Index Catalog // ScholarsArchive@OSU

Development and application of genomic DNA based methods for the identification and characterization of marine bacterioplankton

Creator:: Lanoil, Brian D.
Abstract:: A series of experiments was performed to determine the feasibility of genomic DNA-based methods for ecological and physiological studies of dominant bacteria from complex natural systems. Two approaches, bacterial chromosomal painting (BCP) and environmental genomics (EG), were evaluated for the potential to identify and enumerate specific bacterial groups in situ...
Resource Type:: Dissertation

Understanding chlamydial biology through genome sequencing and comparative genomics

Creator:: Jeffrey, Brendan
Abstract:: The human pathogen Chlamydia trachomatis displays different phenotypes between serovars both in vivo and in vitro. The study of chlamydial biology has been hampered by the lack of a tractable genetic system. Here, chlamydial isolates with known phenotypes as well as strains generated though recombination were fully sequenced to address...
Resource Type:: Dissertation
Full Text:: Biology presented on June 2, 2011. Title: Understanding Chlamydial Biology Through Genome Sequencing

Physiological, proteomic, and whole-genome transcriptional responses of Nitrosomonas europaea to heavy metals (Zn²⁺,Cd²⁺, Cu²⁺, and Hg²⁺) and cyanide : identification of heavy metals and cyanide stress response genes

Creator:: Park, Sunhwa
Abstract:: Nitrosomonas europaea (ATCC19718) participates in the biological removal of nitrogen from wastewater by oxidizing ammonia to nitrite, the first step in nitrification. This bacterium is sensitive to heavy metals (Zn²⁺, Cd²⁺, Cu²⁺, and Hg²⁺) and cyanide, compounds commonly encountered in wastewater treatment plants. Therefore, we characterized physiological and transcriptional responses...
Resource Type:: Dissertation
Full Text:: experiments. cDNA synthesis, labeling, and hybridization were performed by the Center for Genome Research

Conserved properties in the metagenome of a large bacterioplankton population

Creator:: Wilhelm, Larry John
Abstract:: Candidatus Pelagibacter ubique is the first cultured representative of the SAR11 clade, a clade that is found throughout the oceans and accounts for approximately 25% of all bacterial cells [1]. It has a streamlined genome that is the smallest of any known free-living organism. In this study the complete genome...
Resource Type:: Masters Thesis
Full Text:: J. Giovannoni1 1Department of Microbiology. 2Center for Genome Research and

An investigation of carbon and nitrogen metabolism through a genomic analysis of the genus Nitrobacter

Creator:: Starkenburg, Shawn R.
Abstract:: The chemolithoautotrophic nitrite oxidizing bacteria (NOB) participate in the biogeochemical cycling of nitrogen by catalyzing and conserving energy from the oxidation of nitrite (NO₂-) to nitrate (NO₃-) via a nitrite oxidoreductase (NXR). The main objective of this work was to comparatively annotate and analyze the genome sequences of Nitrobacter winogradskyi...
Resource Type:: Dissertation
Full Text:: work was to comparatively annotate and analyze the genome sequences of Nitrobacter winogradskyi NB255

Evolution of a streamlined cooperator in Pseudomonas aeruginosa quorum sensing

Creator:: Huie, Jessica L.
Abstract:: Social behavior leading to the production of common goods is prone to exploitation. One such behavior in Pseudomonas aeruginosa is quorum sensing (QS), by which the bacteria produce signals to regulate extracellular common goods. Exploitation comes in the form of cheaters which have a mutation in the central quorum sensing...
Resource Type:: Masters Thesis
Full Text:: Genome Research and Biocomputing (CGRB). Numerous genes were Table 2. Plasmids used in this study

Genomic-assisted determination of the natural nutrient requirements of the cosmopolitan marine bacterium 'Candidatus Pelagibacter ubique'

Creator:: Tripp, H. James
Abstract:: To identify factors limiting 'Candidatus Pelagibacter ubique' maximum cell density and growth rate in pure culture on seawater, the genome sequence of 'Cand. P. ubique' was analyzed, culturing experiments with organic and inorganic nutrient additions were made, and radiotracer uptake experiments were performed. The genome was sequenced, custom data mining...
Resource Type:: Dissertation
Full Text:: reconstructions discussed in the Science paper on the genome of ‘Cand. P. ubique’ and further research that

Recombination, resistance, and drug discovery in Chlamydia

Creator:: Sandoz, Kelsi
Abstract:: The intracellular life cycle of Chlamydia has been difficult to study due to the inability to genetically manipulate the bacteria. As a result, indirect methods have been employed to study the pathogen and the aspects that contribute to its unique intracellular life cycle. A wide variety of laboratory adapted strains,...
Resource Type:: Dissertation
Full Text:: genome characterization to identify regions targeted by recombination. Through these studies, we show

Characterization of the interaction between Mycobacterium avium subsp. paratuberculosis and bovine epithelial cells in culture and identification of invasion-associated genes by transposon mutagenesis

Creator:: Patel, Dilip
Abstract:: Mycobacterium avium subsp. paratuberculosis (MAP) is a cause of Johne's disease (JD) in cattle and other ruminants. MAP infection in the bovine host is not well characterized. It is assumed that crossing the bovine intestinal mucosa is important for MAP to establish infection. MAP's ability to infect bovine epithelial cells...
Resource Type:: Dissertation
Full Text:: research under his able mentorship. I am thankful to my colleagues in Dr. Goddik's and Dr. Bermudez's lab

Genomics-enabled exploration of insect toxicity in the Pseudomonas fluorescens group

Creator:: Rangel, Lorena I.
Abstract:: Pseudomonas is a diverse genus of Gamma proteobacteria that are ubiquitous in the natural environment, including soil, water, plant surfaces, and animals. The Pseudomonas fluorescens group is a diverse collection of seven subgroups and more than 50 named species. This group is known for their production of a variety of...
Resource Type:: Masters Thesis
Full Text:: Fellowship that funded my first year of work and the Agriculture and Food Research Initiative Competitive

ScholarsArchive@OSU

Development and application of genomic DNA based methods for the identification and characterization of marine bacterioplankton

Understanding chlamydial biology through genome sequencing and comparative genomics

Physiological, proteomic, and whole-genome transcriptional responses of Nitrosomonas europaea to heavy metals (Zn²⁺,Cd²⁺, Cu²⁺, and Hg²⁺) and cyanide : identification of heavy metals and cyanide stress response genes

Conserved properties in the metagenome of a large bacterioplankton population

An investigation of carbon and nitrogen metabolism through a genomic analysis of the genus Nitrobacter

Evolution of a streamlined cooperator in Pseudomonas aeruginosa quorum sensing

Genomic-assisted determination of the natural nutrient requirements of the cosmopolitan marine bacterium 'Candidatus Pelagibacter ubique'

Recombination, resistance, and drug discovery in Chlamydia

Characterization of the interaction between Mycobacterium avium subsp. paratuberculosis and bovine epithelial cells in culture and identification of invasion-associated genes by transposon mutagenesis

Genomics-enabled exploration of insect toxicity in the Pseudomonas fluorescens group

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