Difference between revisions of "Part:BBa K3458002:Design"

 
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<partinfo>BBa_K3458001 short</partinfo>
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<partinfo>BBa_K3458002 short</partinfo>
  
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<partinfo>BBa_K3458001 SequenceAndFeatures</partinfo>
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<partinfo>BBa_K3458002 SequenceAndFeatures</partinfo>
  
  
 
===Design Notes===
 
===Design Notes===
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We synthesized this DNA sample through TIANYI HUIYUAN Company.
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In order to meet the assembly requirements of biobrick, our team checked the predicted cis-elements and modified the illegal restriction sites of non-critical parts.
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In order to have a better expression in Oryza sativa L., we have carried out codon optimization according to the codon preference of Oryza sativa L..
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In order to express HQT in Oryza sativa L. and conduct further tests, we also designed two composite originals, GluD-1::HQT ([https://parts.igem.org/Part:BBa_K3458003 BBa_K3458004]) and 35S::HQT ([https://parts.igem.org/Part:BBa_K3458003 BBa_K3458003]).
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In order to meet the assembly requirements, we removed the illegal restriction site.
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In order to express HQT in Oryza sativa L. and conduct further tests, we also designed two composite originals, GluD-1::HQT (BBa_K3458004) and 35S::HQT (BBa_K3458003). (For more information, please see their registration page)
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===Source===
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The GluD-1 promoter is derived from the rice genome and has a full length of 1.6 kb. Since studies have shown that the 0.2kb promoter can specifically express foreign genes in rice endosperm, and the 1.2kb efficiency is the highest, our team chose the 1.2kb GluD-1 promoter. In order to meet the assembly requirements of biobrick, our team checked the predicted cis-elements and modified the illegal restriction sites of non-critical parts.
  
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===References===
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[1]Kawakatsu T, Yamamoto M P, Hirose S, et al. Characterization of a new rice glutelin gene GluD-1 expressed in the starchy endosperm[J]. J. Exp. Bot., 2008,59(15):4233-4245.
  
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[2]Ye X, Al-Babili S, Kloti A, Zhang J, Lucca P, Beyer P, Potrykus I. 2000. Engineering the provitamin A (beta-carotene) biosynthetic pathway into (carotenoid-free) rice endosperm. Science 287, 303–305.
  
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===Source===
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[3]Paine JA, Shipton CA, Chaggar S, et al. 2005. Improving the nutritional value of Golden Rice through increased pro-vitamin A content. Nature Biotechnolgy 23, 482–487.
  
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The HQT gene we used comes from the genome of Lonicera japonica (GeneBank: JF261014.1). We removed the restriction site incompatible with the biobrick assembly standard  and optimized the codon according to the codon preference of Oryza sativa L..Then we synthesized it at TIANYI HUIYUAN Company.  
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[4]Qu LQ, Takaiwa F. 2004. Evaluation of tissue specifificity andexpression strength of rice seed component gene promoters intransgenic rice. Plant Biotechnology Journal 2, 113–125.
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===References===
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Latest revision as of 03:10, 17 August 2020


GluD-1 Promoter


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI.rc site found at 225


Design Notes

In order to meet the assembly requirements of biobrick, our team checked the predicted cis-elements and modified the illegal restriction sites of non-critical parts. In order to express HQT in Oryza sativa L. and conduct further tests, we also designed two composite originals, GluD-1::HQT (BBa_K3458004) and 35S::HQT (BBa_K3458003).

Source

The GluD-1 promoter is derived from the rice genome and has a full length of 1.6 kb. Since studies have shown that the 0.2kb promoter can specifically express foreign genes in rice endosperm, and the 1.2kb efficiency is the highest, our team chose the 1.2kb GluD-1 promoter. In order to meet the assembly requirements of biobrick, our team checked the predicted cis-elements and modified the illegal restriction sites of non-critical parts.

References

[1]Kawakatsu T, Yamamoto M P, Hirose S, et al. Characterization of a new rice glutelin gene GluD-1 expressed in the starchy endosperm[J]. J. Exp. Bot., 2008,59(15):4233-4245.

[2]Ye X, Al-Babili S, Kloti A, Zhang J, Lucca P, Beyer P, Potrykus I. 2000. Engineering the provitamin A (beta-carotene) biosynthetic pathway into (carotenoid-free) rice endosperm. Science 287, 303–305.

[3]Paine JA, Shipton CA, Chaggar S, et al. 2005. Improving the nutritional value of Golden Rice through increased pro-vitamin A content. Nature Biotechnolgy 23, 482–487.

[4]Qu LQ, Takaiwa F. 2004. Evaluation of tissue specifificity andexpression strength of rice seed component gene promoters intransgenic rice. Plant Biotechnology Journal 2, 113–125.