Team:NCTU Formosa/results

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===37 degrees Celsius RBS===
===37 degrees Celsius RBS===
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<p>Using biobrick, P<sub>cons</sub>+37°C RBS+mGFP+J61048, we tested the function of the 37°C RBS at room temperature and 37°C.</p>
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<p>Using biobrick, P<sub>cons</sub>+37°C RBS+mGFP+J61048, we tested the function of the 37°C RBS at room temperature (around 25°C) and at37°C.</p>
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[[File:NCTU_37RBS_biobrick.png|center|400px|Fig 5. The biobrick for testing the function of 37°C RBS.]]
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[[File:NCTU_37RBS_biobrick.png|center|400px|Figure 5 The biobrick for testing the function of 37°C RBS.]]
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[[File:NCTU_37RBS_Picture.JPG|center|600px|Fig 6. The differences between the level of GFP expressions can be easily observed under UV light.]]
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[[File:NCTU_37RBS_Picture.JPG|center|600px|Figure 6 The differences between the level of GFP expressions can be easily observed under UV light.]]
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As shown on Fig 7. the expression of GFP under 37°C is much higher than the expression under 25°C. Such resultdemonstrates that 37°C RBS can effectively regulate gene expression by responding to temperature. The increased kinetic energy at37°C is sufficient to causes the 37°C RBS to unfold and become available for ribosome binding. Under 37°C, for example at room temperature, the 37°C RBS remains as a hairpin structure that prevents ribosome binding. Such secondary structure causes the translational efficiency to be very low, and thus, causing the level of GFP to be low as well.  
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As shown in '''Figure 7''' the expression of GFP under 37°C is much higher than the expression under room temperature . Such result demonstrates the fact that 37°C RBS can effectively regulate gene expression by responding to temperature. The increased kinetic energy at 37°C is sufficient to cause the 37°C RBS to unfold and become available for ribosome binding. At room temperature, however, there isn't sufficient kinetic energy to unfold the hairpin structure and the structure is able preserved. As a result, the translational efficiency is very low at room tempersture.
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[[File:NCTU_37RBS_Graph.JPG|center|600px|Fig 7. The normalized expression under 37°C is higher than the expression under room temperature by about 6 folds.]]
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[[File:NCTU_37RBS_Graph.JPG|center|600px|Figure 7 The normalized expression under 37°C is higher than the expression under room temperature by about 6 folds.]]

Revision as of 13:23, 25 September 2013

Results

The current progress of our project, including detailed information of the experimental data and the overall evaluation of the practicability of this project.

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Contents

RBS efficiency

We used the following biobrick to test the efficiency of different RBSs:

  1. Pcons+BBa_B0034+mRFP+Ter
  2. Pcons+[http://parts.igem.org/wiki/index.php?title=Part:BBa_K1017202 BBa_K1017202]+mRFP+Ter
  3. Pcons+BBa_B0030+mRFP+Ter
  4. Pcons+BBa_B0032+mRFP+Ter
  5. control:pet40

As you can see from Figure 1 and Figure 2, the bacterial pellet of each biobrick shows different level of RFP expressions as each RBS provides a different translation efficiency. The deeper the red color is, the higher the level of expression is.

Figure 1 B0034 clearly expressed more RFP compared to others.
Figure 2 From left to right, the ribosome biding sites respectively: B0032, Target 1, B0030, B0034, control.


We measured the OD600 value and the florescence expression (emmision 612 nm and excitation 584 nm) for each biobrick mentioned above. The result is shown in Figure 3. We calculated the normalized expression by dividing fluorescence expression with the OD value measured, since the higher the OD value is, the larger the amount of bacteria that can express florescence would be. As shown in Figure 3, the normalized expression of the biobrick with B0034 is the highest and the one with target 1, K1017202, is the second highest, while the other two of B0032 and B0030 show weak expressions. This result implies that target 1 can, in fact, serve as a functional RBS. In comparison to other RBS, target 1 can provide moderate translational efficiency that is just lower than that of the highly efficient B0034.

Figure 3 Target 1 shows moderate expression compared to the others.

37 degrees Celsius RBS

Using biobrick, Pcons+37°C RBS+mGFP+J61048, we tested the function of the 37°C RBS at room temperature (around 25°C) and at37°C.

Figure 5 The biobrick for testing the function of 37°C RBS.
Figure 6 The differences between the level of GFP expressions can be easily observed under UV light.


As shown in Figure 7 the expression of GFP under 37°C is much higher than the expression under room temperature . Such result demonstrates the fact that 37°C RBS can effectively regulate gene expression by responding to temperature. The increased kinetic energy at 37°C is sufficient to cause the 37°C RBS to unfold and become available for ribosome binding. At room temperature, however, there isn't sufficient kinetic energy to unfold the hairpin structure and the structure is able preserved. As a result, the translational efficiency is very low at room tempersture.

Figure 7 The normalized expression under 37°C is higher than the expression under room temperature by about 6 folds.



Expected sRNA regulation efficiency

To test the regulation efficiency of sRNA, we employed the following biobricks: Pcons + rRBS + mGFP + J61048 and Pcons + B0030 + lacI + J61048 + Plac + sRNA.

Fig 5. The biobrick of testing the sRNA.
Fig 6. sRNA regulation

The graph above shows the relationship between the concentration of IPTG added and the red florescent measured. The more IPTG added, the more sRNA can be produced by Plac as IPTG serves to activate the promoter. In other words, the amount of sRNA and the concentration of IPTG forms a liner relationship. With more IPTG, and therefore, more sRNA the amount of red fluorescent measured decreases. This implies that sRNA can effectively regulate the expression of RFP by decreasing the translation efficiency and the stability of rRBS.


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