Difference between revisions of "Part:BBa K1638031"

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<partinfo>BBa_K1638031 short</partinfo>
 
<partinfo>BBa_K1638031 short</partinfo>
  
This part consist of the leucine zipper region of the yeast GCN4 protein fused to the T18 domain as used in the bacterial two-hybrid system. This part allows test of functional complementation between the T18 and T25 domain. When T18-zip and T25-zip are co-transformed, the homodimerisation of the two leucine zipper will cause association of the T18 and T25 domain and catalyse formation of cAMP. By using the cAMP-induced reporter construct ([https://parts.igem.org/Part:BBa_K861173 mRFP generator controlled by the promoter PcstA]), one can detect correct complementation by the appearance of red colonies [1].   
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This part consist of the leucine zipper region of the yeast GCN4 protein fused to the T18 domain as used in the bacterial two-hybrid system [1]. This part allows test of functional complementation between the T18 and T25 domain. When T18-zip and T25-zip are co-transformed, the homodimerisation of the two leucine zipper will cause association of the T18 and T25 domain and catalyse formation of cAMP. By using the cAMP-induced reporter construct ([https://parts.igem.org/Part:BBa_K861173 mRFP generator controlled by the promoter PcstA]), one can detect correct complementation by the appearance of red colonies.   
  
 
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<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>
 
<partinfo>BBa_K1638031 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K1638031 SequenceAndFeatures</partinfo>
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===Characterization===
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To validate that our T18 and T25 domain constructs in fact can be used to study protein-protein interactions, we made a control experiment, where the leucine zipper region from the GCN4 yeast protein was fused to the T18 and T25 domains (T18-Zip+T25-Zip). Leucine zippers are known to interact by forming homodimers. If the system indeed works, their interaction will lead to functional complementation between the T18 and T25 domains. This leads to the synthesis of cAMP. By using the cAMP-induced <i>lacZ</i> reporter system, one can observe whether or not there is an interaction. This system is part of the <i>cyaA</i>-deficient <i>Escherichia coli</i> K12-strain BTH101 (MC1061-derived). The <i>lacZ</i> gene encodes a β-Galactosidase which is positively controlled by cAMP.
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Four different combinations were sequentially co-transformed into the BTH101-strain¤:
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    <li>pSB1C3-T18+pSB1K3-T25</li>
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    <li>pSB1C3-T18+pSB1K3-T25-Zip</li>
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    <li>pSB1C3-T18-Zip+pSB1K3-T25</li>
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    <li>pSB1C3-T18-Zip+pSB1K3-T25-Zip</li>
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These transformations were plated out on LB/X-gal plates with appropriate antibiotics (chloramphenicol 25 µg/ml and kanamycin 25 µg/ml) and 40 µg/ml X-gal (5-bromo-4-chloro-3-indolyl-β-D-galactopyranoside). X-gal produces a blue dye, when cleaved by β-Galactosidase. This will give a characteristic blue phenotype.
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[[File:BBa_K1638011_THvalidation.png‎|300px|thumb|left|Plate streaking of transformed BTH101 on LB/X-gal plates containing pSB1C3-T18+pSB1K3-T25, pSB1C3-T18-Zip+pSB1K3-T25, pSB1C3-T18-Zip+pSB1K3-T25 and pSB1C3-T18-Zip+pSB1K3-T25-Zip. Both the transformations and the streaks of the transformed BTH101 were incubated at 37<sup>o</sup>C overnight. ]]
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As expected, the results only showed complementation between T18 and T25 when the leucine zipper was fused to both of the domains.  These results prove that leucine zippers form homodimers, and that our T18/T25 constructs function as expected. This indicates that the system indeed can be used to study protein-protein interactions.
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¤Note: all of the constructs were under control by lac promoter, Plac.
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<b>Characterization of <i>cstA</i> promoter, PcstA</b>
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[[File:K1135002_PcstAtranscriptionalactivity.png‎|330px|thumb|left|Transcriptional activity of PcstA during growth by measurering RNA. Negative control of MG1655Δ<i>cyaA</i> in LB, WT in LB+0.2% glucose, and WT in LB. Samples collected at different OD<sub>600</sub>measurements. Graph shows intensities of mRNA-<i>gfp</i> normalized according to intensity of 5S.]]
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We set up to measure promotor activity of PcstA by measurering levels of <i>gfp</i>-mRNA with bacteria transformed with PcstA-<i>gfp</i> (<partinfo>BBa_K1135002</partinfo>). MG1655Δ<i>cyaA</i>, LB was used as a negative control. Samples were collected at different OD<sub>600</sub>-measurements. A single sample from the negative control was collected at OD<sub>600</sub> = 0.3. The RNA from the samples was purified and a Northen Blot with <i>gfp</i> and 5S probes was performed.
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Generally during the exponential phase of the bacteria, they have a high level of transcriptional activity. However, levels of 5S rRNA are relatively constant at all times. The transcription of <i>gfp</i> increase as the cells enter exponential phase between the two OD<sub>600</sub> measurements 0.1 and 0.3. As expected, very low levels of <i>gfp</i> can be detected in the negative control. This strain lacks the ability to generate cAMP, and thus very little transcription is induced. The small amounts of <i>gfp</i> could be explained by leakiness of PcstA or that CAP alone initiates some transcription.
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In the setup with WT, LB it is quite clear that the amount of <i>gfp</i> rises, compared to WT, LB+0.2% glucose. Transcription is clearly affected by the presence of glucose. One measurement WT, LB OD<sub>600</sub> = 0.8 stands out. The result is not readily explained, but is probably due to some error. But the tendency of the results correlates with the knowledge of the invert relationship between glucose and cAMP. Glucose signaling will repress adenylate cyclase-activity, thus intracellular levels of cAMP will be low in high-energy states, and little transcription of <i>gfp</i> will be initiated.
  
