About two weeks ago I sheared some gDNA samples on the Covaris E210 and purified them with AMPure beads, as instructed by the SureSelect XT protocol. I measured the samples on the Bioanalyzer 2100 immediately following clean-up and received good peaks at the right area. However, I re-measured the samples as a positive control and I see that even though the peaks are still present for my sample, they are much shorter and it appears I have lost some gDNA.
My first instinct is to consider this nuclease contamination, but if this were the case, wouldn't I not see any evidence of DNA on the Bioanalyzer? I'm also wondering if I lost DNA following the freeze-thaw cycle the samples underwent, for they were stored at -20 degrees Celsius. Does anyone else have any ideas about what could be causing this DNA loss, as well as any suggestions about how I should prevent it? Thanks!
My first instinct is to consider this nuclease contamination, but if this were the case, wouldn't I not see any evidence of DNA on the Bioanalyzer? I'm also wondering if I lost DNA following the freeze-thaw cycle the samples underwent, for they were stored at -20 degrees Celsius. Does anyone else have any ideas about what could be causing this DNA loss, as well as any suggestions about how I should prevent it? Thanks!
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