Difference between revisions of "Part:BBa K2541405:Design"

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===Design Notes===
 
===Design Notes===
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The secondary structure is important to the function of an RNA thermosensor. We designed the thermosensor according to the stem length, loop size and base bulge.
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The secondary structure is important to the function of an RNA-based thermosensor. We designed the thermosensor according to the stem length, loop size and mismatches or bulges in the stem.
  
 
===Source===
 
===Source===

Revision as of 06:56, 14 October 2018


Heat-inducible RNA-based thermosensor measurement device


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 7
    Illegal NheI site found at 30
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal XhoI site found at 509
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Design Notes

The secondary structure is important to the function of an RNA-based thermosensor. We designed the thermosensor according to the stem length, loop size and mismatches or bulges in the stem.

Source

The thermosensor sequence is not derived from any organism. We designed it on our own and synthesized this sequence from a synthesis company. Other sequences are derived from iGEM Registry of Standard Biological Parts.

References

[1]Neupert J, Karcher D, Bock R. Design of simple synthetic RNA thermometers for temperature-controlled gene expression, in Escherichia coli.[J]. Nature Protocols, 2008, 4(9):1262-73.

[2]Kortmann J, Narberhaus F. Bacterial RNA thermometers: molecular zippers and switches.[J]. Nature Reviews Microbiology, 2012, 10(4):255-65.

[3]Neupert J, Bock R. Designing and using synthetic RNA thermometers for temperature-controlled gene expression in bacteria. Nature Protocols, 2009, 4(9):1262-73.

[4]Sen S, Apurva D, Satija R, et al. Design of a Toolbox of RNA Thermometers[J]. Acs Synthetic Biology, 2017, 6(8).

[5]Pédelacq J-D, Cabantous S, Tran T, Terwilliger TC, Waldo GS. 2006. Engineering and characterization of a superfolder green fluorescent protein. Nat. Biotechnol. 24:79 –88.

[6]Overkamp W, Beilharz K, Detert O W R, et al. Benchmarking various green fluorescent protein variants in Bacillus subtilis, Streptococcus pneumoniae, and Lactococcus lactis for live cell imaging.[J]. Applied & Environmental Microbiology, 2013, 79(20):6481-6490.

[7]Segall-Shapiro T H, Sontag E D, Voigt C A. Engineered promoters enable constant gene expression at any copy number in bacteria[J]. Nature Biotechnology, 2018.