Genome refactoring
By: Natalie Kuldell and Neal Lerner
Contributors: Lerner, Neal
Series: Synthesis lectures on synthetic biology -- # 1
Publisher: Morgan & Claypool Publishers
Published: 2009
Place of publication: San Rafael, Calif. (1537 Fourth Street, San Rafael, CA 94901 USA)
Language: eng
Format: [electronic resource] /
ISBN-13: 9781598299489; 9781598299472
Subjects: Genetics; Viral genomes; Genetic engineering; Bacteriophages
Other titles: Synthesis digital library of engineering and computer science.
Description: The science of biology celebrates the discovery and understanding of biological systems that already exist in nature. In parallel, the engineering of biology must learn how to make use of our understanding of the natural world to design and build new useful biological systems. "Synthetic biology" represents one example of recent work to engineer biological systems. This emerging field aims to replace the ad hoc process of assembling biological systems by primarily developing tools to assemble reliable-but-complex living organisms from standard components that can later be reused in new combination. The focus of this book is "genome refactoring," one of several approaches to manage the complexity of a biological system in which the goal is to redesign the genetic elements that encode a living form--preserving the function of that form but encoding it with a genome far easier to study and extend. This book presents genome refactoring in two ways: as an important aspect of the emerging field of synthetic biology and as a powerful teaching tool to train would be professionals in the subject. Chapters focus on the overarching goals of synthetic biology and their alignment with the motivations and achievements in genome engineering; the engineering frameworks of refactoring, including genome synthesis, standardization of biological parts, and abstraction; a detailed description of the bacteriophages that have been refactored up to this point; and the methods of refactoring and contexts for that work drawn from the bacteriophage M13. Overall, these examples offer readers the potential for synthetic biology and the areas in need of further research. If successful, synthetic biology and genome refactoring could address any number of persistent societal needs, including sustainable energy, affordable and effective medicine, and green manufacturing practices.
Notes: Part of: Synthesis digital library of engineering and computer science.

Title from PDF t.p. (viewed on August 9, 2009).

Series from website.

Includes bibliographical references.

Abstract freely available; full-text restricted to subscribers or individual document purchasers.

Also available in print.

Mode of access: World Wide Web.

System requirements: Adobe Acrobat reader.
Table of contents: title: Tools for genome engineering and synthetic biology; title: Introduction; title: DNA synthesis; title: Abstraction as a tool for managing and understanding biological complexity; title: Standards; title: Genome refactoring in the service of synthetic biology; title: References; title: Bacteriophage as templates for refactoring; title: Introduction; title: T7 background; title: Rebuilding T7; title: M13 background; title: Rebuilding M13; title: Reflection on M13 refactoring; title: References; title: Methods/teaching protocols for M13 reengineering; title: Introduction; title: Goals and outcomes for "simple" genetic engineering of M13; title: Goals and outcomes for refactoring M13; title: References; title: Writing and speaking as biological engineers; title: Introduction; title: Communications-intensive classes at MIT; title: Learning and the development of professional identity; title: Writing and speaking about synthetic biology; title: Understanding students' experiences with communicating synthetic biology; title: Conclusion; title: References; title: Summary and future directions; title: Summary; title: Future directions; title: References; title: Appendix A; title: Genome engineering essay assignment (Spring 2007); title: Abstract; title: Introduction; title: Body: parts 1-3; title: Conclusions or summary; title: Appendix B; title: Part 1: rebuttal to editorial; title: Part 2: mini-business plan for the registry of standard biological parts; title: Appendix C; title: Section 1: vocabulary; title: Section 2: molecular biology.