I have to amplify HVR-1 of Plasmodium falciparum ...I diluted primary PCR products 5X and 10X for nested PCR... and I got results in both..which one is more acceptable or effective...
in principle Nested PCR is very effective. From this perspective and based on literature you can even dilute higher and should suceed. Therefore the higher dilution should be better as this will also reduce the amount of all other components form the first amplification like Primers etc