Dear all,
we performed an agarose gel purification with MinElute kit (QIAGEN) to extract bands between 3500 bp and 6000 bp for further sequencing with MinION.
After the purification process, the intensity of the bands was really low compared with before the purification.
When we analyzed the resulting sequences we noticed that apart from the expecting reads lenght, a big amount of reads between 200bp and 1500bp appeared.
Have anyone used a similar procedure to purify the DNA before MinION (Flongle) sequencing? Why this DNA fragmentation?
Is possible that after your gel extraction you lose the DNA.
Did you try the purification from ExoSap? I use this step for cleaning the PCR product before to sequence by Sanger method. I dod't know if it work with your method.
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