 
===References===
 
===References===

Latest revision as of 16:19, 18 September 2015

Leucine zipper fused to T18 domain of cyaA with cAMP-induced RFP generator

This part consist of the leucine zipper region of the yeast GCN4 protein fused to the T18 domain as used in the bacterial two-hybrid system [1]. This part allows test of functional complementation between the T18 and T25 domain. When T18-zip and T25-zip are co-transformed, the homodimerisation of the two leucine zipper will cause association of the T18 and T25 domain and catalyse formation of cAMP. By using the cAMP-induced reporter construct (mRFP generator controlled by the promoter PcstA), one can detect correct complementation by the appearance of red colonies.

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 1719
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal NgoMIV site found at 1260
    Illegal NgoMIV site found at 1670
    Illegal AgeI site found at 712
    Illegal AgeI site found at 824
    Illegal AgeI site found at 1476
  • 1000
    COMPATIBLE WITH RFC[1000]

Characterization

To validate that our T18 and T25 domain constructs in fact can be used to study protein-protein interactions, we made a control experiment, where the leucine zipper region from the GCN4 yeast protein was fused to the T18 and T25 domains (T18-Zip+T25-Zip). Leucine zippers are known to interact by forming homodimers. If the system indeed works, their interaction will lead to functional complementation between the T18 and T25 domains. This leads to the synthesis of cAMP. By using the cAMP-induced lacZ reporter system, one can observe whether or not there is an interaction. This system is part of the cyaA-deficient Escherichia coli K12-strain BTH101 (MC1061-derived). The lacZ gene encodes a β-Galactosidase which is positively controlled by cAMP.

Four different combinations were sequentially co-transformed into the BTH101-strain¤:

  • pSB1C3-T18+pSB1K3-T25
  • pSB1C3-T18+pSB1K3-T25-Zip
  • pSB1C3-T18-Zip+pSB1K3-T25
  • pSB1C3-T18-Zip+pSB1K3-T25-Zip


These transformations were plated out on LB/X-gal plates with appropriate antibiotics (chloramphenicol 25 µg/ml and kanamycin 25 µg/ml) and 40 µg/ml X-gal (5-bromo-4-chloro-3-indolyl-β-D-galactopyranoside). X-gal produces a blue dye, when cleaved by β-Galactosidase. This will give a characteristic blue phenotype.


Plate streaking of transformed BTH101 on LB/X-gal plates containing pSB1C3-T18+pSB1K3-T25, pSB1C3-T18-Zip+pSB1K3-T25, pSB1C3-T18-Zip+pSB1K3-T25 and pSB1C3-T18-Zip+pSB1K3-T25-Zip. Both the transformations and the streaks of the transformed BTH101 were incubated at 37oC overnight.
























As expected, the results only showed complementation between T18 and T25 when the leucine zipper was fused to both of the domains. These results prove that leucine zippers form homodimers, and that our T18/T25 constructs function as expected. This indicates that the system indeed can be used to study protein-protein interactions.

¤Note: all of the constructs were under control by lac promoter, Plac.

Characterization of cstA promoter, PcstA

Transcriptional activity of PcstA during growth by measurering RNA. Negative control of MG1655ΔcyaA in LB, WT in LB+0.2% glucose, and WT in LB. Samples collected at different OD600measurements. Graph shows intensities of mRNA-gfp normalized according to intensity of 5S.


We set up to measure promotor activity of PcstA by measurering levels of gfp-mRNA with bacteria transformed with PcstA-gfp (BBa_K1135002). MG1655ΔcyaA, LB was used as a negative control. Samples were collected at different OD600-measurements. A single sample from the negative control was collected at OD600 = 0.3. The RNA from the samples was purified and a Northen Blot with gfp and 5S probes was performed.

Generally during the exponential phase of the bacteria, they have a high level of transcriptional activity. However, levels of 5S rRNA are relatively constant at all times. The transcription of gfp increase as the cells enter exponential phase between the two OD600 measurements 0.1 and 0.3. As expected, very low levels of gfp can be detected in the negative control. This strain lacks the ability to generate cAMP, and thus very little transcription is induced. The small amounts of gfp could be explained by leakiness of PcstA or that CAP alone initiates some transcription.

In the setup with WT, LB it is quite clear that the amount of gfp rises, compared to WT, LB+0.2% glucose. Transcription is clearly affected by the presence of glucose. One measurement WT, LB OD600 = 0.8 stands out. The result is not readily explained, but is probably due to some error. But the tendency of the results correlates with the knowledge of the invert relationship between glucose and cAMP. Glucose signaling will repress adenylate cyclase-activity, thus intracellular levels of cAMP will be low in high-energy states, and little transcription of gfp will be initiated.

References

[1]: Karimova G, Pidoux J, Ullmann A, Ladant D. A bacterial two-hybrid system based on a reconstituted signal transduction pathway. Proceedings of the National Academy of Sciences of the United States of America. 1998;95(10):5752-6.