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CRISPRclean Plus Stranded Total RNA Prep with rRNA Depletion
Jumpcode Genomics’ CRISPRclean™ Plus Stranded Total RNA Prep with rRNA Depletion (Human, Mouse, Rat, Pan Bacteria) kit is a directional RNA library prep leveraging a CRISPR-powered depletion workflow facilitating the detection of lower expressing and biologically relevant transcripts from complex samples. An optimized workflow with 9-hour total assay time and 3.5 hours of hands-on time (HOT) is made up of 7 simple steps with multiple safe stopping points.
For research use only. Not for use in diagnostic procedures.
Product information
Overview
- Ideal for analysis of samples containing complex mixtures of eukaryotic and bacterial rRNA
- 3 to 7-fold increase in coverage of SARS-CoV-2 and other genomes in nasopharyngeal (NSP) samples
- Single workflow to detect viral genomic data, microbiome composition, co-infections, and host gene expression
- Streamlined Jumpcode™ CRISPRclean workflow: stranded total RNA library prep with ribodepletion
- Automated on the Sciclone™ G3 NGSx iQ™ liquid handler
Improve your discovery of high-value and biologically interesting transcripts
Powered by CRISPR-Cas9, ribodepletion is highly efficient and programmed to cut ribosomal RNA from human sequences (5S, 5.8S, 18S, 28S, 45S (precursor), mitochondrial 12S and 16S sequences), and 212 bacterial species from all phyla (5S, 16S, and 23S rRNA sequences).
Fully Automated Protocol
A tested method is available to automate Jumpcode Genomics’ CRISPRclean Plus Stranded Total RNA Prep with rRNA Depletion (Human, Mouse, Rat, Pan Bacteria) kit on the Sciclone™ G3 NGSx iQ™ liquid handler.
Multiplexing options
The NEXTFLEX™ RNA-seq 2.0 Unique Dual Index Barcodes (1-384) are provided at a concentration optimized for use with Jumpcode Genomics’ CRISPRclean Plus Stranded Total RNA Prep with rRNA Depletion (Human, Mouse, Rat, Pan Bacteria) kit.
Additional product information
| Assay Time | 9 hours |
|---|---|
| Application | Infectious disease surveillance |
| Hands-on Time | 3.5 hours |
| Sample Types | Complex samples with mixture of eukaryotes and prokaryotes including nasopharyngeal, saliva, gut, skin, and fecal |
| Input Quantity | 5 - 100 ng total RNA |
| Depletion Technology | CRISPR-Cas9 mediated |
| Strand Compatibility | >98% directional and strand specific |
| Compatible Species | Human, mouse, rat, and 212 bacterial species |
| Designed to deplete | Human 5S, 5.8S, 18S, and 28S, 45S rRNA precursor, mitochondrial 12S and 16S rRNA genes, 212 bacterial species representing all phyla: 5S, 16S, and 23S rRNA genes |
| Multiplex | Up to 1536 UDI adapter barcodes |
For the US patent, the patent number is US 10,604,802 entitled Genome Fractioning. The patent publication is available at https://patentimages.storage.googleapis.com/22/2a/ef/6657ca336c9c08/US10604802.pdf
For the EP patent, the patent number is EP3102722 entitled Genome Fractioning. The patent publication is available at https://patentimages.storage.googleapis.com/a7/54/96/52ed494ab92016/EP3102722B1.pdf
Specifications
| Shipping Conditions |
Shipped in Dry Ice
|
|---|---|
| Unit Size |
24 rxns
|
References
- Brown, K., Chan, A. P., Siddique, A., Desplat, Y., Choi, Y., Ranganathan, S., Choudhary, K. S., Diaz, J., Bezney, J., DeAscanis, D., George, Z., Wong, S., Selleck, W., Bowers, J., Zismann, V., Reining, L., Highlander, S., Hakak, Y., & Armstrong, J. R. (2022). A Universal Day Zero Infectious Disease Testing Strategy Leveraging CRISPR-based Sample Depletion and Metagenomic Sequencing. Open Forum Infectious Diseases, 9(Supplement_2), ofac492.5801.
- Cerón, S., Clemons, N. C., von Bredow, B., & Yang, S. (2023). Application of CRISPR-Based Human and Bacterial Ribosomal RNA Depletion for SARS-CoV-2 Shotgun Metagenomic Sequencing. American Journal of Clinical Pathology, 159(2), 111–1151. doi.org/10.1093/ajcp/aqac135
- Uranga C, Nelson KE, Edlund A and Baker JL (2022) Tetramic Acids Mutanocyclin and Reutericyclin A, Produced by Streptococcus mutans Strain B04Sm5 Modulate the Ecology of an in vitro Oral Biofilm. Front. Oral. Health 2:796140. doi.org/10.3389/froh.2021.796140
Resources
CRISPR-based ribodepletion strategy optimized with stranded RNA prep increases coverage of lower-expressing transcripts from...
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