What is an ideal temperature for ligation reaction?
The DNA ligase enzyme has optimal activity at 25°C so the ligation reaction is carried out at a temperature that is a trade-off between the optimal temperatures for bringing the DNA ends together (1°C) and the enzymatic reaction (25°C).
What temperature does DNA ligase work best at?
around 37 °C
The optimal temperature of commonly used DNA ligase is around 37 °C and therefore the above ligation conditions are not optimal for the action of DNA ligase.
How do you optimize a ligation reaction?
Heat inactivate (Antarctic Phosphatase, Quick CiP, rSAP) before ligation. Keep total DNA concentration between 1-10 µg/ml. Vector: Insert molar ratios between 1:1 and 1:10 are optimal for single insertions (up to 1:20 for short adaptors). Insert: vector molar ratio should be 6:1 to promote multiple inserts.
How do you increase blunt-end ligation efficiency?
Some tips for taming blunt-end ligations
- Tip 1: Increase concentrations of insert and ligase.
- Tip 2: Perform the reaction in two steps.
- Tip 3: Use longer incubation times.
- Tip 4: Take care of how you produce the blunt ends.
- Tip 5: Dephosphorylate the vector.
- Tip 6: … and phosphorylate the insert.
How do you increase blunt end ligation efficiency?
Why are sticky ends better than blunt ends?
Because sticky ends find each other faster due to their attraction for each other, the process of ligation requires less human DNA and less plasmid DNA. The blunt ends of DNA and plasmids are less likely to find each other, and thus ligation of blunt ends requires that more DNA is put into the test tube.
How do you know if ligation worked?
You may run the ligation product on the gel to see if it worked. You should see multiple bands of higher molecular weight than your empty vector, as well as a band of the same size of the insert, since you should be using an excess of insert. Also, before ligating you should smell the ligase buffer.
Can a blunt ends be ligated to a sticky end?
Inserts Can Be Ligated in Two Directions Blunt ends are universally compatible with other blunt ends, so the directionality you can achieve by using sticky ends with different overhang sequences is not possible.
How long can you store a ligation reaction?
It is always good to store at 4C for 12-36 hours and for long term storage (without repeated freeze and thaw) use -20C.