IGEM:Cambridge/2008/Notebook/Turing Pattern Formation - Revision history

Daniel Goodman at 23:11, 30 September 2008

Daniel Goodman — Tue, 30 Sep 2008 23:11:38 GMT

←Older revision		Revision as of 23:11, 30 September 2008
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	We are planning to implement a simple two-component Reaction-Diffusion system in the gram-positive model organism [[IGEM:Cambridge/2008/Notebook/Bacillus \| ''Bacillus subtilis'']]. In 1952, Alan Turing famously described this system and suggested it as the basis for self-organization and pattern formation in biological systems. The simplest of these patterns, which we are planning to model in bacteria, mimic the spots and stripes seen on animal coats.		We are planning to implement a simple two-component Reaction-Diffusion system in the gram-positive model organism [[IGEM:Cambridge/2008/Notebook/Bacillus \| ''Bacillus subtilis'']]. In 1952, Alan Turing famously described this system and suggested it as the basis for self-organization and pattern formation in biological systems. The simplest of these patterns, which we are planning to model in bacteria, mimic the spots and stripes seen on animal coats.

		+	<!--
	<center>http://www.uni-muenster.de/Physik.AP/Purwins/RD/2kgl.gif</center>		<center>http://www.uni-muenster.de/Physik.AP/Purwins/RD/2kgl.gif</center>
-	http://www.uni-muenster.de/Physik.AP/Purwins/RD/struktur-e.gif	+	#http://www.uni-muenster.de/Physik.AP/Purwins/RD/struktur-e.gif
-	http://www.rsc.org/ej/MB/2007/b701571b/b701571b-f1.gif	+	#http://www.rsc.org/ej/MB/2007/b701571b/b701571b-f1.gif -->

	(A) The model consists of two diffusible signals secreted by every cell. The activator, which is controlled by a stochastic bistable switch, turns on itself and its own inhibitor. (B) A field of cells can be stably patterned into two different zones, so long as the inhibitor diffuses faster than the activator. The activator and inhibitor are synthesized in the source at the center, and turned off by accumulation of the inhibitor in the periphery.		(A) The model consists of two diffusible signals secreted by every cell. The activator, which is controlled by a stochastic bistable switch, turns on itself and its own inhibitor. (B) A field of cells can be stably patterned into two different zones, so long as the inhibitor diffuses faster than the activator. The activator and inhibitor are synthesized in the source at the center, and turned off by accumulation of the inhibitor in the periphery.

Yee Yen Tang at 16:29, 8 September 2008

Yee Yen Tang — Mon, 08 Sep 2008 16:29:31 GMT

←Older revision		Revision as of 16:29, 8 September 2008
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	===Transformation and Expression===		===Transformation and Expression===
	* Checking insertion and episomal vectors		* Checking insertion and episomal vectors
-	* [[IGEM:Cambridge/2008/Turing Pattern Formation/Experiments/Bacillus subtilis transfomation\| Bacillus subtilis transfomation]]
	* PCRing and Ligating Bacillus Ribosomal Binding Sites		* PCRing and Ligating Bacillus Ribosomal Binding Sites
	* PCRing and Ligating Bacillus Promoters		* PCRing and Ligating Bacillus Promoters

Yee Yen Tang at 16:18, 8 September 2008

Yee Yen Tang — Mon, 08 Sep 2008 16:18:48 GMT

←Older revision		Revision as of 16:18, 8 September 2008
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	* Assembling and testing AGR receiver		* Assembling and testing AGR receiver

-	~~=For editing purposes=~~
-	~~<calendar>~~
-	~~name=IGEM:Cambridge/2008/Notebook/Turing_Pattern_Formation~~
-	~~date=2008/08/01~~
-	~~view=threemonths~~
-	~~format=%name/%year/0%month/%day~~
-	~~weekstart=7~~
-	~~</calendar>~~


	__NOEDITSECTION__		__NOEDITSECTION__
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Chapart Marie at 15:22, 6 September 2008

Chapart Marie — Sat, 06 Sep 2008 15:22:58 GMT

←Older revision		Revision as of 15:22, 6 September 2008
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	===Transformation and Expression===		===Transformation and Expression===
	* Checking insertion and episomal vectors		* Checking insertion and episomal vectors
-	* Bacillus subtilis ~~transformation~~	+	* [[IGEM:Cambridge/2008/Turing Pattern Formation/Experiments/Bacillus subtilis transfomation\| Bacillus subtilis transfomation]]
	* PCRing and Ligating Bacillus Ribosomal Binding Sites		* PCRing and Ligating Bacillus Ribosomal Binding Sites
	* PCRing and Ligating Bacillus Promoters		* PCRing and Ligating Bacillus Promoters

Yee Yen Tang at 14:30, 4 September 2008

Yee Yen Tang — Thu, 04 Sep 2008 14:30:20 GMT

←Older revision		Revision as of 14:30, 4 September 2008
Line 104:		Line 104:
	* Assembling and testing AGR receiver		* Assembling and testing AGR receiver

-		+	=For editing purposes=
		+	<calendar>
		+	name=IGEM:Cambridge/2008/Notebook/Turing_Pattern_Formation
		+	date=2008/08/01
		+	view=threemonths
		+	format=%name/%year/0%month/%day
		+	weekstart=7
		+	</calendar>


