Difference between revisions of "Part:BBa K1592005"
 
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Cryptochrome 2 (CRY2) is a blue light stimulated photoreceptor, when exposed to blue light, it would interact with CIB1.  
 
Cryptochrome 2 (CRY2) is a blue light stimulated photoreceptor, when exposed to blue light, it would interact with CIB1.  
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This part is a Gal4 DNA binding domain fused to N terminus of CRY2.
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===Usage and Biology===
 
===Usage and Biology===
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The CRY2/CIB1 interaction is entirely genetically encoded and does not require addition of any exogenous cofactors. The binding naturally reverses within minutes in the dark, allowing rapid shutoff of transcription by placing samples in the dark.  
 
The CRY2/CIB1 interaction is entirely genetically encoded and does not require addition of any exogenous cofactors. The binding naturally reverses within minutes in the dark, allowing rapid shutoff of transcription by placing samples in the dark.  
 
This fusion protein is for use in a yeast-two-hybrid system, and a Gal4 DNA binding domain fused to its C terminus.
 
This fusion protein is for use in a yeast-two-hybrid system, and a Gal4 DNA binding domain fused to its C terminus.
 
To regulate DNA transcription by blue light, the system is based on a two-hybrid interaction in which a light-mediated protein interaction brings together two halves (a binding domain and an activation domain) of a split transcription factor. If we remove the stimulation of blue light, dark reversion of CRY2 will dissociate the interaction with CIB1 and halt Gal4-dependent transcription.
 
To regulate DNA transcription by blue light, the system is based on a two-hybrid interaction in which a light-mediated protein interaction brings together two halves (a binding domain and an activation domain) of a split transcription factor. If we remove the stimulation of blue light, dark reversion of CRY2 will dissociate the interaction with CIB1 and halt Gal4-dependent transcription.
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[[File:yeast-two-hybrid.png|400px|thumb|center|The principle of blue-light-control system based on yeast-two-hybrid.]]
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[[File:yeast-two-hybrid.png|600px|thumb|center|The principle of blue-light-control system based on yeast-two-hybrid.]]
  
 
<h2>'''Modeling'''</h2>
 
<h2>'''Modeling'''</h2>
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<h1>'''Characterization'''</h1>
 
<h1>'''Characterization'''</h1>
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From addgene, we received a plasmid pRMH120 that containing both Gal4BD-CRY2 and Gal4AD-CIB1 fusions on a p414TEF backbone. These two fusions are under the control of constitutive promoter PTEF1 and PADH1 respectively. Since promoter PGal1 and downstream gene β-galactosidase exists in yeast Y187 originally, we can validate the light-control system by testing the activity of β-galactosidase. Thus, we use Saccharomyces cerevisiae Y187 as chassis to test the light-control system.  
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From addgene, we received a plasmid pRMH120 that containing both Gal4BD-CRY2 and Gal4AD-CIB1 fusions on a p414TEF backbone. These two fusions are under the control of constitutive promoter P<sub>TEF1</sub> and P<sub>ADH1</sub> respectively. Since promoter PGal1 and downstream gene β-galactosidase exists in yeast Y187 originally, we can validate the light-control system by testing the activity of β-galactosidase. Thus, we use Saccharomyces cerevisiae Y187 as chassis to test the light-control system.  
  
  
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Experiments were carried out three times with similar results to show. We observed that pRMH120 transformed cells incubated in white light (18W) gave distinguishable activation from pRMH120 tansformed cells incubated in total darkness, which means that GalBD-CRY2 coupled well with GalAD-CIB1 for light-inducible protein expression. Considering AD and BD could bind randomly, the result that the strains with pRMH120 in darkness was also activated a bit than the control wildtype yeast is reasonable.
 
Experiments were carried out three times with similar results to show. We observed that pRMH120 transformed cells incubated in white light (18W) gave distinguishable activation from pRMH120 tansformed cells incubated in total darkness, which means that GalBD-CRY2 coupled well with GalAD-CIB1 for light-inducible protein expression. Considering AD and BD could bind randomly, the result that the strains with pRMH120 in darkness was also activated a bit than the control wildtype yeast is reasonable.
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===Improvement===
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2016 SZU-China has improved the binding domain of this part and gave it a new name([https://parts.igem.org/Part:BBa_K1884001 BBa_K1884001])
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<span class='h3bb'>Sequence and Features</span>
 
<span class='h3bb'>Sequence and Features</span>

Latest revision as of 22:07, 19 October 2016

GalBD-CRY2 Fusion for Yeast-Two-Hybrid

Cryptochrome 2 (CRY2) is a blue light stimulated photoreceptor, when exposed to blue light, it would interact with CIB1. This part is a Gal4 DNA binding domain fused to N terminus of CRY2.


