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  • A genomic and proteomic characterization of the first cultured oligotrophic marine Gammaproteobacterium from the SAR92 clade

    Creator:
    Mellbye, Brett L.
    Abstract:
    High-throughput culturing (HTC) consisting of extinction culturing in autoclaved seawater has led to the isolation and characterization of many novel strains of oligotrophic marine bacteria. Strain HTCC 2207 was isolated from the Oregon coast by the HTC method. Phylogenetic analysis based on 16S rRNA gene sequence showed that this strain...
    Resource Type:
    Honors College Thesis
    Full Text:
    strains of oligotrophic marine bacteria. Strain HTCC 2207 was isolated from the Oregon coast by the HTC

  • Prokaryotes associated with marine crust

    Creator:
    Mason, Olivia Underwood
    Abstract:
    Oceanic crust covers nearly 70% of the Earth's surface, of which, the upper, sediment layer is estimated to harbor substantial microbial biomass. Marine crust; however, extends several kilometers beyond this surficial layer, and includes the basalt and gabbro layers. In particular, the basalt layer has high permeabilities which allows for...
    Resource Type:
    Dissertation
    Full Text:
    . .......................................................................................................... 3 Figure 2.1. Overview of the Bacteria and Archaea associated with marine basalts

  • Proteomic analyses of marine bacteria

    Creator:
    Sowell, Sarah M.
    Abstract:
    Proteins are the metabolic machines of the cell and as such, the study of proteins could illuminate the dominant biological activities that are occurring within cells and reveal how an organism interacts with its environment. Here, we used proteomic techniques to study the abundant marine bacterium SAR11 both as an...
    Resource Type:
    Dissertation
    Full Text:
    Cellular Biology presented on August 28, 2008. Title: Proteomic Analyses of Marine Bacteria

  • 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:
    environmental conditions, marine bacteria may bloom into toxic red tides, produce anoxic conditions lethal to

  • Effect of high pressure processing on the survival of Vibrio parahaemolyticus strains in pure culture and Pacific oysters

    Creator:
    Calik, Hakan
    Abstract:
    Different strains of Vibrio parahaemolyticus (Vp) in broth cultures and Vp-inoculated live Pacific oysters (Crassostrea gigas) were subjected to high pressure processing (HPP) at 241, 276, 310, and 345 MPa. Results showed Vp numbers were reduced by HPP in both pure culture and whole oysters. Vp inactivation was dependent on...
    Resource Type:
    Masters Thesis
    Full Text:
    , rod-shaped bacteria naturally present in marine water with an extremely short generation time

  • 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:
    , which have identified several groups of marine bacteria that are thought to be abundant in seawater1

  • A study on the effects of enhanced pCO2 on open ocean diazotrophic assemblages

    Creator:
    Gradoville, Mary Rose
    Abstract:
    Biological di-nitrogen (N₂) fixation is a key process in open-ocean ecosystems, where the new nitrogen (N) provided by marine diazotrophs can support a large fraction of primary productivity and carbon (C) drawdown. Recent laboratory studies have shown that elevated pCO₂ enhances the rate of N₂ fixation by select laboratory isolates...
    Resource Type:
    Masters Thesis
    Full Text:
    ecosystems, where the new nitrogen (N) provided by marine diazotrophs can support a large fraction of

  • 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

  • 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:
    .............................................................................................. 16 2. One Carbon Metabolism in SAR11 Pelagic Marine Bacteria

  • 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:
    : Disturbances in a Marine Bacterioplankton System Drive Community Assembly Towards Niche-based Processes