Wednesday, July 27, 2011

Species compatibility for Ribo-Zero rRNA Removal Kits

Ribo-Zero™ rRNA Removal Kits are becoming the method of choice for RNA-Seq workflows, especially for degraded or compromised RNA samples. We often get questions from customers who want to know whether we have a Ribo-Zero kit for a particular organism. The information below offers some guidance on selecting the appropriate kit.

If you've used a Ribo-Zero kit for a species not listed here, e-mail your results to techhelp@epicentre.com, and we''ll send you a free Epicentre 2 GB flash drive!

Species Ribo-Zero Kit (Human/Mouse/Rat) Compatibility
Human >99% removal of 28S, 18S, 5.8S and 5S rRNAs
Mouse >99% removal of 28S, 18S, 5.8S and 5S rRNAs
Rat >99% removal of 28S, 18S, 5.8S and 5S rRNAs
Other mammalian (e.g., cow, pig) Not tested but expected to perform well.
Drosophila Will not remove 5S rRNA or 'right' fragment of 28S rRNA.
C. elegans Use highest quality RNA possible.
Yeast Removes 26S, 18S, 5.8S rRNAs from intact sample. Will not remove
5S rRNA. Use highest quality RNA possible.
Xenopus Use highest quality RNA possible.
Mosquito Not recommended
Zebra fish Efficient removal of 28S, 18S, and 5S rRNAs. 5.8S rRNA removal
has not been tested.
Lamprey Use highest quality RNA possible.
Shrimp Not recommended
Aspergillus niger 300 nt region of 18S rRNA will not be removed from a degraded sample.
Use highest quality RNA possible.


Species Ribo-Zero Kit (Gram-Negative Bacteria) Compatibility
E. coli >99.9% removal of 23S, 16S and 5S rRNAs
Lactobacillus plantarum >99% removal of 23S, 16S and 5S rRNAs
Salmonella typhimurium Efficiently removes 16S and 5S rRNAs. Does not remove a 107 nt
region of the fragmented 23S rRNA.
Campylobacter Efficiently removes 23S and 16S rRNAs. Will not remove 5S rRNA.
Pseudomonas aeruginosa Efficiently removes 23S, 16S and 5S rRNAs.
Porphyromonas gingivalis Expected to efficiently remove 23S, 16S rRNAs. May not remove 5S
rRNA.
Cyanobacteria Efficiently removes 23S, 16S and 5S rRNAs.
Photorhabdus Efficiently removes 23S, 16S and 5S rRNAs.
Francisella Expected to efficiently remove 23S, 16S, 5S rRNAs.


Species Ribo-Zero Kit (Gram-Positive Bacteria) Compatibility
Bacillus subtilis Removes >99% of 23S, 16S and 5S rRNAs.
Mycobacterium tuberculosis Efficiently removes 23S, 16S and 5S rRNAs.
Streptococcus Expected to efficiently remove 23S, 16S, 5S rRNAs.
Clostridium difficile Expected to efficiently remove 23S, 16S, 5S rRNAs.

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