Difference between revisions of "Part:BBa K4583009"
(→‎Referenve)
 
(22 intermediate revisions by one other user not shown)
Line 4: Line 4:
 
==Usage and Biology==
 
==Usage and Biology==
 
===QS system===
 
===QS system===
−
Queue sensing (QS) is a natural form of cell-cell communication that regulates the metabolic behaviour of bacteria based on changes in their local cell density. As cell density increases, signalling molecules accumulate and are sensed by QS-controlled gene expression regulators, which turn on relevant gene expression.  
+
Quorum sensing (QS) is a natural form of cell-cell communication that regulates the metabolic behaviour of bacteria based on changes in their local cell density. As cell density increases, signalling molecules accumulate and are sensed by QS-controlled gene expression regulators, which turn on relevant gene expression.  
 
===Esa I/R system===
 
===Esa I/R system===
−
The Esa I/R system is quite special from traditional QS system. The EsaI/R QS system is homologous to the LuxI/R QS system and originates the maize pathogen--<i>Pantoea stewartii</i> subsp. <i>stewartia</i>. EsaR can act as both transcriptional activator and repressor.
+
The Esa I/R system is quite special from traditional QS system. The EsaI/R QS system is homologous to the LuxI/R QS system and originates the maize pathogen--<i>Pantoea stewartii</i> subsp. <i>stewartia</i>. EsaR can act as both transcriptional activator and repressor. PesaR is a natural EsaR-repressed promoter, whereas PesaS is a natural EsaR-activated promoter. At low cell density (low ρ), EsaR binds to its esa box to turn off PesaR and turn on PesaS. In the presence of AHL, EsaR can bind to AHL and release from the DNA. Thus, at high cell density(high ρ), the PesaR is turned on and the PesaS is turned off[2].
−
<!-- Add more about the biology of this part here
+
<html>
 +
<figure>
 +
  <img src="https://static.igem.wiki/teams/4583/wiki/esa.png"width="450" height="290">
 +
  <figcaption><b>Fig. 1 </b>. schematic illustration of Esa I/R system </figcaption>
 +
</figure>
 +
</html>
 +
 
 
===PesaRwt===
 
===PesaRwt===
 +
PesaRwt refers to the wild-type PesaR.
  
−
===Usage and Biology===
 
−
 
−
<!-- -->
 
 
<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_K4583009 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K4583009 SequenceAndFeatures</partinfo>
Line 21: Line 25:
 
<partinfo>BBa_K4583009 parameters</partinfo>
 
<partinfo>BBa_K4583009 parameters</partinfo>
 
<!-- -->
 
<!-- -->
 +
 +
==Characterization==
 +
The PesaRwt was characterized using mkate(Fig. 2) <html><a href="https://parts.igem.org/Part:BBa_K4583018"> BBa_K4583018</a></html>. And we used a RBS <html><a href="https://parts.igem.org/Part:BBa_B0034"> BBa_B0034</a></html>.
 +
 +
<html>
 +
<figure>
 +
  <img src="https://static.igem.wiki/teams/4583/wiki/pesarwt.png"width="410" height="240">
 +
  <figcaption><b>Fig. 2 </b>. Genetic circuit of PesaRwt-RBS(B0034)-mKate </figcaption>
 +
</figure>
 +
</html>
 +
===Protocols===
 +
Our experimental conditions for characterizing this part were as follows:
 +
* <em>E. coli</em> MG1655
 +
* 30<sup>o</sup>C, 48h,  under vigorous shaking
 +
* Plasmid Backbone: pCL
 +
* Equipment: Multi-Detection Microplate Reader (Synergy HT, Biotek, U.S.) and Molecular Devices SpectraMax i3x.
 +
We used mkate (excitation at 485 nm and emission at 528 nm) to characterize this part. As our focus was mainly on the expression time, we processed the obtained fluorescence data by means of the following equation: x'=(x-min)/(max-x). This treatment makes all data fall between 0 and 1, which is easier to use for comparisons between different fluorescence data (since our focus is on expression time).
 +
===Results===
 +
 +
<html>
 +
<figure>
 +
  <img src="https://static.igem.wiki/teams/4583/wiki/srresults.png"width="540" height="210">
 +
  <figcaption><b>Fig. 3 </b>. Characterization results of PesaRwt-RBS(B0034)-mKate in L19 and L31</figcaption>
 +
</figure>
 +
</html>
 +
 
