We are trying to extract DNA from sponge tissue but we would like to avoid as much as possible extracting bacterial DNA. So we are looking for a mild lysis buffer.
Bacterial cells have wall, so are more resiliant to lysis. You can try to use a soft lysis method, like use NP40 as a detergent, Tris, NaCl and EDTA. Then separate RNA/DNA and proteins.
From which kind of sample are you starting your DNA extraction? If fresh or well preserved (RNA later) you could try centrifugation-based protocols that separate the nuclei from other cytoplasmic organelles, and, in your case, bacteria.
For instance, check the paper in this link, using plants.
Best regards.
https://www.ncbi.nlm.nih.gov/pmc/articles/PMC3728069/pdf/1746-4811-9-31.pdf
Thanks Thiago. We have tried something similar (from frozen material) but we still get some bacteria and we were wondering if we could somehow avoid extracting their DNA.
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