title: Ribozyme-based insulator parts buffer synthetic circuits from genetic context.
abstract: Synthetic genetic programs are built from circuits that integrate sensors and implement temporal control of gene expression. Transcriptional circuits are layered by using promoters to carry the signal between circuits. In other words, the output promoter of one circuit serves as the input promoter to the next. Thus, connecting circuits requires physically connecting a promoter to the next circuit. We show that the sequence at the junction between the input promoter and circuit can affect the input-output response (transfer function) of the circuit. A library of putative sequences that might reduce (or buffer) such context effects, which we refer to as 'insulator parts', is screened in Escherichia coli. We find that ribozymes that cleave the 5' untranslated region (5'-UTR) of the mRNA are effective insulators. They generate quantitatively identical transfer functions, irrespective of the identity of the input promoter. When these insulators are used to join synthetic gene circuits, the behavior of layered circuits can be predicted using a mathematical model. The inclusion of insulators will be critical in reliably permuting circuits to build different programs.
authors.affiliation: Synthetic Biology Center, Department of Biological Engineering, Massachusetts Institute of Technology, Cambridge, Massachusetts, USA.
authors.forename: Chunbo
authors.initials: C
authors.lastname: Lou
authors.forename: Brynne
authors.initials: B
authors.lastname: Stanton
authors.forename: Ying-Ja
authors.initials: YJ
authors.lastname: Chen
authors.forename: Brian
authors.initials: B
authors.lastname: Munsky
authors.forename: Christopher A
authors.initials: CA
authors.lastname: Voigt
mesh_terms: D003198:Computer Simulation; D004926:Escherichia coli / Q000235:genetics*; D053263:Gene Regulatory Networks / Q000235:genetics*; D008957:Models, Genetic; D011401:Promoter Regions, Genetic / Q000235:genetics*; D016337:RNA, Catalytic / Q000235:genetics*; D015533:Transcriptional Activation / Q000235:genetics*
chemical_list: D016337:RNA, Catalytic