==Referenve==
 
==Referenve==
−
[1]Shong, J., & Collins, C. H. (2013). Engineering the esaR promoter for tunable quorum sensing- dependent gene expression. ACS synthetic biology, 2(10), 568–575. https://doi.org/10.1021/sb4000433
+
[1]Shong, J., & Collins, C. H. (2013). Engineering the esaR promoter for tunable quorum sensing- dependent gene expression. ACS synthetic biology, 2(10), 568–575.  
−
[2]Jaishankar, J., & Srivastava, P. (2020). Strong synthetic stationary phase promoter-based gene expression system for Escherichia coli. Plasmid, 109, 102491. https://doi.org/10.1016/j.plasmid.2020.102491
+
 
 +
[2] Gu F, Jiang W, Mu Y, et al. Quorum Sensing-Based Dual-Function Switch and Its Application in Solving Two Key Metabolic Engineering Problems. ACS Synth Biol. 2020;9(2):209-217. doi:10.1021/acssynbio.9b00290

Latest revision as of 11:51, 12 October 2023


Wild type promoter of Esa I/R QS system---PesaRwt

Usage and Biology

QS system

Quorum sensing (QS) is a natural form of cell-cell communication that regulates the metabolic behaviour of bacteria based on changes in their local cell density. As cell density increases, signalling molecules accumulate and are sensed by QS-controlled gene expression regulators, which turn on relevant gene expression.

Esa I/R system

The Esa I/R system is quite special from traditional QS system. The EsaI/R QS system is homologous to the LuxI/R QS system and originates the maize pathogen--Pantoea stewartii subsp. stewartia. EsaR can act as both transcriptional activator and repressor. PesaR is a natural EsaR-repressed promoter, whereas PesaS is a natural EsaR-activated promoter. At low cell density (low ρ), EsaR binds to its esa box to turn off PesaR and turn on PesaS. In the presence of AHL, EsaR can bind to AHL and release from the DNA. Thus, at high cell density(high ρ), the PesaR is turned on and the PesaS is turned off[2].

Fig. 1 . schematic illustration of Esa I/R system

PesaRwt

PesaRwt refers to the wild-type PesaR.

Sequence and Features


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    COMPATIBLE WITH RFC[12]
  • 21
    INCOMPATIBLE WITH RFC[21]
    Illegal BamHI site found at 281
    Illegal XhoI site found at 1
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]


Characterization

The PesaRwt was characterized using mkate(Fig. 2) BBa_K4583018. And we used a RBS BBa_B0034.

Fig. 2 . Genetic circuit of PesaRwt-RBS(B0034)-mKate

Protocols

Our experimental conditions for characterizing this part were as follows:

  • E. coli MG1655
  • 30oC, 48h, under vigorous shaking
  • Plasmid Backbone: pCL
  • Equipment: Multi-Detection Microplate Reader (Synergy HT, Biotek, U.S.) and Molecular Devices SpectraMax i3x.

We used mkate (excitation at 485 nm and emission at 528 nm) to characterize this part. As our focus was mainly on the expression time, we processed the obtained fluorescence data by means of the following equation: x'=(x-min)/(max-x). This treatment makes all data fall between 0 and 1, which is easier to use for comparisons between different fluorescence data (since our focus is on expression time).

Results

Fig. 3 . Characterization results of PesaRwt-RBS(B0034)-mKate in L19 and L31

Referenve

[1]Shong, J., & Collins, C. H. (2013). Engineering the esaR promoter for tunable quorum sensing- dependent gene expression. ACS synthetic biology, 2(10), 568–575.

[2] Gu F, Jiang W, Mu Y, et al. Quorum Sensing-Based Dual-Function Switch and Its Application in Solving Two Key Metabolic Engineering Problems. ACS Synth Biol. 2020;9(2):209-217. doi:10.1021/acssynbio.9b00290