Difference between revisions of "Device:BBa D0001"

(New page: <div style="font-family: Arial; padding: 00px; width: 680px; border: 0px solid #000000;"> {{Template:Device page header}} {{Template:F2620 Characterization Navbar}} <div style="padding: 00...)
 
 
(10 intermediate revisions by the same user not shown)
Line 1: Line 1:
−
<div style="font-family: Arial; padding: 00px; width: 680px; border: 0px solid #000000;">
+
<div style="font-family: Arial; padding: 00px; width: 680px; border: 0px solid #000000; margin-left: auto; margin-right: auto">
 
{{Template:Device page header}}
 
{{Template:Device page header}}
−
{{Template:F2620 Characterization Navbar}}
 
−
<div style="padding: 00px; width: 680px; border: 0px solid #000000;">
 
−
'''Description'''<br>
 
−
A transcription factor, LuxR (''<partinfo>C0062</partinfo>'') that is active in the presence of cell-cell signaling molecule [[3OC6HSL|3OC<sub>6</sub>HSL]] is controlled by a TetR (''<partinfo>BBa_C0040</partinfo>'') regulated operator (''<partinfo>BBa_R0040</partinfo>'').  ''Device input'' is [[3OC6HSL|3OC<sub>6</sub>HSL]].  ''Device output'' is [[PoPS]] from a LuxR-regulated operator.  If used in a cell containing TetR then a second input signal such as [http://openwetware.org/wiki/ATc aTc] can be used to produce a logical AND function.  Get the pdf datasheet  [[:Image:EndyFig1-F2620DataSheet.pdf|here]].
 
  
 +
{|
 +
|'''Description'''
 +
|'''Subparts'''
 +
|-
 +
|BBa_D0001 is a receiver device that can be used to sense the level of a cell-cell signaling molecule [[3OC6HSL|3OC<sub>6</sub>HSL]]. A transcription factor, LuxR (''<partinfo>C0062</partinfo>'') that is active in the presence of [[3OC6HSL|3OC<sub>6</sub>HSL]] is controlled by a TetR (''<partinfo>BBa_C0040</partinfo>'') regulated operator (''<partinfo>BBa_R0040</partinfo>'').  ''Device input'' is [[3OC6HSL|3OC<sub>6</sub>HSL]].  ''Device output'' is [[PoPS]] from a LuxR-regulated operator.  This device is known to work in many ''E. coli'' strains at a range of temperatures and in a variety of media types.
 +
 +
|<html><TABLE class='order_row' style='border: none;'border='0' cellpadding='0' cellspacing='0' color='#000000' bgcolor='#FFFFFF'><TR><TD style='font-size:90%; line-height:100%;text-align:center;'>tetR<br>R0040</TD><TD style='font-size:90%; line-height:100%;text-align:center;'>LuxR<br>I0462</TD><TD style='font-size:90%; line-height:100%;text-align:center;'>lux pR<br>R0062</TD><TR class = 'bar_row'><TD style='border: none;'><A href='/r/parts/partsdb/view.cgi?part_id=187'><img title='BBa_R0040
 +
promoter (tetR, negative)' src='https://parts.igem.org/images/partbypart/icon_regulatory.png' height='25' border=0></A><TD style='border: none;'><A href='/r/parts/partsdb/view.cgi?part_id=2681'><img title='BBa_I0462
 +
luxR Protein Generator' src='https://parts.igem.org/images/partbypart/icon_generator.png' height='25' border=0></A><TD style='border: none;'><A href='/r/parts/partsdb/view.cgi?part_id=192'><img title='BBa_R0062
 +
Promoter (luxR &amp; HSL regulated -- lux pR)' src='https://parts.igem.org/images/partbypart/icon_regulatory.png' height='25' border=0></A></TABLE></html>
 +
|}
  
 
'''Performance'''<br>
 
'''Performance'''<br>
 +
[[Image:BBa F2620TransferFunctionOct07.png|thumb|300px|right|'''Figure 1 - Transfer function of [[BBa_D0001]].  The data points represent the mean of 6 or 9 individual measurements.  The corresponding error bars represent the 95% confidence interval in the mean of the independent measurements.  The blue shaded region represents the range bounded by the lowest and highest outputs among the independent measurements at a given input level.  The solid black curve was calculated by fitting a simple Hill function to the experimental measurements.''']]
 +
[[Image:ActiviatedPromoterEquation.png|right|300px]]
 
<center>
 
<center>
 
{|{{Table}}
 
{|{{Table}}
Line 40: Line 49:
 
|[[Performance Stability|''Performance Stability'']]<br>(Low/High Input)
 
|[[Performance Stability|''Performance Stability'']]<br>(Low/High Input)
 
|>92/>56 generations
 
|>92/>56 generations
−
|-
 
−
|rowspan="4"|Demand
 
−
|rowspan="1"|Internal Demand<br>(Low/High Input)
 
