You can try to use your first PCR product as a template of a consecutive PCR with the same conditions. check before restriction and let me know if this works for you. Best, Adriana.
P.S Sometimes its also helpful to use DMSO or BSA in PCR to absorb contaminants, but you should find good protocols in literature.
I would recommend DNA extraction in triplicates and then combining those samples to perform Speedvac. It helps in increasing the concentration of DNA, although it won't increase it by a big margin, you can expect a better PCR amplification result. Good luck.
You need to give more information about the soil (type, pH and contamination), the protocol you follow for DNA extraction, and the gene you amplify before we can give you relevant advices.
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