Hi all,
We use Roche Rapid kit for environmental metagenomics. People working in this area probably have experienced that total community DNA is usually not with as highly good quality as compared to genomic DNA from cultures, tissues etc, some DNA is fragmented after purification. So we have some degradation of our DNA always. What we have observed is that we get lower quality of reads when proportion of degraded DNA is higher, and not so much related to yield of DNA. Well quite obvious, right?
My questions can we expect to worsen or get better results when we use large amount of DNA in Rapid kit? Could we get even worse results by some preferential sequencing of shorter fragments etc.?
v.
We use Roche Rapid kit for environmental metagenomics. People working in this area probably have experienced that total community DNA is usually not with as highly good quality as compared to genomic DNA from cultures, tissues etc, some DNA is fragmented after purification. So we have some degradation of our DNA always. What we have observed is that we get lower quality of reads when proportion of degraded DNA is higher, and not so much related to yield of DNA. Well quite obvious, right?
My questions can we expect to worsen or get better results when we use large amount of DNA in Rapid kit? Could we get even worse results by some preferential sequencing of shorter fragments etc.?
v.
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