Wiese Lab:Sequencing Reaction Setup
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Sequencing Reaction Setup
- Assemble components for sequencing reaction, keep on ice:
- template DNA - should be column-purified DNA. For example, Eppendorf Fast Mini with 2-3 ml O/N culture. #*concentration of stock DNA at 100 - 200 ng per ul (0.1 -0.2 ug/ul)
- double the template concentration to improve signal strength.
- sequencing primer diluted to 10 uM (10 pmol primer / ul)
- Big Dye reagent
- 5X Big Dye buffer
- Combine reagents for sequencing reaction.
- Determine amount of sterile water needed to create 20 ul final volume.
- Add water, buffer and enzyme to reaction tubes, or add as a pool as described below.
- Preparation of a buffer/reagent pool may be useful if doing several sequencing reactions.
- To ensure sufficient quantity use a volume multiplication factor of 1.1 to calculate volumes needed. For example, 4 sequencing reactions using the same Big Dye buffer, enzyme and volume of water.
- Prepare a reagent pool containing:
# samples | overage factor | mult factor | ' | ' |
10 | 1.1 | 11 | ||
component | ul per rxn | mult factor | volume | |
enzyme | 2 | 11 | 22 | |
buffer | 3 | 11 | 33 | |
water | 11 | 11 | 121 | |
final vol | 20 | 176 | ||
check | 16 |
3. Amplify template in thermocycler. Remember to check thermocycler settings!
' | ' | ' | File Number | ' | ' |
Temp ( C ) | Time | x Cycles | Cycler #1 | Cycler #2 | Cycler #3 |
95 | 3 min | 1 | 55 | 53 | 26 |
96 | 10 sec | 50 | 58 | 48 | 25 |
58 | 4 min | ||||
72 | 7 | 1 | 10 | 47 | 24 |
4 | infinite | 11 | 44 | 23 |