I am doing metagenomic sequencing without enrichment for an RNA virus. After my RNA is extracted from the blood I am doing library prep with the NEBNext Ultra directional RNA library prep kit for illumina.
What QC tests can I do for this and what would good/pure viral RNA look like?
I have tried nanodrop and bioanalyzer but I'm not familiar with viral metagenomic sequencing.
Thank you for your help.
Hannah Kozl
Have you seen this paper:Article Optimization and validation of sample preparation for metage...
Here is another paper from Nature." Look into its "Materials & Method" section to see how they performed the experiment. I think they are doing the similar thing as you are doing.
Efficient and unbiased metagenomic recovery of RNA virus genomes from human plasma samples (https://www.nature.com/articles/s41598-017-02239-5)
Hannah Kozl
I checked "NEBNext Ultra directional RNA library prep kit for illumina." It suggests that you should check if the total RNA you isolated is intact or degraded. See attachment, they suggest you to check RNA integrity using Bioanalyzer (see attachment).
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