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dc.contributor.advisorGao, Xin
dc.contributor.authorXu, Xiaopeng
dc.date.accessioned2015-05-12T13:37:56Z
dc.date.available2016-05-12T00:00:00Z
dc.date.issued2015-05-12
dc.identifier.citationXu, X. (2015). Flux Balance Analysis of Escherichia coli under Temperature and pH Stress Conditions. KAUST Research Repository. https://doi.org/10.25781/KAUST-A4IY4
dc.identifier.doi10.25781/KAUST-A4IY4
dc.identifier.urihttp://hdl.handle.net/10754/552665
dc.description.abstractAn interesting discovery in biology is that most genes in an organism are dispensable. That means these genes have minor effects on survival of the organism in standard laboratory conditions. One explanation of this discovery is that some genes play important roles in specific conditions and are essential genes under those conditions. E. coli is a model organism, which is widely used. It can adapt to many stress conditions, including temperature, pH, osmotic, antibiotic, etc. Underlying mechanisms and associated genes of each stress condition responses are usually different. In our analysis, we combined protein abundance data and mutant conditional fitness data into E. coli constraint-based metabolic models to study conditionally essential metabolic genes under temperature and pH stress conditions. Flux Balance Analysis was employed as the modeling method to analysis these data. We discovered lists of metabolic genes, which are E. coli dispensable genes, but conditionally essential under some stress conditions. Among these conditionally essential genes, atpA in low pH stress and nhaA in high pH stress found experimental evidences from previous studies. Our study provides new conditionally essential gene candidates for biologists to explore stress condition mechanisms.
dc.language.isoen
dc.subjectflux balance analysis
dc.subjectstress condition
dc.subjectMetabolic modeling
dc.subjectflux variability analysis
dc.titleFlux Balance Analysis of Escherichia coli under Temperature and pH Stress Conditions
dc.typeThesis
dc.contributor.departmentComputer, Electrical and Mathematical Science and Engineering (CEMSE) Division
dc.rights.embargodate2016-05-12
thesis.degree.grantorKing Abdullah University of Science and Technology
dc.contributor.committeememberSolovyev, Victor
dc.contributor.committeememberBajic, Vladimir B.
thesis.degree.disciplineComputer Science
thesis.degree.nameMaster of Science
dc.rights.accessrightsAt the time of archiving, the student author of this thesis opted to temporarily restrict access to it. The full text of this thesis became available to the public after the expiration of the embargo on 2016-05-12.
refterms.dateFOA2016-05-12T00:00:00Z


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