Team:TU-Delft/part3

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(Difference between revisions)
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<h3>Transformations</i></h3>
<h3>Transformations</i></h3>
<p>Yeast strains were successfully transformed with the <i>GPR109A</i> receptor and output  
<p>Yeast strains were successfully transformed with the <i>GPR109A</i> receptor and output  
-
<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K775005" target="_blank">BBa_K775005</a>, called <b>NR1</b> (nicotinic acid reporter). The <i>RI7-ODR10</i> receptor and output  
+
<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K775005" target="_blank">BBa_K775005</a>, called <b>NR1</b> (niacin reporter). The <i>RI7-ODR10</i> receptor and output  
<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K775008" target="_blank">BBa_K775008</a>. <i>Olfr154</i> receptor and output  
<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K775008" target="_blank">BBa_K775008</a>. <i>Olfr154</i> receptor and output  
<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K775010" target="_blank">BBa_K775010</a>, called <b>BR1</b> (banana reporter 1) and <i>RI7-OR1G1</i> receptor and output <a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K775011">BBa_K775011</a>, called <b>BR2</b> (banana reporter 2).</p>
<a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K775010" target="_blank">BBa_K775010</a>, called <b>BR1</b> (banana reporter 1) and <i>RI7-OR1G1</i> receptor and output <a href="http://partsregistry.org/wiki/index.php?title=Part:BBa_K775011">BBa_K775011</a>, called <b>BR2</b> (banana reporter 2).</p>
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<h3>Niacin Snifferomyces</h3><br/>
<h3>Niacin Snifferomyces</h3><br/>
<h6>Setup</h6><br/>
<h6>Setup</h6><br/>
-
In order to test the yeast NR1 cells with nicotinic acid receptor and the receptor inducible GFP reporter we induced the cells with nicotinic acid or alpha pheromone and measured the cellular response through flow cytometry.
+
In order to test the yeast NR1 cells with niacin receptor and the receptor inducible GFP reporter we induced the cells with niacin or alpha pheromone and measured the cellular response through flow cytometry, measuring the EGFP signal intensity.
<h6>Outcome</h6><br/>
<h6>Outcome</h6><br/>
-
Flow cytometry data of +NR1 cells induced with nicotinic acid or alpha pheromones is shown.
+
Flow cytometry data of +NR1 cells induced with niacin or alpha pheromones is shown.
</p>
</p>
<img src="http://2012.igem.org/wiki/images/c/c4/Flow_Cytometry_Snifferomyces_NR1_graph.png" width="600">
<img src="http://2012.igem.org/wiki/images/c/c4/Flow_Cytometry_Snifferomyces_NR1_graph.png" width="600">
<p>
<p>
-
Here we see that addition of receptor ligand doesn’t induce a response in comparison with alpha induced cells. Possible explanations are:
+
Here we see that addition of receptor ligand doesn’t induce an increased light response in comparison with alpha induced cells. Possible explanations are:
<ul><li>A  too small subset of the yeast receptors is localized in the membrane.</li>
<ul><li>A  too small subset of the yeast receptors is localized in the membrane.</li>
<li>The affinity of the receptor with the alpha subunit is too low.</li>
<li>The affinity of the receptor with the alpha subunit is too low.</li>
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<a name="P7"> <h2>Conclusions</h2> </a>
<a name="P7"> <h2>Conclusions</h2> </a>
-
<p>Four olfactory system biobricks were added to the registry. </p><br/>
+
<p>Four olfactory system biobricks were added to the registry. The light response when adding ligand was seen with single cells, but didn't lead to statistical significant data. Further we observed that expression of receptors led to decreased fitness and non-typical morphology.</p><br/>
 +
<a name="P8"> <h2>Recommendations</h2> </a>
 +
To increase expression and light intensity of the cells in response to a ligand the following conditions can be tested:
 +
<ul><li> Make the receptor expression time as short as possible. Use an inducible promoter or make stocks directly as soon as possible after transformation </li>
 +
<li> There are indications that succesful expression can be altered by decreasing the temperature during receptor expression. When we tested this the growth rate was slow and therefore the expression time became too long. An inducible promoter can solve this problem too.</li>
 +
<li> The affinity towards the downstream pathway could be increased when the pheromone binding subunit alpha is knocked out (<i>dGPA1</i>) and replaced by a mammalian one (typically <a href="http://www.ncbi.nlm.nih.gov/protein/47271350?report=genbank&log$=prottop&blast_rank=1&RID=8NZM5VY001R">NP_034437.1</a> is used. We didn't have the time to test this hypothesis, further investigation is needed!</li></ul><br/>
 +
 
