IGEM:IMPERIAL/2008/New/Chassis 1 - Revision history

Tom Adie at 14:17, 9 October 2008

Tom Adie — Thu, 09 Oct 2008 14:17:41 GMT

←Older revision		Revision as of 14:17, 9 October 2008
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	3D bio-scaffolds are very useful for tissue culture and regenerative medicine, as they offer a suitable 3D enviroment for implanted cells to grow and proliferate. A good analogy would be scaffolding used in the construction industry. Our blue-sky aim is to construct a genetically-engineered machine that can fabricate bio-scaffolds with precise 3D shapes, directed by 3D holography.		3D bio-scaffolds are very useful for tissue culture and regenerative medicine, as they offer a suitable 3D enviroment for implanted cells to grow and proliferate. A good analogy would be scaffolding used in the construction industry. Our blue-sky aim is to construct a genetically-engineered machine that can fabricate bio-scaffolds with precise 3D shapes, directed by 3D holography.
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-	[[IGEM:IMPERIAL/2008/Prototype/Biomaterials \| '''>>> Details >>>''']]\|[[Image:Imperial_2008_Scaffold.jpg\|right\|~~200px~~\|3D Scaffold]]}}	+	[[IGEM:IMPERIAL/2008/Prototype/Biomaterials \| '''>>> Details >>>''']]\|[[Image:Imperial_2008_Scaffold.jpg\|right\|300px\|3D Scaffold]]}}
	<br clear="all"><hr>		<br clear="all"><hr>
	{{Imperial/Box1\|\|So ''B. subtilis'' fulfils our main specifications perfectly, and can be made to meet our minor specifications with relatively ease. On top of that, it does have other benefits, along with some challenges. These are listed on the next page, together with an overview of our development of ''B. subtilis'' as a chassis.		{{Imperial/Box1\|\|So ''B. subtilis'' fulfils our main specifications perfectly, and can be made to meet our minor specifications with relatively ease. On top of that, it does have other benefits, along with some challenges. These are listed on the next page, together with an overview of our development of ''B. subtilis'' as a chassis.

Tom Adie at 14:16, 9 October 2008

Tom Adie — Thu, 09 Oct 2008 14:16:00 GMT

←Older revision		Revision as of 14:16, 9 October 2008
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	The precise mechanism of how this works in ''B. subtilis'' has recently been elucidated. The flagella can be detached from the rotor by expression of a clutch molecule that interacts with the flagella and distorts it, so it is disengaged from the rotor protein. Control over the expression of this clutch should allow us to control the bacteria very quickly. When we want the bacteria to stop, we trigger expression of the clutch, which halts movement.		The precise mechanism of how this works in ''B. subtilis'' has recently been elucidated. The flagella can be detached from the rotor by expression of a clutch molecule that interacts with the flagella and distorts it, so it is disengaged from the rotor protein. Control over the expression of this clutch should allow us to control the bacteria very quickly. When we want the bacteria to stop, we trigger expression of the clutch, which halts movement.
-	~~<br><br>~~	+
-	[[Image:B_subtilis_Clutch_Mechanism.png\|center\|400px\|Motile ''B. subtilis'' cells are powered by interactions between protein complexes, generating torque for locomotion. The protein EpsE acts as a molecular clutch to disengage the flagellar motor, leaving the flagellum intact but unpowered. This quickly halts locomotion[http://www.sciencemag.org/cgi/reprint/320/5883/1599.pdf]]]	+
-	~~<br><br>~~	+
	To draw a parallel with a car, currently available synthetic methods of stopping bacteria are akin to destroying the engine. Our method is analogous to putting the car into neutral - disengaging the engine from the driveshaft. It is an elegant solution that offers us quick control and also the opportunity for quick reversal (putting the car back into "drive").		To draw a parallel with a car, currently available synthetic methods of stopping bacteria are akin to destroying the engine. Our method is analogous to putting the car into neutral - disengaging the engine from the driveshaft. It is an elegant solution that offers us quick control and also the opportunity for quick reversal (putting the car back into "drive").
	<br><br>		<br><br>
-	[[IGEM:IMPERIAL/2008/Prototype/Motility \| '''>>> Details >>>''']]}}	+	[[IGEM:IMPERIAL/2008/Prototype/Motility \| '''>>> Details >>>''']]
		+	\|[[Image:B_subtilis_Clutch_Mechanism.png\|center\|400px\|Motile ''B. subtilis'' cells are powered by interactions between protein complexes, generating torque for locomotion. The protein EpsE acts as a molecular clutch to disengage the flagellar motor, leaving the flagellum intact but unpowered. This quickly halts locomotion[http://www.sciencemag.org/cgi/reprint/320/5883/1599.pdf]]]}}

