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Old 12-17-2013, 08:54 AM   #1
cement_head
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Location: Oxford, Ohio

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Exclamation Can I combine 16S and 18S rRNA in one sequencing run?

Hello,

I wanted to examine a complex system for the presence of both prokaryotic and eukaryotic microbes.

Is it possible to isolate enviromental DNA and then do both the 16S rRNA (http://www.earthmicrobiome.org/emp-s...protocols/16s/) and the 18S rRNA (http://www.earthmicrobiome.org/emp-s...protocols/18s/) library construction in a multiplexed manner and then combine them for sequencing on a MiSeq?

Are there any barriers, or reasons why not to doing this?

Thanks,
CH

Last edited by cement_head; 12-17-2013 at 08:56 AM. Reason: grammar, spelling, clarity
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Old 02-26-2015, 10:17 AM   #2
cement_head
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Old 03-03-2015, 06:10 AM   #3
cliffbeall
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There shouldn't be any problem. We just did a run with two different bacterial amplicons on the MiSeq and it was fine. If you're doing the Illumina 2 PCR system you can use the same index primer set for both.
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16s rrna, 18s, illumina, metagenomes, microbial biodiversity

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