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From 2010.igem.org

Contents 1 Johan 1.1 DNA electrophoresis 1.2 Transformation 1.3 Colony PCR

Johan

DNA electrophoresis

Lane 1: Fermentas FastRuler™ High Range DNA Ladder (link), 3: bFGF vector before site-directed mutagenesis PCR and Dpn I treatment (low concentration; 10 ng/µl), 5: bFGF vector after site-directed mutagenesis PCR and Dpn I treatment.

The vector (bFGF-pGEX) shows the correct size of ~5,5k bp. Comparison between lane 3 & 5 also shows that the amplification in the PCR worked and that Dpn I treatment did not cause problems.

Transformation

PCR creates linear DNA, to make the vector circular it has to be transformed; the E. coli makes it circular.

Notes on protocol:

Step 1. Two tubes Bl21 tubes with competent cells were used, one for the linear mutagenesis DNA vector, and one for commercial plasmid as a positive control.

Step 2. 1 µl was used for both transformations.

Step 3. LB was used instead of SOC.

Step 9. No dilutions was made

Step 10. 50 µl was plated. Two plates was used for each reaction, one commercial carbenicillin plate and one of our ampicillin plate (to examine the state of our plates).

Colony PCR

A colony PCR was performed with tubes from Andreas.

(make names more clear..)

1. PC 30 A
2. PC 31 A
3. PC 32 A
4. PC 30 B
5. PC 31 B
6. PC 32 B
7. PA 30 A
8. PA 31 A
9. PA 32 A
10. PA 30 B
11. PA 31 B
12. PA 32 B
13. PK 30 A
14. PK 31 A
15. PK 32 A
16. PK 30 B
17. PK 31 B
18. PK 32 B
19. PA SOD A
20. PA SOD B
21. PC SOD A
22. PC SOD B
23. PK SOD A
24. PK SOD B
25. PC yCCS A
26. PC yCCS B

• All reaction used VF & VR2 primers. The primers were diluted 15x to get a concentration of 10 µM.
  • 33 µm H2O
  • 2 µl f.primer 10 µM
  • 2 µl r.primer 10 µM
  • 1 µl dNTPs 10 mM
  • 10 µl Pfu buffer 10x
  • 1 µl PfuX7 polymerase
  • 1 µl template DNA

• PCR Reaction:

1. 98 °C - 2 min
2. 31 cycles of
   1. 98 °C - 10 sec
   2. 55 °C - 15 sec
   3. 72 °C - 3 min
3. 72 °C - 5 min
4. 4 °C - ∞