Difference between revisions of "Part:BBa K3046007"

 
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<partinfo>BBa_K3046007 short</partinfo>
 
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This is a synthetic constitutive promoter, created as part of the LEAP (Library of Engineered Aspergillus Promoters) project
  
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===Usage and Biology===
 
===Usage and Biology===
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This is a strong promoter for <i>Aspergillus niger</i> that has high activity in the late exponential phase and stationary phase.
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===Characterization===
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This is a synthetic constitutive promoter, created as part of the LEAP (Library of Engineered Aspergillus Promoters) project. It is based on the gfaA promoter from different <i>Aspergillus</i> spp., and the gene was chosen based on RNA-seq data from <i>Aspergillus niger</i>. [1] This version is a consensus sequence of the promoters in <i>Aspergillus</i> and is expected to have a high expression.
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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.
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<br>
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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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<br><br>
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The predicted behavior of this promoter, is described by the model, which is summarized by the figure below. PLEAPgfaA_1 is expected to show constitutive expression with high promoter strength.
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<img src="https://static.igem.org/mediawiki/parts/1/1c/T--DTU-Denmark--RNASEQgfa1.png" style="width: 80%; padding: 15px;" >
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<figcaption> Figure 1: The figure shows RNA-seq data for <i>Aspergillus niger</i> in both exponential and stationary phase with the gfaA 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 relatively constitutive with a high expression.
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</figcaption>
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</figure>
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For the microtiter scale, the promoter was evaluated in a biolector, producing the following results with regards to growth, fluorescence and dynamic promoter activity.
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<br>
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<img src="https://static.igem.org/mediawiki/parts/0/0a/T--DTU-Denmark--gfa1promodynamics.png" style="width: 60%; padding: 15px;" >
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<figure>
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<figcaption> 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) is in blue, and red fluorescence (RFP) is shown in red. The graphs have been normalized for LSU.
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Here it is seen that the promoter has a peak dynamic promoter activity around 45 hours with varying amounts of RFP produced across triplicates.
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</figcaption>
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</figure>
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</html>
  
 
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Revision as of 18:05, 21 October 2019


PLEAPgfaA_1

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

Usage and Biology

This is a strong promoter for Aspergillus niger that has high activity in the late exponential phase and stationary phase.

Characterization

This is a synthetic constitutive promoter, created as part of the LEAP (Library of Engineered Aspergillus Promoters) project. It is based on the gfaA promoter from different Aspergillus spp., and the gene was chosen based on RNA-seq data from Aspergillus niger. [1] This version is a consensus sequence of the promoters in Aspergillus and is expected to have a high expression.

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. PLEAPgfaA_1 is expected to show constitutive expression with high promoter strength.

Figure 1: The figure shows RNA-seq data for Aspergillus niger in both exponential and stationary phase with the gfaA 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 relatively constitutive with a high expression.

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) is in blue, and red fluorescence (RFP) is shown in red. The graphs have been normalized for LSU. Here it is seen that the promoter has a peak dynamic promoter activity around 45 hours with varying amounts of RFP produced across triplicates.

Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BglII site found at 894
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]