Dear all, I am optimizing PCR for cloning. How much primer do you recommend I add (in ng) for a 50 uL reaction? I'm looking for a range so that I may optimize. Thanks in advance...
Hi Bianca! Typically 0.1-0.2 nmol are a good range for primers in a 50 uL reaction.
The weight of your primers in ng depends on their composition, as different nucleosides have different molecular weights, and you can calculate the molecular weight of your specific primer using the following formula:
Primer Molecular Weight = (An x 313.21) + (Tn x 304.2) + (Cn x 289.18) + (Gn x 329.21) - 61.96
I give you some examples here:
-the relatively short primer ATGCATCGATCGATC has a molecular weight of 4552 g/mol (or ng/nmol).
-the relatively long primer ATGCATCGATCGATCATGCATCGATCGATCATGCATCGATCG has a molecular weight of 12873 ng/nmol.
I presume that your primers will have their molecular weights somewhere between the two examples shown here, which means you should add your primers in the range between 450 - 2500 ng of each primer to your 50 uL reaction mixture (which already considers the range of 0.1-0.2 nmol variation).
You can further narrow down this estimation if you know the sequence of your primers. Good luck!