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" A Systems-Level Investigation of the Metabolism of Dehalococcoides mccartyi and the Associated Microbial Community "
Mohammad Ahsanul Islam
Mahadevan, Radhakrishnan; Edwards, Elizabeth A.
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Latin Dissertation
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| Language of Document
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English
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| Record Number
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804072
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| Doc. No
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TL48885
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| Call number
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1814774331; 10129056
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| Main Entry
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Cobb, Gavin
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| Title & Author
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A Systems-Level Investigation of the Metabolism of Dehalococcoides mccartyi and the Associated Microbial Community\ Mohammad Ahsanul IslamMahadevan, Radhakrishnan; Edwards, Elizabeth A.
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| College
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University of Toronto (Canada)
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| Date
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2014
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| Degree
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Ph.D.
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| field of study
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Chemical Engineering and Applied Chemistry
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| student score
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2014
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| Page No
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261
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| Note
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Committee members: Master, Emma R.; Provart, Nicholas J.; Yakunin, Alexander F.; de-crecy Laggard, Valerie
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| Note
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Place of publication: United States, Ann Arbor; ISBN=978-1-339-87034-2
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| Abstract
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<i>Dehalococcoides mccartyi</i> are a group of strictly anaerobic bacteria important for the detoxification of man-made chloro-organic solvents, most of which are ubiquitous, persistent, and often carcinogenic ground water pollutants. These bacteria exclusively conserve energy for growth from a pollutant detoxification reaction through a novel metabolic process termed organohalide respiration. However, this energy harnessing process is not well elucidated at the level of <i>D. mccartyi</i> metabolism. Also, the underlying reasons behind their robust and rapid growth in mixed consortia as compared to their slow and inefficient growth in pure isolates are unknown. To obtain better insight on <i>D. mccartyi</i> physiology and metabolism, a detailed pan-genome-scale constraint-based mathematical model of metabolism was developed. The model highlighted the energy-starved nature of these bacteria, which probably is linked to their slow growth in isolates. The model also provided a useful framework for subsequent analysis and visualization of high-throughput transcriptomic data of <i>D. mccartyi </i>. Apart from confirming expression of the majority genes of these bacteria, this analysis helped review the annotations of metabolic genes. Revised annotations of two such metabolic genes — NADP<sup>+</sup>-isocitrate dehydrogenase and phosphomannose isomerase — were then experimentally verified. Finally, growth experiments were performed with a <i>D. mccartyi </i>-containing anaerobic mixed enrichment culture to explore the effects of exogenous vitamin omission from the growth medium on <i>D. mccartyi </i> and the associated microbial community. The experiments showed how nutritional requirements of these bacteria changed the composition and dynamics of their associated microbial community. Overall, a systems-level approach was used in this research to obtain a fundamental and critical understanding of the metabolism and physiology of <i>D. mccartyi</i> in isolates, as well as in microbial communities they naturally inhabit. The results presented in this thesis, therefore, will help design effective strategies for future bioremediation efforts by <i>D. mccartyi</i>.
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| Subject
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Biochemistry; Biomedical engineering; Bioinformatics; Environmental engineering
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| Descriptor
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Pure sciences;Biological sciences;Applied sciences;Bioremediation;Dehalococcoides mccartyi;Genome-scale model;Metabolic network
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| Added Entry
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Mahadevan, Radhakrishnan; Edwards, Elizabeth A.
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| Added Entry
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Chemical Engineering and Applied ChemistryUniversity of Toronto (Canada)
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