource Type:
    Masters Thesis
    Full Text:
    the Seafloor. Abstract approved: Stephen Giovannoni In the early 1980's the first evidence of