Paris/July 13

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[[Paris/July 12|yesterday]] -- [[Paris/July 14|tomorrow]] <br>
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== Test of Ftsz TS strain ==
 +
The isolated clones of FtsZ TS all grew at 42°C and at 30°C. They must be mutants... So next time we'll try to find other clones from the source of the strain.
== Transduction of MG1655 with P1 stock made on w121 ==
== Transduction of MG1655 with P1 stock made on w121 ==
-
The isolated clones of FtsZ TS all grew at 42°C. They must be mutants... We'll do the transduction only on MG1655 for the moment.
+
We used 03/07/07 (I) and 12/07/07 (II) phage stock from W121 and MG1655 culture overnight.
 +
- Control (1mL LB MgSO4 30mM; CaCl2 15mM) <br>
 +
- 5µL Phage + 900µL LB (MgSO4 30mM; CaCl2 15mM) + 100µL MG1655 Culture overnight <br>
 +
- 50µL Phage + 900µL LB (MgSO4 30mM; CaCl2 15mM) + 100µL MG1655 Culture overnight <br>
 +
- 500µL Phage + 500µL LB (MgSO4 30mM; CaCl2 15mM) + 100µL MG1655 Culture overnight <br>
 +
 
 +
See [[Paris/PROTOCOLS#Transduction_to_MG1655_using_the_P1_stock_made_on_w121.|Protocols]]
 +
 
 +
== Transformation of Biobricks from the iGEM2007 plates into DH5aplha ==
 +
* <bbpart>BBa_I0500</bbpart>: Inducible pBad/araC  in  pSB2K3 (KanR)
 +
well: 9I,  Plate 2 
 +
 
 +
* <bbpart>BBa_J23100</bbpart>: strong constitutive promoter in BBa_J61002 (AmpR)
 +
well: 21E, Plate 3
 +
 
 +
* <bbpart>BBa_B0015</bbpart>: double terminator (B0010-B0012) in pSB1AK3 (AmpR)
 +
well: 1I, Plate 1
<br>
<br>
-
First step for transduction : adsorption<br>
 
-
use of 03/07/07 (I) and 12/07/07 (II) phage stock from W121 : X2<br>
 
-
MG1655 culture ON<br>
 
-
* Control (1mL LB MgSO4 30mM; CaCl2 15mM)
 
-
* 5µL Phage + 900µL LB (MgSO4 30mM; CaCl2 15mM) + 100µL MG1655 Culture ON
 
-
* 50µL Phage + 900µL LB (MgSO4 30mM; CaCl2 15mM) + 100µL MG1655 Culture ON
 
-
* 500µL Phage + 500µL LB (MgSO4 30mM; CaCl2 15mM) + 100µL MG1655 Culture ON
 
<br>
<br>
-
20 min at 37°C<br>
+
Unfreeze chemio-competent bacteria (E.coli DH5alpha; Invitrogen) on ice 5 min<br>
-
Centrifuge at 12000rpm during 5 min<br>
+
Add 1µL of each resuspended plasmid of interest into 50µL of precedent competent bacteria on ice<br>
-
Resuspend bacteria in 1,5mL LB (NaCitrate 20mM; DAP 300µM)<br>
+
Incubate on ice 30 min<br>
-
Incubation 1h10' at 37°C with agitation<br>
+
heat Shock cells for 20 sec in a 42°C water bath without shaking<br>
-
Centrifuge 5 min at 5000rpm<br>
+
Place tube on ice for 2 min<br>
 +
Add 950µL of pre-waemed medium of choice to each tube<br>
 +
Incubate tubes at 37°C for 1 hour at 200 rpm<br>
<br>
<br>
-
Plate bacteria on LB-agar (NaCitrate 20mM; DAP 300µM)<br>
+
Spread 20 and 200µL from each transformation on pre-warmed selective plates.<br>
 +
* <bbpart>BBa_I0500</bbpart>: Inducible pBad/araC on KanR (100µg/mL) LB-agar
 +
* <bbpart>BBa_J23100</bbpart>: strong constitutive promoter on AmpR (100µg/mL) LB-agar
 +
* <bbpart>BBa_B0015</bbpart>: double terminator (B0010-B0012) on AmpR(100µg/mL) LB-agar
 +
<br>
 +
Incubate plates ON at 37°C<br>
 +
<br>
 +
 
 +
== Microscopy of Acinobacter strain ==
 +
We learn how to use the microscope to see single cells (see [[Paris/PROTOCOLS#Fluorescent_single_cells_visualisation| Protocols]]).
 +
Here we show the photos taken from Acinobacter cells <br>
 +
* left : Acinetobacter grown in Low Nitrogen Mineral medium.
 +
* right : Acinetobacter grow in Low Nitrogen Mineral medium with Nile Red .
 +
Exposure time and scaling is the same for both images. Clearly, some cells on the right are stained by Nile Red, which is specific to triglycerides, whereas almost all cells on the left are not stained. Tipically, the size of one cell is about 5µm.
 +
[[Image:Paris_Acineto_NileRed.jpg|850px]]
 +
<br>
 +
Bottom image : visualisation of colonies stained by Nile Red. It seems that only cells in the middle of colonies (i.e. "old" cells) are producing triglycerides whereas cells on the edges doesn't. <br>
 +
[[Image:Paris_Acineto_Colonies.jpg|500px|center]]
 +
 
