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dc.contributor.authorMcCain, J Scott P
dc.date.accessioned2021-12-16T14:23:00Z
dc.date.available2021-12-16T14:23:00Z
dc.date.issued2021-12-16T14:23:00Z
dc.identifier.urihttp://hdl.handle.net/10222/81092
dc.description.abstractPhytoplankton fuel biogeochemical processes in the ocean and are key players influencing the global climate. All biogeochemical processes mediated by microbes are ultimately underpinned by gene expression. In this thesis, I aim to connect gene expression to biogeochemically important cellular processes in Southern Ocean phytoplankton. First, I identify and model pervasive biases in metaproteomic analyses and develop methods for overcoming them, leading to more robust inferences (Chapter 2 and Chapter 3). In Chapter 2, I develop a computational model for predicting cofragmentation bias and use this model to study how cofragmentation impacts inferences in metaproteomics. In Chapter 3, I delineate ‘proteomic traits’ across microbial taxa in an Antarctic phytoplankton bloom, connecting differences in gene expression patterns to ecological strategies. I also highlight the importance of database choice and quantify its implications for metaproteomic conclusions. In Chapter 4, I develop a proteomic allocation model to quantify trade-offs associated with iron and manganese bioavailability, and reframe micronutrient-controlled growth in the ocean as a function of cellular costs and constraints. This model offers a novel framework for leveraging metaproteomic data to learn about cellular processes in phytoplankton and for inferring taxon-specific rates and biogeochemical metrics. A key unknown in this model is the various antioxidant systems used by phytoplankton. I, therefore, review various antioxidant mechanisms and synthesize their contributions to cellular elemental stoichiometry in phytoplankton (Chapter 5). Finally, in Chapter 6, I use metaproteomics to determine environmental controls on ribosomal mass fraction across two taxonomic groups in the Amundsen Sea Polynya.en_US
dc.language.isoenen_US
dc.subjectPhytoplanktonen_US
dc.subjectMetaproteomicsen_US
dc.subjectMicronutrientsen_US
dc.subjectBiological Oceanographyen_US
dc.subjectAntioxidantsen_US
dc.subjectCellular modellingen_US
dc.titleUsing metaproteomes and models to quantify cellular trade-offs in phytoplanktonen_US
dc.date.defence2021-12-03
dc.contributor.departmentDepartment of Biologyen_US
dc.contributor.degreeDoctor of Philosophyen_US
dc.contributor.external-examinerRalf Steueren_US
dc.contributor.graduate-coordinatorSophia Stoneen_US
dc.contributor.thesis-readerChristopher Algaren_US
dc.contributor.thesis-readerRobert Beikoen_US
dc.contributor.thesis-readerJulie LaRocheen_US
dc.contributor.thesis-supervisorErin Bertranden_US
dc.contributor.ethics-approvalNot Applicableen_US
dc.contributor.manuscriptsYesen_US
dc.contributor.copyright-releaseYesen_US
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