We just got some aspirates from the hospital and plan on extracting DNA for next generation sequencing. I was wondering if anyone who has worked with aspirates before knows which DNA extraction method is best for yielding lots of quantity and quality of DNA?
Dear Rohan,
Thank you for your response, these are nasal pharyngeal aspirates from newborn babies. I tried the phenol/chloroform DNA extraction method, I think this method is equivalent to the Trizol extraction. Still, there were no detection of DNA using the 16s totbact rRNA gene primers. I think the aspirates, in general, have low biomass, in addition to that, the samples were collected and frozen immediately, so when it was thawed, aspirates already low in biomass, loses more bacterial DNA. We should try to get fresh aspirates, but we already collected all the patients aspirates for the project and froze it down immediately. So I wanted to think of other ways we can approach this, so we don't waste those samples. I appreciate your help. Thank you.
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