 +
== PCRs ==
 +
We received the oligos !!! But not all of them :-(
 +
 
 +
3 PCRs:
 +
* Lox71-FtsA-FtsZ1 : 3 (Lox71-FtsA-F) + 4 (DEcoR1-FtsZ-R)
 +
* FtsZ2: 5 (DEcoR1-FtsZ-F) + 2 FtsZ-R
 +
* Lox66-DapAColi: 6 (Lox66-DapAColi-F) + 7 (DapAColi-R)
-
== Transformation of Biobricks from the iGEM2007 plates ==
+
==Titration of bacteriophages P1 ==
-
* BBa_I0500: Inducible pBad/araC   
+
We measure the strength of former P1 preparation :
-
well: 9I, Plate: 2   pSB2K3
+
* 3.7.7  : ~10<sup>5</sup>/ml : very bad
-
*
+
* 8.7.7 : ~10<sup>2</sup>/ml : very bad
 +
* 12.7.7 : pb : we had the phages too late, and we can't conclude.

Latest revision as of 17:46, 7 October 2007

yesterday -- tomorrow

Contents

Test of Ftsz TS strain

The isolated clones of FtsZ TS all grew at 42°C and at 30°C. They must be mutants... So next time we'll try to find other clones from the source of the strain.

Transduction of MG1655 with P1 stock made on w121

We used 03/07/07 (I) and 12/07/07 (II) phage stock from W121 and MG1655 culture overnight. - Control (1mL LB MgSO4 30mM; CaCl2 15mM)
- 5µL Phage + 900µL LB (MgSO4 30mM; CaCl2 15mM) + 100µL MG1655 Culture overnight
- 50µL Phage + 900µL LB (MgSO4 30mM; CaCl2 15mM) + 100µL MG1655 Culture overnight
- 500µL Phage + 500µL LB (MgSO4 30mM; CaCl2 15mM) + 100µL MG1655 Culture overnight

See Protocols

Transformation of Biobricks from the iGEM2007 plates into DH5aplha

  • BBa_I0500: Inducible pBad/araC in pSB2K3 (KanR)

well: 9I, Plate 2

  • BBa_J23100: strong constitutive promoter in BBa_J61002 (AmpR)

well: 21E, Plate 3

  • BBa_B0015: double terminator (B0010-B0012) in pSB1AK3 (AmpR)

well: 1I, Plate 1

Unfreeze chemio-competent bacteria (E.coli DH5alpha; Invitrogen) on ice 5 min
Add 1µL of each resuspended plasmid of interest into 50µL of precedent competent bacteria on ice
Incubate on ice 30 min
heat Shock cells for 20 sec in a 42°C water bath without shaking
Place tube on ice for 2 min
Add 950µL of pre-waemed medium of choice to each tube
Incubate tubes at 37°C for 1 hour at 200 rpm

Spread 20 and 200µL from each transformation on pre-warmed selective plates.

  • BBa_I0500: Inducible pBad/araC on KanR (100µg/mL) LB-agar
  • BBa_J23100: strong constitutive promoter on AmpR (100µg/mL) LB-agar
  • BBa_B0015: double terminator (B0010-B0012) on AmpR(100µg/mL) LB-agar


Incubate plates ON at 37°C

Microscopy of Acinobacter strain

We learn how to use the microscope to see single cells (see Protocols). Here we show the photos taken from Acinobacter cells

  • left : Acinetobacter grown in Low Nitrogen Mineral medium.
  • right : Acinetobacter grow in Low Nitrogen Mineral medium with Nile Red .

Exposure time and scaling is the same for both images. Clearly, some cells on the right are stained by Nile Red, which is specific to triglycerides, whereas almost all cells on the left are not stained. Tipically, the size of one cell is about 5µm. Paris Acineto NileRed.jpg
Bottom image : visualisation of colonies stained by Nile Red. It seems that only cells in the middle of colonies (i.e. "old" cells) are producing triglycerides whereas cells on the edges doesn't.

Paris Acineto Colonies.jpg

PCRs

We received the oligos !!! But not all of them :-(

3 PCRs:

  • Lox71-FtsA-FtsZ1 : 3 (Lox71-FtsA-F) + 4 (DEcoR1-FtsZ-R)
  • FtsZ2: 5 (DEcoR1-FtsZ-F) + 2 FtsZ-R
  • Lox66-DapAColi: 6 (Lox66-DapAColi-F) + 7 (DapAColi-R)

Titration of bacteriophages P1

We measure the strength of former P1 preparation :

  • 3.7.7  : ~105/ml : very bad
  • 8.7.7  : ~102/ml : very bad
  • 12.7.7 : pb : we had the phages too late, and we can't conclude.
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