Team:Newcastle/Labwork/24 September 2009

From 2009.igem.org

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(Stochastic switch team)
(Overview)
 
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[[Image:Team Newcastle 2009 iGEM ProbationaryP-Sign.PNG|50px|right]]
[[Image:Team Newcastle 2009 iGEM ProbationaryP-Sign.PNG|50px|right]]
=Formal Lab Session - 24th September 2009=
=Formal Lab Session - 24th September 2009=
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=Stochastic switch team=
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[[Image:Team Newcastle 2009 iGEM 24-09-09 IMG 1379.JPG|350px|center]]
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<br>
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=<font color="Orange"><u>Overview</u></font>=
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<font color="Orange">
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*[[#Metal Sensor Team|Metal Sensor Team]] '''- '''
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<br>
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*[[#Stochastic Switch Team|Stochastic Switch Team]] '''- '''
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<br>
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*[[#Sporulation Tuning/Chassis Team|Sporulation Tuning/Chassis Team]] '''- '''
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<br>
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</font>
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<br>
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==<u>Metal Sensor Team</u>==
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===To Do list===
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# PCR clean up of ''cotC'' PCR done on the 23/09/09
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# Digest PCR clean up and also digest ''pMUTIN4'' with ''BamHI'' and ''HindIII''
 +
# PCR clean up both of these products
 +
# Run all of both sample on gel and excise bands
 +
# Extract bands from gel using GenElute's Gel Extraction kit
 +
# Set up overnight ligations of ''pMUTIN4'' and ''cotC-GFP-smtA'' BioBrick
 +
 
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==<u>Stochastic Switch Team</u>==
Today we did minipreps of the ara/sspb/pSB1AT3 cultures which were then digested with EcoRI and SpeI. These were run on an 0.8% gel. We expected to see a ~600bp band as well as the plasmid backbone and the gel photograph seemed fairly convincing:
Today we did minipreps of the ara/sspb/pSB1AT3 cultures which were then digested with EcoRI and SpeI. These were run on an 0.8% gel. We expected to see a ~600bp band as well as the plasmid backbone and the gel photograph seemed fairly convincing:
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[[Image:Team Newcastle240909 trans mini.png]]
[[Image:Team Newcastle240909 trans mini.png]]
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We set up a 50ml midiprep culture from the culture corresponding to lane 9 which seemed to have the clearest band.  
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We set up a 50ml midiprep culture from the culture corresponding to lane 9 which seemed to have the clearest band.
 +
 
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==<u>Sporulation Tuning/Chassis Team</u>==
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===Introduction===
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[[Image:Team Newcastle 2009 iGEM 24-09-09 IMG 1373.JPG|200px|right]]
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* We prepared kinA and pGFP-rrnB digested fragments yesterday, we'll carry on the next step as gel extraction and ligation and transformation.
 +
* For the double clone part, we need to ligate it to pMutin4 vector.
 +
<br>
 +
 
 +
===Experiment procedure===
 +
 
 +
==== Gel extraction ====
 +
* Follow the standard procedure of Gel Extraction Kit(Sigma).
 +
==== Ligation ====
 +
* Ligate kinA to pGFP-rrnB
 +
* Ligate digested PCR clean-up psc fragment to pMutin4
 +
** this psc fragment refer to the cwlJ:sleB fragment with HindIII and BamHI restriction sites at the end of each side.
 +
 
 +
  T4 ligase Buffer        2ul
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  Vector                2.5ul
 +
  insert DNA          14.5ul
 +
  T4 ligase              1ul
 +
  ---------------------------
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                        20ul
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* -4C frige overnight.
 +
 
 +
==== Prepare the culture for Mini Prep ====
 +
* Since we got colonies from yesterday's transformation, we need to culture the colonies for mini prep.
 +
 
 +
==== Prepare smm medium ====
 +
* The protocal of making smm medium is come from our lab's B.subtilis 168 transformation protocal.
 +
 
 +
=== Conclusion ===
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* After the autoclave of smm medium, the medium got cloudy. It may has something wrong with the ingredients.
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<center>
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{{:Team:Newcastle/Project/Labwork/CalTemplate}}
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{|cellpadding="10"
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|{{#calendar: title=Team:Newcastle/Labwork |year=2009 | month=07 }}
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|{{#calendar: title=Team:Newcastle/Labwork |year=2009 | month=08 }}
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|{{#calendar: title=Team:Newcastle/Labwork |year=2009 | month=09 }}
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|}
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</center>
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{{:Team:Newcastle/Footer}}
{{:Team:Newcastle/Footer}}
{{:Team:Newcastle/Right}}
{{:Team:Newcastle/Right}}

