IA2 PCR #4 7/24/19
E41 E42 E43 E44 E45 E46 E47 E48 E49 E50 E51 E52
Procedure
IA2 is also known as PsbA-Coding and is a plastid primer - Primer info
Samples E41 E42 E43 E44 E45 E46 E47 E48 E49 E50 E51 E52 were used in this PCR (polimerase chain reaction) reaction
First A Master Mix of water, 2x mytaq mix, IA2F Primer (concentration: 10 micromolar), IA2R Primer (concentration: 10 micromolar)
| Component | Volume for 14 reactions(+5% error) |
|---|---|
| Water | 132.3 micoleters |
| mytaq mix | 183.75 micoleters |
| IA2F Primer (concentration: 10 micromolar) | 14.7 micoleters |
| IA2R Primer (concentration: 10 micromolar) | 14.7 micoleters |
| BAS (Borine Serum Albumin) | 1 microliter |
24 micoleters of this master mix was added to 14 tubes For the 2 negative controls 12.5 micoleters water and 12.5 micoleters mytaq mix were added E6 was used as the positive control
1 microleter of the DNA samples was added to the coresponding tube
The samples were then placed in the thermocycler set to IA2
the temp was increased by 0.5°C and the cycles were reduced by 5 to try to remove the smear.
| Step | Temperature | Duration | cycles |
|---|---|---|---|
| 1 | 92°C | 3:00 | 1 |
| 2 | 92°C | 0:30 | 30 |
| 3 | 52.5°C | 1:00 | 30 |
| 4 | 72°C | 0:15 | 30 |
| 5 | 72°C | 5:00 | 1 |
| 6 | 4°C | hold | - |
these amplified DNA samples were then tested by making a gel
to create the Gel the following steps were taken
2g agarose and 100ml 1X TAE buffer were mixed to make a 2% agarose 100ml gel mix the mix was microwaved and swirled until there were no flakes then 1 microliters Gelgreen was added
the mix was left to cool for 5 minutes then poured into the gel mold the gel was left to harden for 30 minutes
once hardened enough Used TAE buffer was poured into the gel box to cover the mold
5 microliter aliquots of DNA samples E41 E42 E43 E44 E45 E46 E47 E48 E49 E50 E51 E52 and the two controls were made 1 microliter of 5x loading dye was added to each
First 3 microliters of the HyperLadder 100bp was added to the first well of the mold then the DNA samples were each added to the wells in the following order
| Ladder | E41 | E42 | E43 | Negative Control | E44 | E45 | E46 | Positive Control (E6) |
| Ladder | E47 | E48 | E49 | Negative Control | E50 | E51 | E52 | Positive Control (E6) |
The voltage was set to 100V and run for 60 minutes
This is the resulting Gel