−
|Not measured
 
−
|-
 
−
|rowspan="2"|[[Transcription Demand|''Transcriptional output demand:'']]<br>(Low/High Input)<br>Nt = length of downstream transcript in nucleotides
 
−
|(0/6xNt) nucleotides cell<sup>-1</sup> s<sup>-1</sup>
 
−
|-
 
−
|(0/1.5E-1xNt) RNAP cell<sup>-1</sup>
 
−
|-
 
−
|[[Growth Rate|''Growth Rate'']]<br>(Low/High Input)
 
−
|54/59 min Doubling time
 
 
|}
 
|}
 
</center>
 
</center>
−
<sup>1</sup>Measured by Ania Labno and Barry Canton 2006-2007
 
 
<div style="padding: 00px; width: 680px">
 
<div style="padding: 00px; width: 680px">
 
'''Compatibility'''<br>
 
'''Compatibility'''<br>
Line 63: Line 59:
 
[[Help:Signalling|''Cell-Cell Signaling Systems:'']] Crosstalk with devices using [[3OC6HSL|3OC<sub>6</sub>HSL]], C6HSL, C7HSL, C8HSL, C10HSL.
 
[[Help:Signalling|''Cell-Cell Signaling Systems:'']] Crosstalk with devices using [[3OC6HSL|3OC<sub>6</sub>HSL]], C6HSL, C7HSL, C8HSL, C10HSL.
 
</div>
 
</div>
−
</div>
+
 
 +
==Pages needed for a device==
 +
*Main page
 +
*Device Specification - experimental data and a model.  Here is an example of a [http://openwetware.org/wiki/Registry_of_Standard_Biological_Models/Basic_Component_Models/Activated_Promoter model] for a biological device written in Cell ML.  *User Comments and Usage Statistics
 +
*Availability information for physical DNA

Latest revision as of 16:14, 11 February 2009

Designed by: Francis Crick and Jim Watson

AHL Receiver
Inputs: Small molecule ([3OC6HSL])
Outputs: Transcriptional activity (PoPS)
IOArrow.pngDeviceBlackBoxTrimmed.pngIOArrow.png

Description Subparts
BBa_D0001 is a receiver device that can be used to sense the level of a cell-cell signaling molecule 3OC6HSL. A transcription factor, LuxR (BBa_C0062) that is active in the presence of 3OC6HSL is controlled by a TetR (BBa_C0040) regulated operator (BBa_R0040). Device input is 3OC6HSL. Device output is PoPS from a LuxR-regulated operator. This device is known to work in many E. coli strains at a range of temperatures and in a variety of media types.
tetR
R0040		LuxR
I0462		lux pR
R0062

Performance

Figure 1 - Transfer function of BBa_D0001. The data points represent the mean of 6 or 9 individual measurements. The corresponding error bars represent the 95% confidence interval in the mean of the independent measurements. The blue shaded region represents the range bounded by the lowest and highest outputs among the independent measurements at a given input level. The solid black curve was calculated by fitting a simple Hill function to the experimental measurements.
ActiviatedPromoterEquation.png
Experiment1 Characteristic1 Value1
Transfer Function Maximum Output 6.6 PoPS cell-1
Hill coefficient 1.6
Switch Point 1.5E-9 M 3OC6HSL, exogenous
Response time: <1 min
Input compatibility Strong response to 3OC6HSL, C6HSL , C7HSL, 3OC8HSL, C8HSL
Weak response to C4HSL, C10HSL, C12HSL
Stability Genetic Stability
(Low/High Input) 		>92/>56 generations
Performance Stability
(Low/High Input) 		>92/>56 generations

Compatibility
Chassis: Device has been shown to work in BBa_V1000,BBa_V1001,BBa_V1002, E.Coli S30 Extract (data)
Plasmids: Device has been shown to work on pSB3K3 and pSB1A3
Devices: Device has been shown to work with BBa_E0430, BBa_E0434, BBa_E0240
Crosstalk with systems containing BBa_C0040.
Cell-Cell Signaling Systems: Crosstalk with devices using 3OC6HSL, C6HSL, C7HSL, C8HSL, C10HSL.

Pages needed for a device

  • Main page
  • Device Specification - experimental data and a model. Here is an example of a [http://openwetware.org/wiki/Registry_of_Standard_Biological_Models/Basic_Component_Models/Activated_Promoter model] for a biological device written in Cell ML. *User Comments and Usage Statistics
  • Availability information for physical DNA