Difference between revisions of "Part:BBa K3046004"

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This promoter was characterised using an mCherry test device,<a href=”https://parts.igem.org/wiki/index.php?title=Part:BBa_K3046009” target=”_blank”>BBa_K3046009</a>, inserted into an AMA1-based test plasmid, <a href=”https://parts.igem.org/wiki/index.php?title=Part:BBa_K3046021” target=”_blank_”>BBa_K3046021</a>, and characterisation was done in a microbioreactor (BioLector, m2p-labs) for microtiter scale.<br>
 
This promoter was characterised using an mCherry test device,<a href=”https://parts.igem.org/wiki/index.php?title=Part:BBa_K3046009” target=”_blank”>BBa_K3046009</a>, inserted into an AMA1-based test plasmid, <a href=”https://parts.igem.org/wiki/index.php?title=Part:BBa_K3046021” target=”_blank_”>BBa_K3046021</a>, and characterisation was done in a microbioreactor (BioLector, m2p-labs) for microtiter scale.<br>
 
The microtiter scale cultures were made by inoculating 10<sup>7</sup> spores in 1.5 mL minimal media, and cultures were grown at 30 °C with mixing at 1000 rpm for 78 hours. Both biomass (measured in light scattering units) and fluorescence (at Ex/Emi wavelengths 580 nm/625 nm) was measured continuously.
 
The microtiter scale cultures were made by inoculating 10<sup>7</sup> spores in 1.5 mL minimal media, and cultures were grown at 30 °C with mixing at 1000 rpm for 78 hours. Both biomass (measured in light scattering units) and fluorescence (at Ex/Emi wavelengths 580 nm/625 nm) was measured continuously.
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The predicted behavior of this promoter, is described by the model, which is summarized by the figure below. PLEAPgpdA_2 is expected to show constitutive expression with medium promoter strength.
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<img src="https://static.igem.org/mediawiki/parts/a/ae/T--DTU-Denmark--RNASEQgpdA_2.png" style="width: 80%; padding: 15px;" >
 
<img src="https://static.igem.org/mediawiki/parts/a/ae/T--DTU-Denmark--RNASEQgpdA_2.png" style="width: 80%; padding: 15px;" >

Revision as of 17:42, 21 October 2019


PLEAPgpdA_2

This is a synthetic constitutive promoter, created as part of the LEAP (Library of Engineered Aspergillus Promoters) project


Usage and Biology

This is a medium strength constitutive promoter for Aspergillus niger.


Characterization

This is a synthetic constitutive promoter, created as part of the LEAP (Library of Engineered Aspergillus Promoters) project. It is based on the gpdA promoter from different Aspergillus spp., and the gene was chosen based on RNA-seq data from Aspergillus niger. [1] The consensus promoter was expected to have high expression. This version has “noise” added to the sequence to support a hypothesis that it was possible to turn down expression of the promoter.

This promoter was characterised using an mCherry test device,BBa_K3046009, inserted into an AMA1-based test plasmid, BBa_K3046021, and characterisation was done in a microbioreactor (BioLector, m2p-labs) for microtiter scale.
The microtiter scale cultures were made by inoculating 107 spores in 1.5 mL minimal media, and cultures were grown at 30 °C with mixing at 1000 rpm for 78 hours. Both biomass (measured in light scattering units) and fluorescence (at Ex/Emi wavelengths 580 nm/625 nm) was measured continuously.
The predicted behavior of this promoter, is described by the model, which is summarized by the figure below. PLEAPgpdA_2 is expected to show constitutive expression with medium promoter strength.

Figure 1: The figure shows RNA-seq data for Aspergillus niger in both exponential and stationary phase with the gpdA gene marked in red. The x-axis is the promoter activity in the stationary phase and the y-axis is the promoter activity in the exponential phase, both axes are depicted on a log scale. Here we see that the promoter should be constitutive.

For the microtiter scale, the promoter was evaluated in a biolector, producing the following results with regards to growth, fluorescence and dynamic promoter activity.
Figure 2: When analyzed in the microtiter scale on a biolector, the red fluorescence and biomass has been measured and the Dynamic Promoter Activity has been calculated. On the graph Dynamic Promoter Activity (DPA) is green, the biomass is measured in Light Scattering Units (LSU) in blue, and red fluorescence (RFP), shown in red. Here it is seen that the promoter has a relatively low dynamic promoter activity that peaks around 18 hours but stays relatively stable afterwards.

Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal AgeI site found at 146
  • 1000
    COMPATIBLE WITH RFC[1000]