Difference between revisions of "Part:BBa K4201001:Design"

 
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===Design Notes===
 
===Design Notes===
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design considerations
+
Codon optimization for Glycine max (soybean) is a unique design consideration for all of CU Boulder’s coding sequences including our Tc.cytoGGPPS. Codon optimization is the intentional use of specific codons for specific amino acids, dependent on what tRNAs are most abundant in the organism. While codon optimization is a common consideration for synthetic biologists, our sequences are unique for iGEM because they are intended for expression in soybeans.
 +
Another design consideration in the removal of chloroplast location tag on the 5’ end of the coding region. This modification forces the Geranylgeranyl-Pyrophosphate Synthase to be expressed in the cytosol<sup>1</sup>.
  
  
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===Source===
 
===Source===
  
−
source
+
This Geranylgeranyl-Pyrophosphate Synthase originates from Taxus canadensis. All of our DNA fragments are obtained via de novo synthesis by iGEM sponsors Twist Bioscience and Integrated DNA Technologies.Codon optimization was also performed using Twist and IDT’s respective programs.
  
 
===References===
 
===References===
 +
De La Peña, R. & Sattely, E. S. Re-routing plant terpene biosynthesis enables momilactone pathway elucidation. Nat. Chem. Biol. 17, 205–212 (2021).

Revision as of 22:13, 11 October 2022


Tc.cytoGGPPS


Assembly Compatibility:
  • 10
    INCOMPATIBLE WITH RFC[10]
    Illegal PstI site found at 961
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal PstI site found at 961
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BglII site found at 42
    Illegal BglII site found at 971
  • 23
    INCOMPATIBLE WITH RFC[23]
    Illegal PstI site found at 961
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal PstI site found at 961
    Illegal NgoMIV site found at 372
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 1
    Illegal BsaI.rc site found at 1148


Design Notes

Codon optimization for Glycine max (soybean) is a unique design consideration for all of CU Boulder’s coding sequences including our Tc.cytoGGPPS. Codon optimization is the intentional use of specific codons for specific amino acids, dependent on what tRNAs are most abundant in the organism. While codon optimization is a common consideration for synthetic biologists, our sequences are unique for iGEM because they are intended for expression in soybeans. Another design consideration in the removal of chloroplast location tag on the 5’ end of the coding region. This modification forces the Geranylgeranyl-Pyrophosphate Synthase to be expressed in the cytosol1.


Source

This Geranylgeranyl-Pyrophosphate Synthase originates from Taxus canadensis. All of our DNA fragments are obtained via de novo synthesis by iGEM sponsors Twist Bioscience and Integrated DNA Technologies.Codon optimization was also performed using Twist and IDT’s respective programs.

References

De La Peña, R. & Sattely, E. S. Re-routing plant terpene biosynthesis enables momilactone pathway elucidation. Nat. Chem. Biol. 17, 205–212 (2021).