Abstract
The construction of stable and functional synthetic circuits in bacteria is necessary in the areas of systems and synthetic biology. The common approach using plasmids to carry foreign genetic circuits offers convenience in genetic construction but is poor in genetic stability (e.g., variation in copy number). Genome recombination provides the stable genetic maintenance of synthetic circuits, but is often labor intensive and time consuming when the genetic circuits are complex and the DNA fragments become larger. The method introduced here is modified from that reported by Wanner’s group and is available for integration of complex genetic circuits into the Escherichia coli chromosome.
This is a preview of subscription content, log in via an institution.
Buying options
Tax calculation will be finalised at checkout
Purchases are for personal use only
Learn about institutional subscriptionsReferences
Gardner TS, Cantor CR, Collins JJ (2000) Construction of a genetic toggle switch in Escherichia coli. Nature 403:339–342
Kashiwagi A, Urabe I, Kaneko K, Yomo T (2006) Adaptive response of a gene network to environmental changes by fitness-induced attractor selection. PLoS One 1:e49
Ying BW, Ito Y, Shimizu Y, Yomo T (2010) Refined method for the genomic integration of complex synthetic circuits. J Biosci Bioeng 110:529–536
Dabert P, Smith GR (1997) Gene replacement with linear DNA fragments in wild-type Escherichia coli: enhancement by Chi sites. Genetics 145:877–889
Kato C, Ohmiya R, Mizuno T (1998) A rapid method for disrupting genes in the Escherichia coli genome. Biosci Biotechnol Biochem 62:1826–1829
Link AJ, Phillips D, Church GM (1997) Methods for generating precise deletions and insertions in the genome of wild-type Escherichia coli: application to open reading frame characterization. J Bacteriol 179:6228–6237
Posfai G, Kolisnychenko V, Bereczki Z, Blattner FR (1999) Markerless gene replacement in Escherichia coli stimulated by a double-strand break in the chromosome. Nucleic Acids Res 27:4409–4415
Datsenko KA, Wanner BL (2000) One-step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc Natl Acad Sci U S A 97:6640–6645
Baba T, Ara T, Hasegawa M et al (2006) Construction of Escherichia coli K-12 in-frame, single-gene knockout mutants: the Keio collection. Mol Syst Biol 2:2006.0008
Kang Y, Durfee T, Glasner JD et al (2004) Systematic mutagenesis of the Escherichia coli genome. J Bacteriol 186:4921–4930
Serra-Moreno R, Acosta S, Hernalsteens JP et al (2006) Use of the lambda Red recombinase system to produce recombinant prophages carrying antibiotic resistance genes. BMC Mol Biol 7:31
Haseltine EL, Arnold FH (2007) Synthetic gene circuits: design with directed evolution. Annu Rev Biophys Biomol Struct 36:1–19
Shimizu Y, Tsuru S, Ito Y et al (2011) Stochastic switching induced adaptation in a starved Escherichia coli population. PLoS One 6:e23953
Matsumoto Y, Ito Y, Tsuru S et al (2011) Bacterial cells carrying synthetic dual-function operon survived starvation. J Biomed Biotechnol 2011:e489265
Acknowledgements
This work was partially supported by Grants-in-Aid for Challenging Exploratory Research 22657059 (to B.W.Y.) and the “Global COE (Centers of Excellence) program” of the Ministry of Education, Culture, Sports, Science and Technology, Japan.
Author information
Authors and Affiliations
Editor information
Editors and Affiliations
Rights and permissions
Copyright information
© 2013 Springer Science+Business Media, New York
About this protocol
Cite this protocol
Ying, BW., Akeno, Y., Yomo, T. (2013). Construction of Synthetic Gene Circuits in the Escherichia coli Genome. In: Polizzi, K., Kontoravdi, C. (eds) Synthetic Biology. Methods in Molecular Biology, vol 1073. Humana Press, Totowa, NJ. https://doi.org/10.1007/978-1-62703-625-2_13
Download citation
DOI: https://doi.org/10.1007/978-1-62703-625-2_13
Published:
Publisher Name: Humana Press, Totowa, NJ
Print ISBN: 978-1-62703-624-5
Online ISBN: 978-1-62703-625-2
eBook Packages: Springer Protocols