Penn State University
Islam, Mohammad Mazharul.
Metabolic modeling of microbial communities.
Degree: MS, Chemical Engineering, 2014, Penn State University
Most microbial communities change with time in
response to changes and/or perturbations in environmental
conditions. The temporal variations in inter-species metabolic
interactions within these communities can significantly affect
their structure and function. Here, I introduce d-OptCom, an
extension of the OptCom procedure, for the dynamic metabolic
modeling of microbial communities. It enables capturing the
temporal dynamics of biomass concentration of the community members
and extracellular concentration of the shared metabolites, while
integrating species- and community-level fitness functions. The
applicability of d-OptCom was demonstrated by modeling the dynamic
co-growth of a number of auxotrophic mutant pairs of E. coli and by
computationally assessing the dynamics and composition of a
uranium-reducing community comprised of Geobacter sulfurreducens,
Rhodoferax ferireducens and Shewanella oneidensis. d-OptCom was
also employed to examine the impact of lactate vs. acetate addition
on the relative abundance of uranium reducing species. These
studies highlight the importance of simultaneously accounting for
both species- and community-level fitness functions when modeling
microbial communities and demonstrate that the incorporation of
uptake kinetic information can substantially improve the prediction
of inter-species flux trafficking. Overall, this study paves the
way for the dynamic multi-objective analysis of microbial
Subjects/Keywords: dynamic; microbial communities; modeling; d-OptCom;
Uranium reduction; Auxotrophic mutants. metabolic
to Zotero / EndNote / Reference
APA (6th Edition):
Islam, M. M. (2014). Metabolic modeling of microbial communities. (Masters Thesis). Penn State University. Retrieved from https://etda.libraries.psu.edu/catalog/20510
Chicago Manual of Style (16th Edition):
Islam, Mohammad Mazharul. “Metabolic modeling of microbial communities.” 2014. Masters Thesis, Penn State University. Accessed September 15, 2019.
MLA Handbook (7th Edition):
Islam, Mohammad Mazharul. “Metabolic modeling of microbial communities.” 2014. Web. 15 Sep 2019.
Islam MM. Metabolic modeling of microbial communities. [Internet] [Masters thesis]. Penn State University; 2014. [cited 2019 Sep 15].
Available from: https://etda.libraries.psu.edu/catalog/20510.
Council of Science Editors:
Islam MM. Metabolic modeling of microbial communities. [Masters Thesis]. Penn State University; 2014. Available from: https://etda.libraries.psu.edu/catalog/20510