RNA-Seq for the analysis of ribosomal RNA (rRNA) processing sites

Question

[ferdecha]

Greetings!

I want to study ribosomal RNA expression and potential processing sites in bacteria. To such effect, I want to perform an RNA-Seq experiment in order to analyze potential rRNA transcripts isoforms and processing sites.

Conventional RNA-Seq experiments are not designed for the analysis of rRNA expression and generally include a RNA depletion step, which reduces rRNA signal. Notice rRNA in bacteria accounts for ~90% of total RNA.

In the context of studying rRNA processing, would the RNA-Seq approach be appropriate? If so, what rRNA treatment would you recommend to study rRNA expression levels and processing?"

Thank you in advance.

[GXN854]

Hi Ferdecha,

I am also just wandering did you able to find any solution regarding RNA-Seq for the analysis of ribosomal RNA (rRNA) processing sites. I have plan for same thing.

Best wishes

Ghulam Nabi