Difference between revisions of "Part:BBa K2066119:Design"

(→‎Design Notes)
(→‎Design Notes)
 
Line 7: Line 7:
  
 
===Design Notes===
 
===Design Notes===
 +
 +
We designed the part to include the synthetic enhancer suite and the NRII helper protein on the same UNS backbone, which allows for the phosphorylation (activation) of the protein product of the synthetic enhancer product (NRI). Making one plasmid reduces the metabolic strain on the cell and further decouples the synthetic enhancer system from LacI/IPTG to allow for minimal inference of our circuits in the complete biological system. We switched the original synthetic enhancer reporter (mCherry) with sfGFP for stronger fluorescent signals.
 +
 +
We chose to include UNS overhangs before and after our insert to allow for an ease of clone. UNS sequences are from Torella et. al. Furthermore, the NRII sequence and the synthetic enhancer suite sequences are from Amit et. al. The sfGFP sequence is from Lou et. al. 2012.
  
 
===Source===
 
===Source===

Latest revision as of 04:51, 29 October 2016


Synthetic Enhancer Project: 2X TetO Binding Cassette(52S) + NRII + sfGFP on UNS


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 111
    Illegal NotI site found at 3718
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal AgeI site found at 890
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal SapI.rc site found at 1878


Design Notes

We designed the part to include the synthetic enhancer suite and the NRII helper protein on the same UNS backbone, which allows for the phosphorylation (activation) of the protein product of the synthetic enhancer product (NRI). Making one plasmid reduces the metabolic strain on the cell and further decouples the synthetic enhancer system from LacI/IPTG to allow for minimal inference of our circuits in the complete biological system. We switched the original synthetic enhancer reporter (mCherry) with sfGFP for stronger fluorescent signals.

We chose to include UNS overhangs before and after our insert to allow for an ease of clone. UNS sequences are from Torella et. al. Furthermore, the NRII sequence and the synthetic enhancer suite sequences are from Amit et. al. The sfGFP sequence is from Lou et. al. 2012.

Source

The enhancer, tet cassette, glnAp2 synthetic promoter, and NRI coding region sequences were derived from the synthetic enhancer circuits from Amit, R., Garcia, H. G., Phillips, R. & Fraser, S. E. Building enhancers from the ground up: a synthetic biology approach. Cell146, 105–118 (2011). The NRII2302 coding region and the promoter that it is controlled by is derived from the helper plasmid pACT tet from Amit et. al 2011. The sfGFP flourescent reporter design is inspired by C. Lou, B. Stanton, Y.-J. Chen, B. Munsky, C. A. Voigt, Ribozyme-based insulator parts buffer synthetic circuits from genetic context. Nat. Biotechnol. 30, 1137 (2012). doi:10.1038/nbt.2401 pmid:23034349. The UNS sequences at the ends of the insert are derived from Torella, J. P., Boehm, C. R., Lienert, F., Chen, J. H., Way, J. C., & Silver, P. A. (2013). Rapid construction of insulated genetic circuits via synthetic sequence-guided isothermal assembly. Nucleic acids research, gkt860. A huge thanks to all the researchers involved in its original creation!

References