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  • Bacterial Predation in Host Microbiomes

    Creator:
    Welsh, Rory M.
    Abstract:
    In host-associated microbiomes, the mechanisms that regulate community composition or the principles that govern dynamics remain far from clear. However, understanding how the structure of microbial communities shift as the system moves away from a healthy state is critical to assessing disease progression and to formulate any potential mitigation strategy....
    Resource Type:
    Dissertation
    Full Text:
    Bacterial Predation in Host Microbiome

  • Harnessing Heterogeneity in Human Gut Microbiome Data

    Creator:
    Tataru, Christine
    Abstract:
    The focus of this thesis is to design, characterize, and apply novel computational methods and molecular systems to interrogate heterogeneous human gut microbiome-related phenomena. In Chapter 2, I design, implement, and characterize a method for embedding co-occurrence patterns derived from massive 16s amplicon datasets. I use this method to 1....
    Resource Type:
    Dissertation
    Full Text:
    : Harnessing Heterogeneity in Human Gut Microbiome Data Abstract approved: Maude M. David The focus of this

  • Transformers for representing microbiome data: an empirical evaluation

    Creator:
    Varma, Rohan
    Abstract:
    As the link between human microbiomes and health has become more established, the interest in applying statistical approaches to microbiome data to understand the mechanisms behind these links has grown. However, microbiome data is often of unmanageable size, and consequently, producing quality lower dimensional representations of samples is a significant...
    Resource Type:
    Honors College Thesis
    Full Text:
    Transformers for representing microbiome data: an empirical

  • Structure and Dynamics of the Canine (Canis familiaris) Nasal Microbiome

    Creator:
    Knorr, Elizabeth
    Abstract:
    The diverse community of bacteria living within and on host organisms, known as the microbiome, has an important role in maintaining host health. Dysbiosis, known as a change in the healthy community of the microbiome, has been associated with a number of diseases across host organisms and body sites including...
    Resource Type:
    Dissertation
    Full Text:
    Microbiome Abstract approved: ______________________________________________________ Benjamin D

  • Effects of Anthropogenic Stressors on Seagrass and Coral Microbiomes

    Creator:
    Wang, Lu
    Abstract:
    Seagrasses and coral reefs play important roles in nutrient cycling, coastal protection, and maintaining marine biodiversity. However, these coastal marine organisms are declining globally due to anthropogenic stressors, such as rising ocean temperatures, ocean acidification, and eutrophication. These organisms live in close association with their microbiomes, which can be beneficial...
    Resource Type:
    Dissertation
    Full Text:
    siderea associated with thermal stress, and changes in the microbiome associated with diseased corals

  • Scratching the Surface of the Potato Geocaulosphere: Characterizing the Microbiome of Seed Tuber Tare Soil and its Impact on the Rhizosphere Microbiome

    Creator:
    Delventhal, Kayla D.
    Abstract:
    For tuberizing crops like potato (Solanum tuberosum), the geocaulosphere, or the zone of soil in contact with and influenced by the tuber, is a distinct sphere of microbial life and represents an important interface between the potato crop and the soil environment. Upon potato harvest, specific geocaulosphere soil called tare...
    Resource Type:
    Masters Thesis
    Full Text:
    : Scratching the Surface of the Potato Geocaulosphere: Characterizing the Microbiome of Seed Tuber Tare Soil

  • From Microbes to Megafauna: The Ecology of Gut Microbiomes in Wild Herbivores

    Creator:
    Couch, Claire E.
    Abstract:
    All mammals host communities of commensal microbes in and on their bodies. Recent technological advances, combined with experimental studies in laboratory animals, are beginning to reveal the ubiquitous links between the gut microbiome and host disease, metabolism, immunity, and numerous other host functions. A new challenge of microbiome research is...
    Resource Type:
    Dissertation
    Full Text:
    between the gut microbiome and host disease, metabolism, immunity, and numerous other host functions

  • Comparative Metagenomic Investigations Link the Functional Capacity of the Gut Microbiome to Vertebrate Physiology

    Creator:
    Armour, Courtney R.
    Abstract:
    Microscopic organisms inhabit virtually every niche on this planet, where they perform functions vital to all life on earth. Accordingly, humans host a complex community of microorganisms (i.e. the gut microbiome) that inhabit the gastrointestinal tract and modulate host physiology. Insight into the specific mechanisms through which gut microbes influence...
    Resource Type:
    Dissertation
    Full Text:
    Gut Microbiome to Vertebrate Physiology Abstract approved

  • Reef Microbiomes of Mo'orea, French Polynesia, a Socio-Ecological Island System

    Creator:
    McConnell, Kaitlin M.
    Abstract:
    At a time of rapid global change, a socio-ecological system (SES) approach can provide a framework through which to quantify and communicate the risks and uncertainties of coupled human-natural systems. Islands, and tropical coral reef islands in particular, can be excellent models for SES research since they may be considered...
    Resource Type:
    Masters Thesis
    Full Text:
    across a tropical coral island reefscape, where I hypothesized: Microbiome host, habitat and sampling

  • The Gut Microbiome Drives Benzo[a]pyrene's Impact on Zebrafish Behavioral Development

    Creator:
    Sieler, Michael J.
    Abstract:
    Benzo[a]pyrene (B[a]P) is a common environmental pollutant produced from the incomplete combustion of organic matter, such as fossil fuel emissions. In vertebrates, B[a]P exposure is associated with hyperactivity, though the underlying mechanisms driving this effect are undescribed. Mounting evidence indicates that the gut microbiome, which is the diverse community of...
    Resource Type:
    Undergraduate Thesis
    Full Text:
    The Gut Microbiome Drives Benzo[a]pyrene's Impact on