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Applications of synthetic biology inspired by natural bacterial functionality.

Record Type:	Language materials, manuscript : Monograph/item
Title/Author:	Applications of synthetic biology inspired by natural bacterial functionality./
Author:	Samayoa, Phillip R.
Description:	1 online resource (157 pages)
Notes:	Source: Dissertation Abstracts International, Volume: 76-02(E), Section: B.
Contained By:	Dissertation Abstracts International76-02B(E).
Subject:	Biomedical engineering. -
Online resource:	click for full text (PQDT)
ISBN:	9781321183146

Applications of synthetic biology inspired by natural bacterial functionality.
Samayoa, Phillip R.

Applications of synthetic biology inspired by natural bacterial functionality. - 1 online resource (157 pages)

Source: Dissertation Abstracts International, Volume: 76-02(E), Section: B.

Thesis (Ph.D.)

Includes bibliographical references

This item is not available from ProQuest Dissertations & Theses.

Synthetic biology has enabled the engineering of biological networks capable of producing quantitatively predictable, dynamic function in a host organism. Advanced synthetic toolkits have been developed and applied within model bacterial systems to construct functional assemblies of biological parts that toggle (Gardner et al., 2000), oscillate (Elowitz and Leibler, 2000; Stricker et al., 2008; Danino et al., 2010), control cellular populations (You et al., 2004) and trigger host responses (Lu and Collins, 2007), form logical gates (Tamsir et al., 2010; Moon et al., 2012), perform arithmetic operations (Friedland et al., 2009), filter signals (Sohka et al., 2009) and sense complex environmental cues (Tabor et al., 2009; Kobayashi et al., 2004). This diverse set of genetic circuit designs, varying in complexity and host, have further been applied to systematically engineer biological systems towards applications in biosynthesis, environmental remediation, intracellular diagnostics, and therapeutics. Amidst this rapid expansion of tools and extensive demonstration of complex functional capabilities, the lack of commercially translatable technologies thus far reflects a looming challenge for the field. Specifically, an integrated synthetic design must go beyond matching signal levels between interacting circuits in model organisms. It must also function effectively across relevant spatial scales and among industrial hosts, for which the genetic circuit must predictably integrate with the host's regulatory and metabolic biology. In this thesis, we focus on constructing scalable synthetic circuits that are inspired by the natural functionality of bacteria and translatable into commercially relevant hosts. Here we discuss host selection, modeling, design, construction, and characterization of gene circuits towards applications in biosensing and protein production. In Chapter One, we give an introduction to the field of synthetic biology and how our research area fits into this discipline. In Chapter Two, I describe a circuit design that leverages native regulatory components of bacteria to produce a scalable frequency modulated biosensor. In Chapter Three, I demonstrate further functionalities of quorum sensing signaling in bacteria. In Chapter Four, we discuss the translation of synthetic circuits to a therapeutically relevant host. In Chapter Five, I present an integrated approach to engineer industrially relevant cyanobacteria for efficient protein production. These sections combine to expand our approach in engineering natural biological systems towards directed, translatable applications.

Electronic reproduction.
Ann Arbor, Mich. :
ProQuest,
2018

Mode of access: World Wide Web

ISBN: 9781321183146Subjects--Topical Terms:

588770
Biomedical engineering.
Index Terms--Genre/Form:

554714
Electronic books.

Applications of synthetic biology inspired by natural bacterial functionality.
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245 1 0 $a Applications of synthetic biology inspired by natural bacterial functionality.
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500 $a Source: Dissertation Abstracts International, Volume: 76-02(E), Section: B.
500 $a Advisers: Jeff Hasty; Ruth Williams.
502 $a Thesis (Ph.D.) $c University of California, San Diego $d 2014.
504 $a Includes bibliographical references
506 $a This item is not available from ProQuest Dissertations & Theses.
520 $a Synthetic biology has enabled the engineering of biological networks capable of producing quantitatively predictable, dynamic function in a host organism. Advanced synthetic toolkits have been developed and applied within model bacterial systems to construct functional assemblies of biological parts that toggle (Gardner et al., 2000), oscillate (Elowitz and Leibler, 2000; Stricker et al., 2008; Danino et al., 2010), control cellular populations (You et al., 2004) and trigger host responses (Lu and Collins, 2007), form logical gates (Tamsir et al., 2010; Moon et al., 2012), perform arithmetic operations (Friedland et al., 2009), filter signals (Sohka et al., 2009) and sense complex environmental cues (Tabor et al., 2009; Kobayashi et al., 2004). This diverse set of genetic circuit designs, varying in complexity and host, have further been applied to systematically engineer biological systems towards applications in biosynthesis, environmental remediation, intracellular diagnostics, and therapeutics. Amidst this rapid expansion of tools and extensive demonstration of complex functional capabilities, the lack of commercially translatable technologies thus far reflects a looming challenge for the field. Specifically, an integrated synthetic design must go beyond matching signal levels between interacting circuits in model organisms. It must also function effectively across relevant spatial scales and among industrial hosts, for which the genetic circuit must predictably integrate with the host's regulatory and metabolic biology. In this thesis, we focus on constructing scalable synthetic circuits that are inspired by the natural functionality of bacteria and translatable into commercially relevant hosts. Here we discuss host selection, modeling, design, construction, and characterization of gene circuits towards applications in biosensing and protein production. In Chapter One, we give an introduction to the field of synthetic biology and how our research area fits into this discipline. In Chapter Two, I describe a circuit design that leverages native regulatory components of bacteria to produce a scalable frequency modulated biosensor. In Chapter Three, I demonstrate further functionalities of quorum sensing signaling in bacteria. In Chapter Four, we discuss the translation of synthetic circuits to a therapeutically relevant host. In Chapter Five, I present an integrated approach to engineer industrially relevant cyanobacteria for efficient protein production. These sections combine to expand our approach in engineering natural biological systems towards directed, translatable applications.
533 $a Electronic reproduction. $b Ann Arbor, Mich. : $c ProQuest, $d 2018
538 $a Mode of access: World Wide Web
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650 4 $a Bioinformatics. $3 583857
655 7 $a Electronic books. $2 local $3 554714
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710 2 $a University of California, San Diego. $b Bioinformatics. $3 1184270
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