Difference between revisions of "Part:BBa K823010"

 
 
Line 1: Line 1:
−
 
 
__NOTOC__
 
__NOTOC__
 
<partinfo>BBa_K823010 short</partinfo>
 
<partinfo>BBa_K823010 short</partinfo>
  
−
Anderson promoter J23113 without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon.
+
Anderson promoter J23113 from the [https://parts.igem.org/Part:BBa_J23100 Anderson collection] without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the ''lux'' operon or the ''lacZ'' reporter gene.
−
 
+
<br>
−
<!-- Add more about the biology of this part here
+
 
===Usage and Biology===
 
===Usage and Biology===
  
−
<!-- -->
+
<p align="justify">The first group of promoters evaluated are the promoters of the [https://parts.igem.org/Part:BBa_J23100 Anderson collection]  (''"Anderson promoters"''). They have already been measured in ''Escherichia coli'' where they all showed a constitutive behavior with different strength. In this project, eleven Anderson promoters were characterized in ''B. subtilis'' with the ''lux'' operon as a reporter. In ''B. subtilis'' these promoters show quiet low activity.
−
<span class='h3bb'>Sequence and Features</span>
+
To confirm these results some Anderson promoters were also evaluated with the reporter gene ''lacZ'' by doing β-galactosidase assays. For more details visit the [http://2012.igem.org/Team:LMU-Munich/Data/Anderson Data] page of the LMU-Munich Team 2012 or get an overview of our whole project [http://2012.igem.org/Team:LMU-Munich '''Bead'''zillus]. </p>
 +
<br>
 +
Here you can see the list with the Anderson promoters characterized in ''B. subtilis'':
 +
*'''J23100'''  ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K823004 BioBrick:BBa_K823004])
 +
*'''J23101'''  ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K823005 BioBrick:BBa_K823005])
 +
*'''J23102'''  ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K823006 BioBrick:BBa_K823006])
 +
*'''J23103'''  ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K823007 BioBrick:BBa_K823007])
 +
*'''J23106'''  ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K823008 BioBrick:BBa_K823008])
 +
*'''J23107'''  ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K823009 BioBrick:BBa_K823009])
 +
*'''J23113'''  ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K823010 BioBrick:BBa_K823010])
 +
*'''J23114'''  ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K823011 BioBrick:BBa_K823011])
 +
*'''J23115'''  ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K823012 BioBrick:BBa_K823012])
 +
*'''J23117'''  ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K823013 BioBrick:BBa_K823013])
 +
*'''J23118'''  ([https://parts.igem.org/wiki/index.php?title=Part:BBa_K823014 BioBrick:BBa_K823014])
 +
<p align="justify"></p>
 +
<br>
 +
<br>
 +
 
 +
===Evaluation===
 +
<p align="justify">
 +
Eleven of the nineteen promoters of the [https://parts.igem.org/Part:BBa_J23100 '''Anderson collection'''] (J23100, J23101, J23102, J23103, J23106, J23107, J23113, J23114, J23115, J23117, J23118) were evaluated. Therefore, we used the reporter vector pSB<sub>''Bs''</sub>3C-''luxABCDE'' from the BioBrickBox containing the ''lux'' operon as a reporter for promoter activity. The promoter activity leads to the expression of the ''lux'' operon and to the production of the enzyme luciferase. The luminescence, which is produced by the luciferase, can be measured with the plate reader ''Synergy2'' (BioTek) ('''Fig.1''').</p>
 +
 
