Difference between revisions of "Part:BBa K2066059"
 
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<partinfo>BBa_K2066059 short</partinfo>
 
<partinfo>BBa_K2066059 short</partinfo>
  
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The part is flanked by UNS 2 and UNS 3 as per the WM UNS gibson cloning standard. This part is used to characterize the promoter part Bba_J23100 without RiboJ insulation so that the effects of RiboJ insulation on gene expression can be characterized using the corresponding WM part K2066107. This part on 1C3 can be cotransformed into cells along with K2066016 (preferably on pSB3K3 or other low copy backbone for ideal induction behavior) and the resulting IPTG-induction curve can be compared to those of other parts (K2066059 - K20660108)  with different promoter / RiboJ variations.  
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This part is part of a library of parts designed to characterize the influence of RiboJ on the absolute gene expression level on various promoters, including the entire Anderson Promoter Library.
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The part follows the UNS standard developed by William and Mary iGEM 2016, in which the insert is flanked by UNS 2 (BBa_K2066018) and UNS 3 (BBa_K2066019) for ease of cloning via Gibson or Golden Gate Assembly.
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William and Mary iGEM 2017 characterized this tagless construct along with IPTG-inducible mf-Lon protease as a control for their degradation rate and speed change effect measurements. This part was used to facilitate characterization of protein degradation tag strengths by measuring time to steady-state fluorescence values of sfGFP under the control of the strong constitutive promoter <partinfo>Bba_J23100</partinfo>. See [http://2017.igem.org/Team:William_and_Mary/Results William and Mary's 2017 project] for more details.
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This part is one of a series of sfGFP reporter pdt parts. Series range is from <partinfo>BBa_K2333407</partinfo> to <partinfo>Bba_K2333412</partinfo>.
  
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<!-- Add more about the biology of this part here
 
 
===Usage and Biology===
 
===Usage and Biology===
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This part contains J23100 constitutive promoter, <partinfo>Bba_B0034</partinfo> (RBS), a double stop codon and <partinfo>Bba_B0015</partinfo> (double terminator) in the William and Mary iGEM Universal Nucleotide Sequences (UNS) format. See Torella, et. al (2013). In order to demonstrate that protein degradation tags operated similarly regardless of the tagged protein, sfGFP reporters that were analogous to the mScarlet-I parts (<partinfo>Bba_K2333413</partinfo> to <partinfo>Bba_K2333419</partinfo>) were built and characterized. This demonstrates that the protein degradation tags are modular and that they have differential strengths even when they are tagged on different proteins.
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===Characterization===
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W&M 2017 characterized this tagless construct along with IPTG-inducible mf-Lon protease as a control for their degradation rate and speed change effect measurements. The graphs below show this degradation characterization along with the data from the other tags in this series (<partinfo>K2333427</partinfo>-<partinfo>K2333433</partinfo>). The graph below shows this preliminary degradation characterization along with the data from the other tags in this series (<partinfo>K2333407</partinfo>-<partinfo>K2333412</partinfo>). While degradation is occurring, it does not necessarily line up with all of the expected tag strengths. This could be due to constraints surrounding plate reader measurements or inconsistencies with the sfGFP reporter itself.
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<html><img src="https://static.igem.org/mediawiki/parts/b/b9/T--William_and_Mary--J23100_sfGFP_deg_rate.png" width="520px"/></html>
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===Functional Parameters===
 
===Functional Parameters===
 
<partinfo>BBa_K2066059 parameters</partinfo>
 
<partinfo>BBa_K2066059 parameters</partinfo>
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===References===
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[1] Torella JP, Boehm CR, Lienert F, Chen J-H, Way JC, Silver PA. Rapid construction of insulated genetic circuits via synthetic sequence-guided isothermal assembly. Nucleic Acids Research. 2013;42(1):681–689.
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[2] Cameron DE, Collins JJ. Tunable protein degradation in bacteria. Nature Biotechnology. 2014;32(12):1276–1281.
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[3] Lou, C., Stanton, B., Chen, Y.-J., Munsky, B., & Voigt, C. A. (2012). Ribozyme-based insulator parts buffer synthetic circuits from genetic context. Nature Biotechnology, 30(11), 1137–1142. http://doi.org/10.1038/nbt.2401
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===Functional Parameters===
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<partinfo>BBa_K2333407 parameters</partinfo>
 
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Latest revision as of 03:33, 2 November 2017


Promoter Characterization: J23100, without RiboJ

This part is part of a library of parts designed to characterize the influence of RiboJ on the absolute gene expression level on various promoters, including the entire Anderson Promoter Library.

The part follows the UNS standard developed by William and Mary iGEM 2016, in which the insert is flanked by UNS 2 (BBa_K2066018) and UNS 3 (BBa_K2066019) for ease of cloning via Gibson or Golden Gate Assembly.

William and Mary iGEM 2017 characterized this tagless construct along with IPTG-inducible mf-Lon protease as a control for their degradation rate and speed change effect measurements. This part was used to facilitate characterization of protein degradation tag strengths by measuring time to steady-state fluorescence values of sfGFP under the control of the strong constitutive promoter BBa_J23100. See [http://2017.igem.org/Team:William_and_Mary/Results William and Mary's 2017 project] for more details. This part is one of a series of sfGFP reporter pdt parts. Series range is from BBa_K2333407 to BBa_K2333412.

Usage and Biology

This part contains J23100 constitutive promoter, BBa_B0034 (RBS), a double stop codon and BBa_B0015 (double terminator) in the William and Mary iGEM Universal Nucleotide Sequences (UNS) format. See Torella, et. al (2013). In order to demonstrate that protein degradation tags operated similarly regardless of the tagged protein, sfGFP reporters that were analogous to the mScarlet-I parts (BBa_K2333413 to BBa_K2333419) were built and characterized. This demonstrates that the protein degradation tags are modular and that they have differential strengths even when they are tagged on different proteins.

Characterization

W&M 2017 characterized this tagless construct along with IPTG-inducible mf-Lon protease as a control for their degradation rate and speed change effect measurements. The graphs below show this degradation characterization along with the data from the other tags in this series (BBa_K2333427-BBa_K2333433). The graph below shows this preliminary degradation characterization along with the data from the other tags in this series (BBa_K2333407-BBa_K2333412). While degradation is occurring, it does not necessarily line up with all of the expected tag strengths. This could be due to constraints surrounding plate reader measurements or inconsistencies with the sfGFP reporter itself.


Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 47
    Illegal NheI site found at 70
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal SapI.rc site found at 106


References

[1] Torella JP, Boehm CR, Lienert F, Chen J-H, Way JC, Silver PA. Rapid construction of insulated genetic circuits via synthetic sequence-guided isothermal assembly. Nucleic Acids Research. 2013;42(1):681–689.

[2] Cameron DE, Collins JJ. Tunable protein degradation in bacteria. Nature Biotechnology. 2014;32(12):1276–1281.

[3] Lou, C., Stanton, B., Chen, Y.-J., Munsky, B., & Voigt, C. A. (2012). Ribozyme-based insulator parts buffer synthetic circuits from genetic context. Nature Biotechnology, 30(11), 1137–1142. http://doi.org/10.1038/nbt.2401