Latest revision as of 03:51, 22 October 2009


Team Newcastle 2009 iGEM ProbationaryP-Sign.PNG

Formal Lab Session - 24th September 2009

Team Newcastle 2009 iGEM 24-09-09 IMG 1379.JPG


Overview





Metal Sensor Team

To Do list

  1. PCR clean up of cotC PCR done on the 23/09/09
  2. Digest PCR clean up and also digest pMUTIN4 with BamHI and HindIII
  3. PCR clean up both of these products
  4. Run all of both sample on gel and excise bands
  5. Extract bands from gel using GenElute's Gel Extraction kit
  6. Set up overnight ligations of pMUTIN4 and cotC-GFP-smtA BioBrick

Stochastic Switch Team

Today we did minipreps of the ara/sspb/pSB1AT3 cultures which were then digested with EcoRI and SpeI. These were run on an 0.8% gel. We expected to see a ~600bp band as well as the plasmid backbone and the gel photograph seemed fairly convincing:

Team Newcastle240909 trans mini.png

We set up a 50ml midiprep culture from the culture corresponding to lane 9 which seemed to have the clearest band.

Sporulation Tuning/Chassis Team

Introduction

Team Newcastle 2009 iGEM 24-09-09 IMG 1373.JPG
  • We prepared kinA and pGFP-rrnB digested fragments yesterday, we'll carry on the next step as gel extraction and ligation and transformation.
  • For the double clone part, we need to ligate it to pMutin4 vector.


Experiment procedure

Gel extraction

  • Follow the standard procedure of Gel Extraction Kit(Sigma).

Ligation

  • Ligate kinA to pGFP-rrnB
  • Ligate digested PCR clean-up psc fragment to pMutin4
    • this psc fragment refer to the cwlJ:sleB fragment with HindIII and BamHI restriction sites at the end of each side.
 T4 ligase Buffer        2ul
 Vector                2.5ul
 insert DNA           14.5ul
 T4 ligase               1ul
 ---------------------------
                        20ul
  • -4C frige overnight.

Prepare the culture for Mini Prep

  • Since we got colonies from yesterday's transformation, we need to culture the colonies for mini prep.

Prepare smm medium

  • The protocal of making smm medium is come from our lab's B.subtilis 168 transformation protocal.