 +
{| style="color:black;" cellpadding="3" width="70%" cellspacing="0" border="0" align="center" style="text-align:left;"
 +
| style="width: 70%;background-color: #EBFCE4;" |
 +
{|
 +
|[[Image:J23113.png|400px|center]]
 +
|-
 +
| style="width: 70%;background-color: #EBFCE4;" |
 +
{| style="color:black;" cellpadding="0" width="100%" cellspacing="0" border="0" align="center" style="text-align:center;"
 +
|style="width: 70%;background-color: #EBFCE4;" |
 +
<font color="#000000"; size="2"><p align="justify"> '''Fig. 1: Luminescence measurement of Anderson promoters in the reporter vector pSB<sub>''Bs''</sub>3C-''luxABCDE'''''. OD<sub>600</sub> (right), Lumi (middle) and Lumi per OD<sub>''600''</sub> (left) depending on the time (h) are shown for two different clones (green/blue). Data derive from three independent experiments, so graph shows the mean with the standard deviation. Curves were fitted over each other (t=0, OD<sub>600</sub>=0,3) and smoothed by taking average of three neighboring values.</p></font>
 +
|}
 +
|}
 +
|}
 +
<p align="justify">
 +
All clones show a usual growth behaviour. The activity of the promoters increases during transition from log to stationary phase. The maximum (t=1h) reaches from 200Lumi/OD<sub>600</sub> (promoter J23115) to a maximum of 1500 Lumi/OD<sub>600</sub> for the strongest promoter (J23101). Afterwards the activity goes down to the beginning level (t=2h). The oscillation of luminescence (Lumi/OD<sub>600</sub>) in the beginning of the curves are due to the small OD<sub>600</sub> values and do not mean high promoter activity. One clone of J23107 and J23114 shows significantly lower promoter activity. Therefore, additional clones should be measured. In comparison to all the other evaluated ''Bacillus'' promoters, these Anderson promoters showed a very low acitivity in ''B. subtilis''.</p>
 +
<br>
 +
<br>
 +
 
 +
===β-galactosidase assay===
 +
<br>
 +
<p align="justify">To evaluate the activity not only with the ''lux'' reporter operon, four promoters of the Anderson collection were cloned into the reporter vector pSB<sub>''Bs''</sub>1C-''lacZ'' to do β-galactosidase assays and then to compare the results of the strength of these promoters in ''B. subtilis'' ('''Fig. 2'''). The results were compared to the results from the luminescence measurements.
 +
</p>
 +
 
 +
<br>
 +
{| style="color:black;" cellpadding="3" width="70%" cellspacing="0" border="0" align="center" style="text-align:left;"
 +
| style="width: 70%;background-color: #EBFCE4;" |
 +
{|
 +
|[[Image:Beta gal anderson promoter.png|400px|center]]
 +
|-
 +
| style="width: 70%;background-color: #EBFCE4;" |
 +
{| style="color:black;" cellpadding="0" width="100%" cellspacing="0" border="0" align="center" style="text-align:center;"
 +
|style="width: 70%;background-color: #EBFCE4;" |
 +
<font color="#000000"; size="2"><p align="justify"> '''Fig. 2:''' β-galactosidase assay (up) and growth curve (down) of the Anderson promoters J23100, J23102, J23103, J23106 in ''B. subtilis''. Results derive from one experiment and are only shown for one ''Bacillus'' clone. </p></font>
 +
|}
 +
|}
 +
|}
 +
<br>
 +
Verification of the promoter activity by β-galactosidase assays revealed that the Anderson promoters do not seem to be as weak as measured by luminescence (Fig. 1). For direct comparison we should measure a constitutive promoter, e.g. P<sub>''liaG''</sub>, in the same experiment. But we think the luminescence measurements are more reliable because they were repeated three times with two independent clones.
 +
<br>
 +
<br>
 +
<br>
 +
 
 +
===Sequence and Features===
 +
This part is a modified BioBrick. We got the DNA from the Partsregistry, removed RFP and send it in again in pSB1C3.
 
<partinfo>BBa_K823010 SequenceAndFeatures</partinfo>
 
<partinfo>BBa_K823010 SequenceAndFeatures</partinfo>
  

Latest revision as of 09:13, 26 September 2012

Anderson promoter J23113

Anderson promoter J23113 from the Anderson collection without RFP in backbone vector pSB1C3 to easily fuse the promoter with other reporters e.g. the lux operon or the lacZ reporter gene.

