Hello everyone.
In order to perform RNA-Seq, we are extracting RNA from plant, shoot (leaves) and roots, and obtained the following profiles after Bioanalyzer analysis (see attached image; do not pay any attention to the identification of 16S and 23S).
Roots samples shown the typical profile, with 2 clear picks for 18S and 28S. In the other hand, shoots samples shown a more complex profile, with a lot of other additional picks. As far as I investigated, this is normal for mature leave tissue.
I'm been longtime working with prokaryotes and do not know much about plants. Can anyone please help me to understand what are the different types of RNA present in shoots samples?
Thank you in advance
Dear David,
Concerning the images, I don't understand why you had problems to view them, as the only thing you have to do is click on them and a high-resolution full screen image is popping-up. I just tried and it worked perfectly. There must be some issue with your computer.
Concerning you answer, yes, I avoid I forgot everything about green plants, and that's why I asked this question. Thank you very much for your answer, it makes now complete sense to what we observed, so the additional peaks at a position similar to those of prokaryote rRNAs must be the ones corresponding to leaves organelles, chloroplasts and/or plastids.
Thank you
Dear David, I'm glad you could visualize the image full resolution.
The images shown identification of 16S and 23S because I used "RNA Prokaryotes" as program when running the Bioanalyzer. The idea is to try to identify bacterial RNA in infected plants. That's the reason why I stated "see attached image; do not pay any attention to the identification of 16S and 23S" in my query.
We grow the plant in the laboratory under sterile conditions, and then we infect them with the bacteria. We are trying to evaluate if this technique allows us to identify the presence of bacteria by looking at the total RNA extracted from those infected and non-infected bacteria. Unfortunately, bacterial cells seems to be in so low amount that the picks for 16S and 23S are very difficult to identify. In leaves, additionally, we encounter the problem o plastid RNAs that coincide in size with the bacterial ones.
Thank you vey much for your answer, it was very helpful.
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