	__NOEDITSECTION__		__NOEDITSECTION__
	__NOTOC__		__NOTOC__

Dmitriy Myelnikov at 14:41, 3 September 2008

Dmitriy Myelnikov — Wed, 03 Sep 2008 14:41:29 GMT

←Older revision		Revision as of 14:41, 3 September 2008
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	<!-- ## START search column: Place your logo here. Try keep it below 200px in width and 150px in height. ## -->		<!-- ## START search column: Place your logo here. Try keep it below 200px in width and 150px in height. ## -->
-	[[Image:Signalling_button.gif\|300px]] <sitesearch>~~title=Search this project~~</sitesearch>	+	[[Image:Signalling_button.gif\|300px]] <sitesearch></sitesearch>
	<!-- ## END search column ## -->		<!-- ## END search column ## -->
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Rebecca Koenigsberg-Miles at 14:15, 3 September 2008

Rebecca Koenigsberg-Miles — Wed, 03 Sep 2008 14:15:36 GMT

←Older revision		Revision as of 14:15, 3 September 2008
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	<LNCalendar></LNCalendar>		<LNCalendar></LNCalendar>
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-	\|align="center" style="background-color: #~~e5edc8~~;" \|	+	\|align="center" style="background-color: #444444;" \|
	<!-- ## START search column: Place your logo here. Try keep it below 200px in width and 150px in height. ## -->		<!-- ## START search column: Place your logo here. Try keep it below 200px in width and 150px in height. ## -->
-	[[Image:~~IgemCam~~.~~jpg~~\|~~200px~~]] <sitesearch>title=Search this project</sitesearch>	+	[[Image:Signalling_button.gif\|300px]] <sitesearch>title=Search this project</sitesearch>
	<!-- ## END search column ## -->		<!-- ## END search column ## -->
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Rebecca Koenigsberg-Miles at 11:54, 2 September 2008

Rebecca Koenigsberg-Miles — Tue, 02 Sep 2008 11:54:00 GMT

←Older revision		Revision as of 11:54, 2 September 2008
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-	We are planning to implement a simple two-component Reaction-Diffusion system in the gram-positive model organism Bacillus subtilis. In 1952, Alan Turing famously described this system and suggested it as the basis for self-organization and pattern formation in biological systems. The simplest of these patterns, which we are planning to model in bacteria, mimic the spots and stripes seen on animal coats.	+	We are planning to implement a simple two-component Reaction-Diffusion system in the gram-positive model organism [[IGEM:Cambridge/2008/Notebook/Bacillus \| ''Bacillus subtilis'']]. In 1952, Alan Turing famously described this system and suggested it as the basis for self-organization and pattern formation in biological systems. The simplest of these patterns, which we are planning to model in bacteria, mimic the spots and stripes seen on animal coats.

	<center>http://www.uni-muenster.de/Physik.AP/Purwins/RD/2kgl.gif</center>		<center>http://www.uni-muenster.de/Physik.AP/Purwins/RD/2kgl.gif</center>

Daniel Goodman at 16:25, 18 August 2008

Daniel Goodman — Mon, 18 Aug 2008 16:25:13 GMT

←Older revision		Revision as of 16:25, 18 August 2008
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	===Lux system===		===Lux system===
-	* Testing AHL degradation in B. subtilis	+	* [[IGEM:Cambridge/2008/Turing Pattern Formation/Experiments/Testing AHL degradation in B. subtilis\| Testing AHL degradation in B. subtilis]]
	* Ligating Lux pieces		* Ligating Lux pieces
	* Assembling and testing Lux receiver		* Assembling and testing Lux receiver

Daniel Goodman at 16:17, 18 August 2008

Daniel Goodman — Mon, 18 Aug 2008 16:17:36 GMT

←Older revision		Revision as of 16:17, 18 August 2008
Line 86:		Line 86:

	==[[IGEM:Cambridge/2008/Turing Pattern Formation/Experiments\| Experiments]]==		==[[IGEM:Cambridge/2008/Turing Pattern Formation/Experiments\| Experiments]]==
		+	===Transformation and Expression===
	* Checking insertion and episomal vectors		* Checking insertion and episomal vectors
	* Bacillus subtilis transformation		* Bacillus subtilis transformation
-	* Testing AHL degradation in B. subtilis	+	* PCRing and Ligating Bacillus Ribosomal Binding Sites
-	* PCRing and Ligating Bacillus Ribosomal Binding Sites	+	* PCRing and Ligating Bacillus Promoters
-	* PCRing and Ligating ~~AGR pieces~~	+
-	* Ligating Lux pieces	+
	* Ligating and testing RBS + Promoter + GFP/LacZ		* Ligating and testing RBS + Promoter + GFP/LacZ
-	*	+
		+	===Lux system===
		+	* Testing AHL degradation in B. subtilis
		+	* Ligating Lux pieces
		+	* Assembling and testing Lux receiver
		+	* Assembling and testing Lux sender
		+
		+	===Agr system===
		+	* PCRing and Ligating AGR pieces
		+	* Assembling and testing AGR sender
		+	* Assembling and testing AGR receiver