Qin Qi at 18:03, 27 September 2008

Qin Qi — Sat, 27 Sep 2008 18:03:42 GMT

←Older revision		Revision as of 18:03, 27 September 2008
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	[[IGEM:IMPERIAL/2008/Prototype/Biomaterials \| '''>>> Details >>>''']]\|[[Image:Imperial_2008_Scaffold.jpg\|right\|200px\|3D Scaffold]]}}		[[IGEM:IMPERIAL/2008/Prototype/Biomaterials \| '''>>> Details >>>''']]\|[[Image:Imperial_2008_Scaffold.jpg\|right\|200px\|3D Scaffold]]}}
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	<br clear="all"><hr>		<br clear="all"><hr>
	{{Imperial/Box1\|\|So ''B. subtilis'' fulfils our main specifications perfectly, and can be made to meet our minor specifications with relatively ease. On top of that, it does have other benefits, along with some challenges. These are listed on the next page, together with an overview of our development of ''B. subtilis'' as a chassis.		{{Imperial/Box1\|\|So ''B. subtilis'' fulfils our main specifications perfectly, and can be made to meet our minor specifications with relatively ease. On top of that, it does have other benefits, along with some challenges. These are listed on the next page, together with an overview of our development of ''B. subtilis'' as a chassis.

Qin Qi at 14:14, 27 September 2008

Qin Qi — Sat, 27 Sep 2008 14:14:09 GMT

←Older revision		Revision as of 14:14, 27 September 2008
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	[[IGEM:IMPERIAL/2008/Prototype/Biomaterials \| '''>>> Details >>>''']]\|[[Image:Imperial_2008_Scaffold.jpg\|right\|200px\|3D Scaffold]]}}		[[IGEM:IMPERIAL/2008/Prototype/Biomaterials \| '''>>> Details >>>''']]\|[[Image:Imperial_2008_Scaffold.jpg\|right\|200px\|3D Scaffold]]}}

-		+	<br clear="all"><hr>
	{{Imperial/Box1\|\|So ''B. subtilis'' fulfils our main specifications perfectly, and can be made to meet our minor specifications with relatively ease. On top of that, it does have other benefits, along with some challenges. These are listed on the next page, together with an overview of our development of ''B. subtilis'' as a chassis.		{{Imperial/Box1\|\|So ''B. subtilis'' fulfils our main specifications perfectly, and can be made to meet our minor specifications with relatively ease. On top of that, it does have other benefits, along with some challenges. These are listed on the next page, together with an overview of our development of ''B. subtilis'' as a chassis.
	<br><br>		<br><br>

Qin Qi at 14:12, 27 September 2008

Qin Qi — Sat, 27 Sep 2008 14:12:21 GMT

←Older revision		Revision as of 14:12, 27 September 2008
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	Light is the most obvious candidate, as holography allows us to generate complex patterns with well defined edges in 3D. After examining a number of light sensing pathways, we decided to utilise a native pathway involving YtvA, which is a protein used by ''B. subtilis'' to detect blue light. YtvA triggers a cascade of interactions, but some way down the chain, a molecule called sigma B (σ<sub>B</sub>) is produced. This, in turn, boosts the synthesis of YtvA.		Light is the most obvious candidate, as holography allows us to generate complex patterns with well defined edges in 3D. After examining a number of light sensing pathways, we decided to utilise a native pathway involving YtvA, which is a protein used by ''B. subtilis'' to detect blue light. YtvA triggers a cascade of interactions, but some way down the chain, a molecule called sigma B (σ<sub>B</sub>) is produced. This, in turn, boosts the synthesis of YtvA.