Conclusion

  • After the autoclave of smm medium, the medium got cloudy. It may has something wrong with the ingredients.
July
MTWTFSS
    [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/1_July_2009&action=edit 1] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/2_July_2009&action=edit 2] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/3_July_2009&action=edit 3] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/4_July_2009&action=edit 4] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/5_July_2009&action=edit 5]
[http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/6_July_2009&action=edit 6] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/7_July_2009&action=edit 7] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/8_July_2009&action=edit 8] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/9_July_2009&action=edit 9] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/10_July_2009&action=edit 10] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/11_July_2009&action=edit 11] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/12_July_2009&action=edit 12]
[http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/13_July_2009&action=edit 13] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/14_July_2009&action=edit 14] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/15_July_2009&action=edit 15] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/16_July_2009&action=edit 16] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/17_July_2009&action=edit 17] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/18_July_2009&action=edit 18] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/19_July_2009&action=edit 19]
[http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/20_July_2009&action=edit 20] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/21_July_2009&action=edit 21] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/22_July_2009&action=edit 22] [http://2009.igem.org/Team:Newcastle/Labwork/23_July_2009 23] [http://2009.igem.org/Team:Newcastle/Labwork/24_July_2009 24] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/25_July_2009&action=edit 25] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/26_July_2009&action=edit 26]
[http://2009.igem.org/Team:Newcastle/Labwork/27_July_2009 27] [http://2009.igem.org/Team:Newcastle/Labwork/28_July_2009 28] [http://2009.igem.org/Team:Newcastle/Labwork/29_July_2009 29] [http://2009.igem.org/Team:Newcastle/Labwork/30_July_2009 30] [http://2009.igem.org/Team:Newcastle/Labwork/31_July_2009 31]
August
MTWTFSS
          [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/1_August_2009&action=edit 1] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/2_August_2009&action=edit 2]
[http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/3_August_2009&action=edit 3] [http://2009.igem.org/Team:Newcastle/Labwork/4_August_2009 4] [http://2009.igem.org/Team:Newcastle/Labwork/5_August_2009 5] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/6_August_2009&action=edit 6] [http://2009.igem.org/Team:Newcastle/Labwork/7_August_2009 7] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/8_August_2009&action=edit 8] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/9_August_2009&action=edit 9]
[http://2009.igem.org/Team:Newcastle/Labwork/10_August_2009 10] [http://2009.igem.org/Team:Newcastle/Labwork/11_August_2009 11] [http://2009.igem.org/Team:Newcastle/Labwork/12_August_2009 12] [http://2009.igem.org/Team:Newcastle/Labwork/13_August_2009 13] [http://2009.igem.org/Team:Newcastle/Labwork/14_August_2009 14] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/15_August_2009&action=edit 15] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/16_August_2009&action=edit 16]
[http://2009.igem.org/Team:Newcastle/Labwork/17_August_2009 17] [http://2009.igem.org/Team:Newcastle/Labwork/18_August_2009 18] [http://2009.igem.org/Team:Newcastle/Labwork/19_August_2009 19] [http://2009.igem.org/Team:Newcastle/Labwork/20_August_2009 20] [http://2009.igem.org/Team:Newcastle/Labwork/21_August_2009 21] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/22_August_2009&action=edit 22] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/23_August_2009&action=edit 23]
[http://2009.igem.org/Team:Newcastle/Labwork/24_August_2009 24] [http://2009.igem.org/Team:Newcastle/Labwork/25_August_2009 25] [http://2009.igem.org/Team:Newcastle/Labwork/26_August_2009 26] [http://2009.igem.org/Team:Newcastle/Labwork/27_August_2009 27] [http://2009.igem.org/Team:Newcastle/Labwork/28_August_2009 28] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/29_August_2009&action=edit 29] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/30_August_2009&action=edit 30]
[http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/31_August_2009&action=edit 31]
September
MTWTFSS
  [http://2009.igem.org/Team:Newcastle/Labwork/1_September_2009 1] [http://2009.igem.org/Team:Newcastle/Labwork/2_September_2009 2] [http://2009.igem.org/Team:Newcastle/Labwork/3_September_2009 3] [http://2009.igem.org/Team:Newcastle/Labwork/4_September_2009 4] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/5_September_2009&action=edit 5] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/6_September_2009&action=edit 6]
[http://2009.igem.org/Team:Newcastle/Labwork/7_September_2009 7] [http://2009.igem.org/Team:Newcastle/Labwork/8_September_2009 8] [http://2009.igem.org/Team:Newcastle/Labwork/9_September_2009 9] [http://2009.igem.org/Team:Newcastle/Labwork/10_September_2009 10] [http://2009.igem.org/Team:Newcastle/Labwork/11_September_2009 11] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/12_September_2009&action=edit 12] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/13_September_2009&action=edit 13]
[http://2009.igem.org/Team:Newcastle/Labwork/14_September_2009 14] [http://2009.igem.org/Team:Newcastle/Labwork/15_September_2009 15] [http://2009.igem.org/Team:Newcastle/Labwork/16_September_2009 16] [http://2009.igem.org/Team:Newcastle/Labwork/17_September_2009 17] [http://2009.igem.org/Team:Newcastle/Labwork/18_September_2009 18] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/19_September_2009&action=edit 19] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/20_September_2009&action=edit 20]
[http://2009.igem.org/Team:Newcastle/Labwork/21_September_2009 21] [http://2009.igem.org/Team:Newcastle/Labwork/22_September_2009 22] [http://2009.igem.org/Team:Newcastle/Labwork/23_September_2009 23] [http://2009.igem.org/Team:Newcastle/Labwork/24_September_2009 24] [http://2009.igem.org/Team:Newcastle/Labwork/25_September_2009 25] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/26_September_2009&action=edit 26] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/27_September_2009&action=edit 27]
[http://2009.igem.org/Team:Newcastle/Labwork/28_September_2009 28] [http://2009.igem.org/Team:Newcastle/Labwork/29_September_2009 29] [http://2009.igem.org/Team:Newcastle/Labwork/30_September_2009 30]
October
MTWTFSS
      [http://2009.igem.org/Team:Newcastle/Labwork/1_October_2009 1] [http://2009.igem.org/Team:Newcastle/Labwork/2_October_2009 2] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/3_October_2009&action=edit 3] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/4_October_2009&action=edit 4]
[http://2009.igem.org/Team:Newcastle/Labwork/5_October_2009 5] [http://2009.igem.org/Team:Newcastle/Labwork/6_October_2009 6] [http://2009.igem.org/Team:Newcastle/Labwork/7_October_2009 7] [http://2009.igem.org/Team:Newcastle/Labwork/8_October_2009 8] [http://2009.igem.org/Team:Newcastle/Labwork/9_October_2009 9] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/10_October_2009&action=edit 10] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/11_October_2009&action=edit 11]
[http://2009.igem.org/Team:Newcastle/Labwork/12_October_2009 12] [http://2009.igem.org/Team:Newcastle/Labwork/13_October_2009 13] [http://2009.igem.org/Team:Newcastle/Labwork/14_October_2009 14] [http://2009.igem.org/Team:Newcastle/Labwork/15_October_2009 15] [http://2009.igem.org/Team:Newcastle/Labwork/16_October_2009 16] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/17_October_2009&action=edit 17] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/18_October_2009&action=edit 18]
[http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/19_October_2009&action=edit 19] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/20_October_2009&action=edit 20] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/21_October_2009&action=edit 21] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/22_October_2009&action=edit 22] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/23_October_2009&action=edit 23] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/24_October_2009&action=edit 24] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/25_October_2009&action=edit 25]
[http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/26_October_2009&action=edit 26] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/27_October_2009&action=edit 27] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/28_October_2009&action=edit 28] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/29_October_2009&action=edit 29] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/30_October_2009&action=edit 30] [http://2009.igem.org/wiki/index.php?title=Team:Newcastle/Labwork/31_October_2009&action=edit 31]



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