Team:Wageningen UR/Project/PartsProj1

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Revision as of 00:22, 22 September 2011

Building a Synchronized Oscillatory System

Synchroscillator: Data page/parts submitted to the registry

Data for our favorite new BioBrick parts

[http://partsregistry.org/Part:BBa_K546546 BBa_K546546] - The Synchroscillator: Our goal was to achieve synchronized oscillatory behavior in a population of E. coli cells. Our data shows that this has been achieved. Moreover, we have designed the system in such a way that its expression dynamics are tuneable when operated in conjunction with a tuner device.

[http://partsregistry.org/Part:BBa_K546005 BBa_K546005] - AHL-induced AHL synthase generator with fluorescent reporter: Our data shows an increase in GFP expression per cell over time, providing evidence that the GFP expression is under regulation of a positive feedback loop. This is in accordance with our expectations.

[http://partsregistry.org/Part:BBa_K546001 BBa_K546001] - AHL-induced AHL hydrolase generator: From our data we can conclude that AHL-induced GFP expression significantly drops after treatment with AiiA in contrast to no treatment with AiiA. This is in accordance with our expectations.

Data for pre-existing BioBrick parts

[http://partsregistry.org/Part:BBa_I0460 BBa_I0460] - aiiA Device: Autoinducer inactivation enzyme A (AiiA) is capable of degrading the quorum sensing molecule AHL.

[http://partsregistry.org/Part:BBa_K082014 BBa_K082014] - Autoinducer synthethase: Produces the quorum sensing molecule 3-oxohexanoyl-homoserine lactone (AHL).

[http://partsregistry.org/Part:BBa_I763020 BBa_I763020] - GFP + LVA Tag This GFP with an LVA-tag functioned as expected: our data clearly shows that the GFP is rapidly being degraded.

F2621

J24675

Other new BioBrickparts

[http://partsregistry.org/Part:BBa_K546002 BBa_K546002] - AHL-induced GFP reporter Our data shows that upon addition of AHL the expression of GFP is increased. This BioBrick part thus works as expected.

[http://partsregistry.org/Part:BBa_K546000 BBa_K546000] - AHL-induced Ahl synthase generator: Our data shows an increase in GFP expression per cell over time, providing evidence that the GFP expression is under regulation of a positive feedback loop. This is in accordance with our expectations. This BioBrick part does not actually contain GFP(BBa_K546002), but it can be deduced to work the same as BBa_546005.

[http://partsregistry.org/Part:BBa_K546003 BBa_K546003] - Fixed F2621 Our data shows that by adding the R0063 promoter to the broken F2621 we restored the BioBrick part to proper functionality. The reason for malfunctioning is that if LuxR isn't present because of the absence of the promoter, no LuxR-AHL complex can be formed and therefore the downstream pathway doesn't react to an increasing AHL concentration anymore.

Retrieved from "http://2011.igem.org/Team:Wageningen_UR/Project/PartsProj1"

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 {{:Team:Wageningen_UR/Templates/Style | text= __NOTOC__
-=== Data for our favorite new parts ===
+=== Data for our favorite new BioBrick parts ===
 [http://partsregistry.org/Part:BBa_K546546 BBa_K546546] - '''The Synchroscillator:''' Our goal was to achieve synchronized oscillatory behavior in a population of ''E. coli'' cells. Our data shows that this has been achieved. Moreover, we have designed the system in such a way that its expression dynamics are tuneable when operated in conjunction with a tuner device.
@@ Line 38: / Line 38: @@
-===Data for pre-existing parts===
+===Data for pre-existing BioBrick parts===
@@ Line 47: / Line 47: @@
-[http://partsregistry.org/Part:BBa_I763020 BBa_I763020] - '''GFP + LVA Tag''' GFP is expressed and the degradation time
+[http://partsregistry.org/Part:BBa_I763020 BBa_I763020] - '''GFP + LVA Tag''' This GFP with an LVA-tag functioned as expected: our data clearly shows that the GFP is rapidly being degraded.
-=== Other new parts ===
+F2621
-[http://partsregistry.org/Part:BBa_K546002 BBa_K546002] - '''3OC6HSL Receiver Device with a lux pR regulated GFP (including a LVA Tag) Reporter:''' AHL responsive element that produces a low constitutive level of luxR via lux pL. Combined with AHL, luxR induces lux pR. lux pR regulates the expression of GFP. Upon addition of AHL the GFP expression increases.
+J24675
-[http://partsregistry.org/Part:BBa_K546000 BBa_K546000] - '''Autoinducer 3OC6HSL Receiver Device with a lux pR Controlled Autoinducer Synthetase:''' AHL responsive element that produces a low constitutive level of luxR via lux pL. Combined with AHL, luxR induces lux pR. lux pR regulates the expression of autoinducer synthetase.
+=== Other new BioBrickparts ===
-[http://partsregistry.org/Part:BBa_K546003 BBa_K546003] - '''3OC6HSL Receiver Device with lux pR:''' 3-oxohexanoyl-homoserine lactone (AHL) responsive element that constitutively produces an intermediate level of LuxR via lux pL promoter. Combined with AHL, luxR activates lux pR promoter. This part is a repaired version of [http://partsregistry.org/Part:BBa_F2621 BBa_F2621] that appeared to be defective (R0063 missing), when we sequenced the part.
+[http://partsregistry.org/Part:BBa_K546002 BBa_K546002] - '''AHL-induced GFP reporter''' Our data shows that upon addition of AHL the expression of GFP is increased. This BioBrick part thus works as expected.
+[http://partsregistry.org/Part:BBa_K546000 BBa_K546000] - '''AHL-induced Ahl synthase generator:''' Our data shows an increase in GFP expression per cell over time, providing evidence that the GFP expression is under regulation of a positive feedback loop. This is in accordance with our expectations. This BioBrick part does not actually contain GFP(BBa_K546002), but it can be deduced to work the same as BBa_546005.
+[http://partsregistry.org/Part:BBa_K546003 BBa_K546003] - '''Fixed F2621''' Our data shows that by adding the R0063 promoter to the broken F2621 we restored the BioBrick part to proper functionality. The reason for malfunctioning is that if LuxR isn't present because of the absence of the promoter, no LuxR-AHL complex can be formed and therefore the downstream pathway doesn't react to an increasing AHL concentration anymore.