RNA-based portable genetic circuits and synthetic plasmids

Simple item page
dc.contributor.advisorChappell, Jamesen_US
dc.creatorLiu, Baiyangen_US
dc.date.accessioned2024-01-24T22:37:57Zen_US
dc.date.available2024-01-24T22:37:57Zen_US
dc.date.created2023-12en_US
dc.date.issued2023-11-09en_US
dc.date.submittedDecember 2023en_US
dc.date.updated2024-01-24T22:37:57Zen_US
dc.descriptionEMBARGO NOTE: This item is embargoed until 2025-12-01en_US
dc.description.abstractThe lack of modularity impedes the creation of synthetic biological systems at the same level of complexity as modern electronic systems, which can contain millions of logic gates. Recently, the development of novel RNA regulators poses an opportunity to overcome this challenge. In this thesis work, we aim to use RNA-based strategies to improve the modularity of biological systems on three different levels: chassis modularity, circuit modularity, and part modularity. Firstly, we verify the portability of Small Transcription Activating RNA (STAR) regulatory system in diverse Gram-negative bacteria. Then we break the chassis barrier by creating a regulatory RNA array design that allows for the construction of portable RNA-based circuits in multiple bacteria. Secondly, we propose an RNA compensation strategy to mitigate the retroactivity generated by the interconnection of multiple modules in RNA-based circuits. The insulation strategy is computationally proven to be effective not only in static modules but also in dynamic RNA-based circuits. Lastly, we develop synthetic plasmid origin of replication (SynOri) through the refactoring and reengineering of natural plasmid pMB1. The replication mechanism of pMB1 is replaced by pT181 RNA attenuator which allows the creation of modular plasmid library and plasmid replication-based circuits.en_US
dc.embargo.lift2025-12-01en_US
dc.embargo.terms2025-12-01en_US
dc.format.mimetypeapplication/pdfen_US
dc.identifier.citationLiu, Baiyang. "RNA-based portable genetic circuits and synthetic plasmids." (2023). PhD diss., Rice University. https://hdl.handle.net/1911/115408en_US
dc.identifier.urihttps://hdl.handle.net/1911/115408en_US
dc.language.isoengen_US
dc.rightsCopyright is held by the author, unless otherwise indicated. Permission to reuse, publish, or reproduce the work beyond the bounds of fair use or other exemptions to copyright law must be obtained from the copyright holder.en_US
dc.subjectRNAen_US
dc.subjectGenetic Circuitsen_US
dc.subjectSynthetic Biologyen_US
dc.subjectPlasmiden_US
dc.titleRNA-based portable genetic circuits and synthetic plasmidsen_US
dc.typeThesisen_US
dc.type.materialTexten_US
thesis.degree.departmentSystems, Synthetic and Physical Biologyen_US
thesis.degree.disciplineSystems/Synthetic/Phys Biologyen_US
thesis.degree.grantorRice Universityen_US
thesis.degree.levelDoctoralen_US
thesis.degree.nameDoctor of Philosophyen_US
Files
Original bundle
Now showing 1 - 1 of 1
No Thumbnail Available
Name:
LIU-DOCUMENT-2023.pdf
Size:
23.05 MB
Format:
Adobe Portable Document Format
Download
License bundle
Now showing 1 - 2 of 2
No Thumbnail Available
Name:
PROQUEST_LICENSE.txt
Size:
5.84 KB
Format:
Plain Text
Description:
Download
No Thumbnail Available
Name:
LICENSE.txt
Size:
2.98 KB
Format:
Plain Text
Description:
Download
Collections
Rice University Theses and Dissertations