Hi Felix,
I think the main phenomenon beside the binding of nucleic acid to negatively charged silica surface (witout reference to separate silica particles in suspension (e.g. MP Bio GLASSMILK) or any commercial spin cloumn silica matrix material). So the main points are the same. Lysis, NA binding (DNA/RNA), Washing, Elute of NA. There are some technical differences in apparatus (e. g. columns).
To answer your question vacuum kits can be more high throughput than column based methods. But you should consider that you should test the strenght of the vacuum before use it in real samples. Especially in pDNA midi/maxiprep applications. In order to avoid accidental silica matrix distruption followed by sample loss. A well-esthablished factory vacuum protocol can be followed exactly. But I suggest to be careful in the beginning.
Bests,
Tamas
In this site you will find detailed information about your question
http://geneticeducation.co.in/different-methods-of-dna-purification/
In the Qiagen kit for the gel extraction is possible to use vaccum or centrifuge. I use all the time centrifuge and I don't find any problem.
I asked the manufacturer: The membranes and the buffers are the same.
By the way, centrifugation works quite better than vacuum.
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