-	We plan to over-express YtvA and use σ<sub>B</sub> as a promoter for genes which stop movement and produce biomaterial. Therefore, when the bacteria detect blue light, those genes will turn on, the bacteria will stop and biomaterial synthesis will begin. <br><br>[[IGEM:IMPERIAL/2008/Prototype/~~Motility~~ \| '''>>> Details >>>''']]}}\|[[Image:Imperial_2008_Holgram_Art.jpg \|200px \| 3D blue holographic image by sculptor Eileen Borgeson[http://www.eileenborgeson.com/default.htm]]]\|}}	+	We plan to over-express YtvA and use σ<sub>B</sub> as a promoter for genes which stop movement and produce biomaterial. Therefore, when the bacteria detect blue light, those genes will turn on, the bacteria will stop and biomaterial synthesis will begin. <br><br>[[IGEM:IMPERIAL/2008/Prototype/Light\| '''>>> Details >>>''']]\|[[Image:Imperial_2008_Holgram_Art.jpg \|200px \| 3D blue holographic image by sculptor Eileen Borgeson[http://www.eileenborgeson.com/default.htm]]}}

Qin Qi at 14:10, 27 September 2008

Qin Qi — Sat, 27 Sep 2008 14:10:58 GMT

←Older revision		Revision as of 14:10, 27 September 2008
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	Light is the most obvious candidate, as holography allows us to generate complex patterns with well defined edges in 3D. After examining a number of light sensing pathways, we decided to utilise a native pathway involving YtvA, which is a protein used by ''B. subtilis'' to detect blue light. YtvA triggers a cascade of interactions, but some way down the chain, a molecule called sigma B (σ<sub>B</sub>) is produced. This, in turn, boosts the synthesis of YtvA.		Light is the most obvious candidate, as holography allows us to generate complex patterns with well defined edges in 3D. After examining a number of light sensing pathways, we decided to utilise a native pathway involving YtvA, which is a protein used by ''B. subtilis'' to detect blue light. YtvA triggers a cascade of interactions, but some way down the chain, a molecule called sigma B (σ<sub>B</sub>) is produced. This, in turn, boosts the synthesis of YtvA.

-	We plan to over-express YtvA and use σ<sub>B</sub> as a promoter for genes which stop movement and produce biomaterial. Therefore, when the bacteria detect blue light, those genes will turn on, the bacteria will stop and biomaterial synthesis will begin.\|[[Image:Imperial_2008_Holgram_Art.jpg \|200px \| 3D blue holographic image by sculptor Eileen Borgeson[http://www.eileenborgeson.com/default.htm]]]\|}}	+	We plan to over-express YtvA and use σ<sub>B</sub> as a promoter for genes which stop movement and produce biomaterial. Therefore, when the bacteria detect blue light, those genes will turn on, the bacteria will stop and biomaterial synthesis will begin. <br><br>[[IGEM:IMPERIAL/2008/Prototype/Motility \| '''>>> Details >>>''']]}}\|[[Image:Imperial_2008_Holgram_Art.jpg \|200px \| 3D blue holographic image by sculptor Eileen Borgeson[http://www.eileenborgeson.com/default.htm]]]\|}}