Usage and Biology

The CRY2/CIB1 interaction is entirely genetically encoded and does not require addition of any exogenous cofactors. The binding naturally reverses within minutes in the dark, allowing rapid shutoff of transcription by placing samples in the dark. This fusion protein is for use in a yeast-two-hybrid system, and a Gal4 DNA binding domain fused to its C terminus. To regulate DNA transcription by blue light, the system is based on a two-hybrid interaction in which a light-mediated protein interaction brings together two halves (a binding domain and an activation domain) of a split transcription factor. If we remove the stimulation of blue light, dark reversion of CRY2 will dissociate the interaction with CIB1 and halt Gal4-dependent transcription.

The principle of blue-light-control system based on yeast-two-hybrid.

Modeling

Before the circuit was determined, there were two kinds of light control system for choice: the CRY2-CIB1 system and the PhyA-FHL system. To find out the system that fits our circuit better, we simulated both of them with the DDEs model.

Figure 1.1: Simulation of PhyA-FHL system
Figure 1.2: Simulation of CRY2-CIB1 system

The figure 1.1 and 1.2 shows the following facts:

1. The values of (active)PhyA, (active)FHL, (active)CRY2, (active)CIB1 are relatively low and remains at a certain level (approximately 0~7nM).

2. The peak of CRY2-CIB1 system appears earlier than the one of PhyA-FHL system.

3. The value of Rox1 in CRY2-CIB1 system decreases faster than the one in PhyA-FHL system.


We can safely derive the following conclusions from the figures above.

1. The photoactive subjects are of low concentration but they remain at a certain level.

2. Compared to the PhyA-FHL system, the CRY2-CIB1 system is more sensitive to light exposure (The peak of CRY2-CIB1 system appears earlier than the one of PhyA-FHL system) and the PhyA-FHL system has a time-lag for photoactivation.

3. The rate of Rox1 degradation in CRY2-CIB1 system is higher than the one in PhyA-FHL system, which means the darkness induction could shut down quickly so that the downstream systems could be activated.

Hence, we considered CRY2-CIB1 system more advantageous and applied it to our project.


Characterization

From addgene, we received a plasmid pRMH120 that containing both Gal4BD-CRY2 and Gal4AD-CIB1 fusions on a p414TEF backbone. These two fusions are under the control of constitutive promoter PTEF1 and PADH1 respectively. Since promoter PGal1 and downstream gene β-galactosidase exists in yeast Y187 originally, we can validate the light-control system by testing the activity of β-galactosidase. Thus, we use Saccharomyces cerevisiae Y187 as chassis to test the light-control system.


Figure3: β-galactosidase activity of CRY2-CIB1 system tested in darkness or light. The control group was wildtype Y187. (Error bars represent sample standard error, n = 4).


Experiments were carried out three times with similar results to show. We observed that pRMH120 transformed cells incubated in white light (18W) gave distinguishable activation from pRMH120 tansformed cells incubated in total darkness, which means that GalBD-CRY2 coupled well with GalAD-CIB1 for light-inducible protein expression. Considering AD and BD could bind randomly, the result that the strains with pRMH120 in darkness was also activated a bit than the control wildtype yeast is reasonable.

Improvement

2016 SZU-China has improved the binding domain of this part and gave it a new name(BBa_K1884001)







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 849
    Illegal BglII site found at 1308
    Illegal BamHI site found at 1793
    Illegal XhoI site found at 218
    Illegal XhoI site found at 445
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    INCOMPATIBLE WITH RFC[25]
    Illegal AgeI site found at 733
    Illegal AgeI site found at 1462
  • 1000
    INCOMPATIBLE WITH RFC[1000]
    Illegal BsaI site found at 137
    Illegal BsaI site found at 1085
    Illegal BsaI.rc site found at 494
    Illegal SapI.rc site found at 602