<a name="P9"><h2>References</h2> </a>
<a name="P9"><h2>References</h2> </a>
<h6>[1] Jasmina Minic, Marie-annick Persuy, Elodie Godel, Josiane Aioun, Ian Connerton, Roland Salesse, Functional expression of olfactory receptors in yeast and development of a bioassay for odorant screening, FEBS Journal (2005)</h6>
<h6>[1] Jasmina Minic, Marie-annick Persuy, Elodie Godel, Josiane Aioun, Ian Connerton, Roland Salesse, Functional expression of olfactory receptors in yeast and development of a bioassay for odorant screening, FEBS Journal (2005)</h6>
<h6>[2] "A cell sizer network involving Cln3 and Far1 controls entrance into S phase in the mitotic cycle of budding yeast" Alberghina et al. November 1, 2004 // JCB vol. 167 no. 3 433-443 </h6>
<h6>[2] "A cell sizer network involving Cln3 and Far1 controls entrance into S phase in the mitotic cycle of budding yeast" Alberghina et al. November 1, 2004 // JCB vol. 167 no. 3 433-443 </h6>
 +
 +
<a name="P8"> <h2>Recommendation</h2></a>
 +
</div>
</div>
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Revision as of 00:06, 27 October 2012

Menu

Receptor

Content

Introduction
Parts
Results
Conclusions
References

Introduction

Yeast with olfactory receptor+reporter=Snifferomyces

By combining the olfactory receptor and the FUS1pr-EGFP reporter, a complete yeast olfactory system is obtained. If the corresponding ligand binds to the receptor the FAR1 promoter is turned on and the EGFP is expressed. This EGFP signal can be read out by a fluorescence meter. If the olfactory system will be implemented as a diagnostics tool in developing countries, the EGFP reporter should be changed by a visible reporter.

Growth arrest

Besides the induction of the FUS1 promoter the cells also go in growth arrest mediated by the FAR1 promoter. However it is undesirable that the cells stop growing once they respond to a ligand. Therefore it is needed to knock out the FAR1 promoter. Therefore we characterized the knockout of the FAR1 promoter.

Increasing sensitivity

To optimize the signal transduction from the receptor to the downstream cascade, a mammalian alpha subunit can be introduced which has affinity with the RI7-receptor [1]. For this, making a knockout of the native GPA1 gene is needed in order to let the subunit work as substitute. In the results we describe how we generated a knockout in yeast. In future work the alpha subunit should be expressed and characterized.

Parts

The receptor constructs and the reporter constructs are combined to have one complete olfactory system. The following biobricks are created:


BBa_K775005
BBa_K775006
BBa_K775007
BBa_K775008

Results

Characterization Far1 Knockout

The FAR1 has been knocked out to prevent growth arrest once a ligand has been added. To test this we have measured the optical density of Wild Type and Knockout strains with and without alpha feromones.

The results seem to show that there is a reduction in growth in both strains after the addition of alpha-feromones, although the Δfar1-strain shows less reduction.
Another remarkable feature is that the Δfar1-strain generally appears to grow faster than the Wild-type strain. A possible explanation is that the gene for growth-arrest has been knocked out. The FAR1 is not only related to the mating response, but is also a control in the mitotic cycle of budding yeast. [2]

Transformations

Yeast strains were successfully transformed with the GPR109A receptor and output BBa_K775005, called NR1 (niacin reporter). The RI7-ODR10 receptor and output BBa_K775008. Olfr154 receptor and output BBa_K775010, called BR1 (banana reporter 1) and RI7-OR1G1 receptor and output BBa_K775011, called BR2 (banana reporter 2).


Niacin Snifferomyces


Setup

In order to test the yeast NR1 cells with niacin receptor and the receptor inducible GFP reporter we induced the cells with niacin or alpha pheromone and measured the cellular response through flow cytometry, measuring the EGFP signal intensity.
Outcome

Flow cytometry data of +NR1 cells induced with niacin or alpha pheromones is shown.

Here we see that addition of receptor ligand doesn’t induce an increased light response in comparison with alpha induced cells. Possible explanations are:

  • A too small subset of the yeast receptors is localized in the membrane.
  • The affinity of the receptor with the alpha subunit is too low.
  • Isoamyl acetate Snifferomyces

    Setup
    Outcome

    Conclusions

    Four olfactory system biobricks were added to the registry. The light response when adding ligand was seen with single cells, but didn't lead to statistical significant data. Further we observed that expression of receptors led to decreased fitness and non-typical morphology.


    Recommendations

    To increase expression and light intensity of the cells in response to a ligand the following conditions can be tested:
    • Make the receptor expression time as short as possible. Use an inducible promoter or make stocks directly as soon as possible after transformation
    • There are indications that succesful expression can be altered by decreasing the temperature during receptor expression. When we tested this the growth rate was slow and therefore the expression time became too long. An inducible promoter can solve this problem too.
    • The affinity towards the downstream pathway could be increased when the pheromone binding subunit alpha is knocked out (dGPA1) and replaced by a mammalian one (typically NP_034437.1 is used. We didn't have the time to test this hypothesis, further investigation is needed!

    References

    [1] Jasmina Minic, Marie-annick Persuy, Elodie Godel, Josiane Aioun, Ian Connerton, Roland Salesse, Functional expression of olfactory receptors in yeast and development of a bioassay for odorant screening, FEBS Journal (2005)
    [2] "A cell sizer network involving Cln3 and Far1 controls entrance into S phase in the mitotic cycle of budding yeast" Alberghina et al. November 1, 2004 // JCB vol. 167 no. 3 433-443

    Recommendation