Qin Qi at 14:00, 27 September 2008

Qin Qi — Sat, 27 Sep 2008 14:00:20 GMT

←Older revision		Revision as of 14:00, 27 September 2008
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-	{{Imperial/~~Box2~~\|\|So ''B. subtilis'' fulfils our main specifications perfectly, and can be made to meet our minor specifications with relatively ease. On top of that, it does have other benefits, along with some challenges. These are listed on the next page, together with an overview of our development of ''B. subtilis'' as a chassis.	+	{{Imperial/Box1\|\|So ''B. subtilis'' fulfils our main specifications perfectly, and can be made to meet our minor specifications with relatively ease. On top of that, it does have other benefits, along with some challenges. These are listed on the next page, together with an overview of our development of ''B. subtilis'' as a chassis.
	<br><br>		<br><br>
	[[IGEM:IMPERIAL/2008/New/Chassis_2 \| '''>>> Benefits ''vs'' Challenges >>>''']]}}		[[IGEM:IMPERIAL/2008/New/Chassis_2 \| '''>>> Benefits ''vs'' Challenges >>>''']]}}

	{{Imperial/EndPage\|Project\|Chassis_2}}		{{Imperial/EndPage\|Project\|Chassis_2}}

Qin Qi at 13:57, 27 September 2008

Qin Qi — Sat, 27 Sep 2008 13:57:54 GMT

←Older revision		Revision as of 13:57, 27 September 2008
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-	<font size=6px color=#E5EBFF~~><u~~><b>Why ''B. subtilis''?</b></u><~~/font~~>	+	<font size=6px color=#E5EBFF><b>Why ''B. subtilis''?</b></font>
-	<br>	+	<br><br>
	{{Imperial/Box2\|\|This page offers a brief overview of how ''B. subtilis'' meets our main project specifications - to a much higher degree than ''E. coli''! You will find information on the main mechanisms behind our biofabricator and some very interesting biology too. If you would like even ''more'' in-depth information, please click on ''Details'' under each section.		{{Imperial/Box2\|\|This page offers a brief overview of how ''B. subtilis'' meets our main project specifications - to a much higher degree than ''E. coli''! You will find information on the main mechanisms behind our biofabricator and some very interesting biology too. If you would like even ''more'' in-depth information, please click on ''Details'' under each section.
	\|}}		\|}}

Qin Qi at 13:57, 27 September 2008

Qin Qi — Sat, 27 Sep 2008 13:57:31 GMT

←Older revision		Revision as of 13:57, 27 September 2008
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	<br>		<br>
	<br>		<br>
-		+	<font size=6px color=#E5EBFF><u><b>Why ''B. subtilis''?</b></u></font>
-	~~{{Imperial/Box2\|~~Why ''B. subtilis''?\|This page offers a brief overview of how ''B. subtilis'' meets our main project specifications - to a much higher degree than ''E. coli''! You will find information on the main mechanisms behind our biofabricator and some very interesting biology too. If you would like even ''more'' in-depth information, please click on ''Details'' under each section.	+	<br>
		+	{{Imperial/Box2\|\|This page offers a brief overview of how ''B. subtilis'' meets our main project specifications - to a much higher degree than ''E. coli''! You will find information on the main mechanisms behind our biofabricator and some very interesting biology too. If you would like even ''more'' in-depth information, please click on ''Details'' under each section.
	\|}}		\|}}

Qin Qi at 16:32, 26 September 2008

Qin Qi — Fri, 26 Sep 2008 16:32:52 GMT

←Older revision		Revision as of 16:32, 26 September 2008
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	[[IGEM:IMPERIAL/2008/Prototype/Biomaterials \| '''>>> Details >>>''']]\|[[Image:Imperial_2008_Scaffold.jpg\|right\|200px\|3D Scaffold]]}}		[[IGEM:IMPERIAL/2008/Prototype/Biomaterials \| '''>>> Details >>>''']]\|[[Image:Imperial_2008_Scaffold.jpg\|right\|200px\|3D Scaffold]]}}
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-	~~<hr>~~