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dc.contributor.advisorLange, Bernd M
dc.creatorJohnson, Sean Robert
dc.date.accessioned2017-06-19T17:44:28Z
dc.date.available2017-06-19T17:44:28Z
dc.date.issued2016
dc.identifier.urihttp://hdl.handle.net/2376/12072
dc.descriptionThesis (Ph.D.), Molecular Biosciences, Washington State Universityen_US
dc.description.abstractPlant natural products are useful for many different applications, including medicines, flavors and fragrances, and industrial uses. Two important aspects of plant natural products research are the identification of compounds in their source plants, and the characterization of the processes involved in their biosynthesis. To aid in the identification of plant natural products, we developed the Spektraris family of databases. These databases include high-performance liquid chromatography mass spectrometry data, and 13C and 1H nuclear magnetic resonance data, which are searchable through an online interface. The utility of Spektraris was validated by using it to identify compounds in plant extracts and as part of a workflow to elucidate the structure of a previously undescribed compound. Mints have a long history of use as model systems for studying the processes of terpene natural products biosynthesis in specialized plant tissues. The mint family (Lamiaceae), synthesizes and stores volatile terpenes in glandular trichomes. Using a comparative transcriptomic approach, we identified differences in gene expression of monoterpene biosynthetic genes among mint species with different oil profiles. We also assembled the genome of a mint species, Mentha longifolia. The genome assembly will be valuable for future mint research. To further investigate biosynthetic processes in mint, I developed a detailed mathematical model of the metabolism of peppermint glandular trichomes. The model incorporates multiple sources of data, including transcriptome data, metabolite data, enzymatic data from the peppermint literature, and previously developed models of plant metabolism. The creation of a new metabolic modeling software package, called YASMEnv, facilitated construction of the model. Model-based simulated reaction knockouts using flux balance analysis revealed that fermentation may be important for ATP regeneration in secretory phase glandular trichomes. Follow up experiments confirmed high levels of alcohol dehydrogenase activity in secretory phase isolated trichomes. Simulations also supported an essential role for ferredoxin and ferredoxin-NADP reductase. Transcriptome analysis revealed the presence of an isoform of ferredoxin in trichomes distinct from the one expressed in root. The presence of a distinct ferredoxin isoform in trichomes supports the hypothesis that selection pressure for efficient natural products biosynthesis may also act on the enzymes of primary metabolism.en_US
dc.description.sponsorshipWashington State University, Molecular Biosciencesen_US
dc.languageEnglish
dc.rightsIn copyright
dc.rightsPublicly accessible
dc.rightsopenAccess
dc.rights.urihttp://rightsstatements.org/vocab/InC/1.0/
dc.rights.urihttp://www.ndltd.org/standards/metadata
dc.rights.urihttp://purl.org/eprint/accessRights/OpenAccess
dc.subjectPlant sciences
dc.subjectBiochemistry
dc.subjectBioinformatics
dc.subjectdatabase
dc.subjectflux balance analysis
dc.subjectglandular trichome
dc.subjectNuclear magnetic resonance
dc.subjectpeppermint
dc.subjectstoichiometric model
dc.titleDevelopment and Application of Spectral Databases and Mathematical Models in the Study of Plant Natural Products Biosynthesis
dc.typeElectronic Thesis or Dissertation


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