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COMBINING HIGH-THROUGHPUT IMAGING AND AMPLICON SEQUENCING TO MONITOR EUKARYOTIC PLANKTON

dc.contributor.authorMacNeil, Liam
dc.contributor.copyright-releaseYesen_US
dc.contributor.degreeMaster of Scienceen_US
dc.contributor.departmentDepartment of Biologyen_US
dc.contributor.ethics-approvalNot Applicableen_US
dc.contributor.external-examinerConnie Lovejoyen_US
dc.contributor.graduate-coordinatorPaul Bentzenen_US
dc.contributor.manuscriptsYesen_US
dc.contributor.thesis-readerMaycira Costaen_US
dc.contributor.thesis-readerThomas Trappenbergen_US
dc.contributor.thesis-supervisorJulie LaRocheen_US
dc.date.accessioned2021-08-06T14:36:55Z
dc.date.available2021-08-06T14:36:55Z
dc.date.defence2021-06-29
dc.date.issued2021-08-06T14:36:55Z
dc.description.abstractMicrobial communities support ocean food webs and respond to the surrounding environment to varying degrees across different time scales. The eukaryotic plankton throughout the oceans are extraordinarily diverse but difficult to monitor using conventional tools. A next generation of ocean observations are possible but remain unrealized to monitor eukaryotic plankton directly from the ocean using high-throughput measurements. In this thesis, I apply digital holography and amplicon sequencing to describe diverse community compositions of micro-mesoplankton. First, I evaluate automatic classification of micro-mesoplankton from seawater and monocultures using a deployable digital in-line holographic microscope and state-of-the-art classification algorithms. Second, I quantify and barcode the micro-mesoplankton community across transects of the Newfoundland Shelf. These results confirm digital in-line holographic microscopes can yield rapid, high-quality plankton images under multiple in-situ conditions, that benchmark image recognition tools are highly transferrable to plankton images, and that paired high-throughput amplicon sequencing yields different, although complementary surveys.en_US
dc.identifier.urihttp://hdl.handle.net/10222/80648
dc.language.isoenen_US
dc.subjectPlankton Imagingen_US
dc.subjectHolographic Microscopyen_US
dc.subjectEnvironmental DNAen_US
dc.subjectAmplicon Sequencingen_US
dc.subjectDeep Learningen_US
dc.subjectAutomatic Classificationen_US
dc.titleCOMBINING HIGH-THROUGHPUT IMAGING AND AMPLICON SEQUENCING TO MONITOR EUKARYOTIC PLANKTONen_US

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