I have to detect dsRNA in bee larvae and pupae. I do not need to quantify. I would extract RNA, synthesize cDNA and try to amplify the target fragment by PCR. But in literature I have seen that only the Northern Blot technique is used to detct dsRNA. Is there any technical reason why PCR cannot be used? Thanks!
Katie A Burnette
With a blot, you can differentiate single-stranded and double-stranded RNA. That's not possible with conventional PCR. So, if there is a possibility that there are also single-stranded transcripts with the same nucleotide sequence, then you can't use PCR to directly look for the dsRNA. However, you could always use PCR to detect the immature RNA that will become your dsRNA.
Good luck!
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