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Team:USTC CHINA/Modeling/ReporterSystem
From 2013.igem.org
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When the product being used, user shall stick the Sticker to the skin when the blue pigment displayed.So the system is visualized and user-friendly. </br> | When the product being used, user shall stick the Sticker to the skin when the blue pigment displayed.So the system is visualized and user-friendly. </br> | ||
（加变蓝的流程图那部分！！）（？？）</br> | （加变蓝的流程图那部分！！）（？？）</br> | ||
| - | + | ||
<div> | <div> | ||
<h2>Results</h2> | <h2>Results</h2> | ||
① </br> | ① </br> | ||
| + | https://static.igem.org/mediawiki/2013/4/4d/Reporter_1.tif</br> | ||
B.subtilis Plasmid PHT43+p43+amilCP</br> | B.subtilis Plasmid PHT43+p43+amilCP</br> | ||
Colony PCR 14 single clones </br> | Colony PCR 14 single clones </br> | ||
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In our experiment , we discovered that the promoter P43 is too weak to express amilCP for a blue-color display. So we redesigned the circuits , aiming to find a more feasible plan, and test the part amilCP simultaneously. The new disign contains two circuits:</br> | In our experiment , we discovered that the promoter P43 is too weak to express amilCP for a blue-color display. So we redesigned the circuits , aiming to find a more feasible plan, and test the part amilCP simultaneously. The new disign contains two circuits:</br> | ||
<h2>1 Pgrac-amilCP-Terminator</h2> | <h2>1 Pgrac-amilCP-Terminator</h2> | ||
| + | |||
We use the Promoter grac , a promotor with lac promotor ,on the PHT vector to express amilCP, instead of Promoter 43. The Promoter grac is strong enough ,so we can easily see the results theoretically. </br> | We use the Promoter grac , a promotor with lac promotor ,on the PHT vector to express amilCP, instead of Promoter 43. The Promoter grac is strong enough ,so we can easily see the results theoretically. </br> | ||
| + | https://static.igem.org/mediawiki/2013/2/22/Reporter_2.tif | ||
pgrac-amilCP overlap PCR（右三道） PSBC3双酶切（左四道 ）</br> | pgrac-amilCP overlap PCR（右三道） PSBC3双酶切（左四道 ）</br> | ||
<h2>2 P43-amilcp-SigB-Terminator</h2> | <h2>2 P43-amilcp-SigB-Terminator</h2> | ||
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We design a circuit of killing switch based on its endogenous genetic system.</br> | We design a circuit of killing switch based on its endogenous genetic system.</br> | ||
In B.subtilis, when it comes to the stationary phase, the environmental pressure increases and nutrition becomes limited, so B begin to produce spores. Now the community will be divided into two different parts. One of them are trying to kill others to get enough nutrient , delaying the production of spores and achieving a competitive advantage. Killing is mediated by the exported toxic protein SdpC. SdpI will appear on the membrane surface to avoid itself from being damaged. SdpI could bind free SdpC and autopressor SdpR, to remove SdpR’s inhibition against I and R, to produce more SdpI to offset SdpC, finally guaranteeing the subgroup alive, thereby delaying the spores production.</br> | In B.subtilis, when it comes to the stationary phase, the environmental pressure increases and nutrition becomes limited, so B begin to produce spores. Now the community will be divided into two different parts. One of them are trying to kill others to get enough nutrient , delaying the production of spores and achieving a competitive advantage. Killing is mediated by the exported toxic protein SdpC. SdpI will appear on the membrane surface to avoid itself from being damaged. SdpI could bind free SdpC and autopressor SdpR, to remove SdpR’s inhibition against I and R, to produce more SdpI to offset SdpC, finally guaranteeing the subgroup alive, thereby delaying the spores production.</br> | ||
| + | https://static.igem.org/mediawiki/2013/2/2b/Reporter_3.png | ||
We transfer SdpC which is fused by promoter SdpI/R into high copy plasmids in order to damage the balance of the system, thereby killing whole colony. When SdpC appears, SdpI on the membrane will bind free SdpC and adsorb SdpR to cease its inhibition against SdpI P/R, trying to produce more SdpI. At the same time, it will activate the promoter SdpR/I in our circuits and generate more SdpC.The system would fall into an infinite loop, and according to our modeling ,the amount of SdpC increases beyond the ability of SdpI.Thus,the cells with protection mechanism will crack and die because of too much SdpC. All above forms the killing device. | We transfer SdpC which is fused by promoter SdpI/R into high copy plasmids in order to damage the balance of the system, thereby killing whole colony. When SdpC appears, SdpI on the membrane will bind free SdpC and adsorb SdpR to cease its inhibition against SdpI P/R, trying to produce more SdpI. At the same time, it will activate the promoter SdpR/I in our circuits and generate more SdpC.The system would fall into an infinite loop, and according to our modeling ,the amount of SdpC increases beyond the ability of SdpI.Thus,the cells with protection mechanism will crack and die because of too much SdpC. All above forms the killing device. | ||
