Dear all,
I really need your help, i am working with genomic DNA extracted from actinobacteria, i need fragments over 400-500pb and i have a sonicator to do that work, but i don´t know the best conditions to do it. I´ve researched in articles but the parameters are so differents among experiments. If you have any idea of the amplitud and time ranges on/off that i should use i would aprecciate that information.
I'll tell you that from my experience, the reason the protocols are so different is that each sonicator machine is different. And they take more time if you have more samples due to overlap and interference with the sonicating waves.
The only way to know if your samples are the size you want is to run them out on an agarose gel compared to a size ladder. So, start with more DNA than you need!
Good luck!
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