Usage and Biology

The first group of promoters evaluated are the promoters of the Anderson collection ("Anderson promoters"). They have already been measured in Escherichia coli where they all showed a constitutive behavior with different strength. In this project, eleven Anderson promoters were characterized in B. subtilis with the lux operon as a reporter. In B. subtilis these promoters show quiet low activity. To confirm these results some Anderson promoters were also evaluated with the reporter gene lacZ by doing β-galactosidase assays. For more details visit the [http://2012.igem.org/Team:LMU-Munich/Data/Anderson Data] page of the LMU-Munich Team 2012 or get an overview of our whole project [http://2012.igem.org/Team:LMU-Munich Beadzillus].


Here you can see the list with the Anderson promoters characterized in B. subtilis:



Evaluation

Eleven of the nineteen promoters of the Anderson collection (J23100, J23101, J23102, J23103, J23106, J23107, J23113, J23114, J23115, J23117, J23118) were evaluated. Therefore, we used the reporter vector pSBBs3C-luxABCDE from the BioBrickBox containing the lux operon as a reporter for promoter activity. The promoter activity leads to the expression of the lux operon and to the production of the enzyme luciferase. The luminescence, which is produced by the luciferase, can be measured with the plate reader Synergy2 (BioTek) (Fig.1).

J23113.png

Fig. 1: Luminescence measurement of Anderson promoters in the reporter vector pSBBs3C-luxABCDE. OD600 (right), Lumi (middle) and Lumi per OD600 (left) depending on the time (h) are shown for two different clones (green/blue). Data derive from three independent experiments, so graph shows the mean with the standard deviation. Curves were fitted over each other (t=0, OD600=0,3) and smoothed by taking average of three neighboring values.

All clones show a usual growth behaviour. The activity of the promoters increases during transition from log to stationary phase. The maximum (t=1h) reaches from 200Lumi/OD600 (promoter J23115) to a maximum of 1500 Lumi/OD600 for the strongest promoter (J23101). Afterwards the activity goes down to the beginning level (t=2h). The oscillation of luminescence (Lumi/OD600) in the beginning of the curves are due to the small OD600 values and do not mean high promoter activity. One clone of J23107 and J23114 shows significantly lower promoter activity. Therefore, additional clones should be measured. In comparison to all the other evaluated Bacillus promoters, these Anderson promoters showed a very low acitivity in B. subtilis.



β-galactosidase assay


To evaluate the activity not only with the lux reporter operon, four promoters of the Anderson collection were cloned into the reporter vector pSBBs1C-lacZ to do β-galactosidase assays and then to compare the results of the strength of these promoters in B. subtilis (Fig. 2). The results were compared to the results from the luminescence measurements.


Beta gal anderson promoter.png

Fig. 2: β-galactosidase assay (up) and growth curve (down) of the Anderson promoters J23100, J23102, J23103, J23106 in B. subtilis. Results derive from one experiment and are only shown for one Bacillus clone.


Verification of the promoter activity by β-galactosidase assays revealed that the Anderson promoters do not seem to be as weak as measured by luminescence (Fig. 1). For direct comparison we should measure a constitutive promoter, e.g. PliaG, in the same experiment. But we think the luminescence measurements are more reliable because they were repeated three times with two independent clones.


Sequence and Features

This part is a modified BioBrick. We got the DNA from the Partsregistry, removed RFP and send it in again in pSB1C3.


Assembly Compatibility:
  • 10
    COMPATIBLE WITH RFC[10]
  • 12
    INCOMPATIBLE WITH RFC[12]
    Illegal NheI site found at 7
    Illegal NheI site found at 30
  • 21
    COMPATIBLE WITH RFC[21]
  • 23
    COMPATIBLE WITH RFC[23]
  • 25
    COMPATIBLE WITH RFC[25]
  • 1000
    COMPATIBLE WITH RFC[1000]