We Also designed a test circuit,which contains promotor grac and sdpABC only,aiming to determine the ability of SdpC.</br> | We Also designed a test circuit,which contains promotor grac and sdpABC only,aiming to determine the ability of SdpC.</br> | ||
<h2>Results</h2> | <h2>Results</h2> | ||
| + | https://static.igem.org/mediawiki/2013/e/ec/Reporter_4.tif</br> | ||
Colony PCR E.coli PHT43 + Promotor grac + SdpABC</br> | Colony PCR E.coli PHT43 + Promotor grac + SdpABC</br> | ||
| + | https://static.igem.org/mediawiki/2013/9/92/Reporter_5.tif</br> | ||
PHT43 + Promotor SdpRI + SdpABC Enzyme digestion</br> | PHT43 + Promotor SdpRI + SdpABC Enzyme digestion</br> | ||
</div> | </div> | ||
Revision as of 06:39, 25 September 2013
Contents |
【introduction】
To be more user-friendly, 4# circuit contains a reporting system. After melting in water, the spores germinate and express blue pigment protein to report the best using time.</br> Meanwhile, 4# circuit could also ensure biosafety. Because other circuit do not have self-killing device, 4# engineering bacterial should kill all the bacterial after using.</br>
【user-friendly visualizing system】
T-vaccine is also a user-friendly product. Our potential users are not medical professionals. They activate T-vaccine by exposing it to water, and the patch gives visualized signal to notify users whether the status of engineered bacteria is all right and when to stick the patch to arms. We achieve this simply with the regulation of promoter 43,which is recognized by sigma factor A. The activity of promoter 43 is maximal during the exponential growth phase. In other word,s we expect engineered bacillus to express blue pigment a few hours before expressing massive antigens and adjuvants. It is the perfect time.</br> When the product being used, user shall stick the Sticker to the skin when the blue pigment displayed.So the system is visualized and user-friendly. </br> （加变蓝的流程图那部分！！）（？？）</br>
Results
① </br> https://static.igem.org/mediawiki/2013/4/4d/Reporter_1.tif</br> B.subtilis Plasmid PHT43+p43+amilCP</br> Colony PCR 14 single clones </br>
【improving】
In our experiment , we discovered that the promoter P43 is too weak to express amilCP for a blue-color display. So we redesigned the circuits , aiming to find a more feasible plan, and test the part amilCP simultaneously. The new disign contains two circuits:</br>
1 Pgrac-amilCP-Terminator
We use the Promoter grac , a promotor with lac promotor ,on the PHT vector to express amilCP, instead of Promoter 43. The Promoter grac is strong enough ,so we can easily see the results theoretically. </br> https://static.igem.org/mediawiki/2013/2/22/Reporter_2.tif pgrac-amilCP overlap PCR（右三道） PSBC3双酶切（左四道 ）</br>
2 P43-amilcp-SigB-Terminator
We plan to use a positive feedback to magnify the expressing of amilCP. Because the P43 is a sigma B factor binding promotor, we designed a circuit, that the P43 is fused to the sigma B factor. We hope this could increase the response of P43.</br> Course of time limitation, we haven’t put this design to experiment.
【designing of the suicide system】
We design a circuit of killing switch based on its endogenous genetic system.</br>
In B.subtilis, when it comes to the stationary phase, the environmental pressure increases and nutrition becomes limited, so B begin to produce spores. Now the community will be divided into two different parts. One of them are trying to kill others to get enough nutrient , delaying the production of spores and achieving a competitive advantage. Killing is mediated by the exported toxic protein SdpC. SdpI will appear on the membrane surface to avoid itself from being damaged. SdpI could bind free SdpC and autopressor SdpR, to remove SdpR’s inhibition against I and R, to produce more SdpI to offset SdpC, finally guaranteeing the subgroup alive, thereby delaying the spores production.</br>
We transfer SdpC which is fused by promoter SdpI/R into high copy plasmids in order to damage the balance of the system, thereby killing whole colony. When SdpC appears, SdpI on the membrane will bind free SdpC and adsorb SdpR to cease its inhibition against SdpI P/R, trying to produce more SdpI. At the same time, it will activate the promoter SdpR/I in our circuits and generate more SdpC.The system would fall into an infinite loop, and according to our modeling ,the amount of SdpC increases beyond the ability of SdpI.Thus,the cells with protection mechanism will crack and die because of too much SdpC. All above forms the killing device.
We Also designed a test circuit,which contains promotor grac and sdpABC only,aiming to determine the ability of SdpC.</br>
Results
https://static.igem.org/mediawiki/2013/e/ec/Reporter_4.tif</br> Colony PCR E.coli PHT43 + Promotor grac + SdpABC</br> https://static.igem.org/mediawiki/2013/9/92/Reporter_5.tif</br> PHT43 + Promotor SdpRI + SdpABC Enzyme digestion</br>
【References】
Parallel pathways of repression and antirepression governing the transition to stationary phase in Bacillus subtilis AV Banse, A Chastanet, L Rahn-Lee…,PNAS ,2008 </br>
Cannibalism by Sporulating Bacteria José E. González-Pastor*, Errett C. Hobbs, Richard Losick† Science 25 July 2003</br>
A three-protein signaling pathway governing immunity to a bacterial cannibalism toxin CD Ellermeier, EC Hobbs, JE Gonzalez-Pastor… - Cell, 2006 </br>
Cannibalism: a social behavior in sporulating Bacillus subtilis JE González‐Pastor - FEMS microbiology reviews, 2011 </br>
