Have you ever tried RNA isolation from frozen plasma or serum samples? What concentration range you usually get? Would appreciate if anyone can recommend a protocol?
The concentration of RNA isolated from plasma or serum can vary. For instance, in the study comparing different commercial kits, the concentration of RNA isolated using QIAGEN miRNeasy kits and the Macherey-Nagel NucleoSpin kit generally produced higher RNA yields compared to other kits. The average concentration achieved was around 40 pg/µL or higher, which correlated well with endogenous miRNA levels measured by qRT-PCR [1]. Another study that optimized extraction from larger plasma volumes (9 mL) using the Qiagen miRNeasy Serum/Plasma Kit reported obtaining around 35 ng of total RNA, sufficient for downstream applications like small RNA sequencing [2].
Recommended Protocol
Based on the literature, the following protocol is recommended for RNA isolation from frozen plasma or serum samples using a combination of TRIzol LS reagent and QIAvac24 Plus system for high-volume processing:
Sample Preparation:Thaw frozen plasma or serum samples on ice. Centrifuge at 3000 x g for 10 minutes at 4°C to remove any cellular debris.
RNA Extraction:Transfer 1 mL of plasma/serum to a clean 2 mL microcentrifuge tube. Add 3 mL of TRIzol LS reagent to the sample and mix by pipetting up and down. Incubate at room temperature for 5 minutes to permit complete dissociation of nucleoprotein complexes. Add 0.2 mL of chloroform per 1 mL of TRIzol LS reagent used. Cap the tube securely and shake vigorously by hand for 15 seconds. Incubate for 3 minutes at room temperature. Centrifuge the sample at 12,000 x g for 15 minutes at 4°C.
Phase Separation: Following centrifugation, the mixture separates into a lower phenol-chloroform phase, an interphase, and a colorless upper aqueous phase. RNA remains exclusively in the aqueous phase. Transfer the aqueous phase to a new tube, avoiding the interphase.
RNA Precipitation: Add 0.5 mL of isopropanol to the aqueous phase. Mix by inverting the tube several times. Incubate at room temperature for 10 minutes. Centrifuge at 12,000 x g for 10 minutes at 4°C.
RNA Wash: Remove the supernatant and wash the RNA pellet with 1 mL of 75% ethanol. Vortex briefly. Centrifuge at 7,500 x g for 5 minutes at 4°C. Remove the supernatant and briefly air-dry the RNA pellet. Do not let the pellet dry completely as this will make it difficult to dissolve.
RNA Resuspension: Dissolve the RNA pellet in RNase-free water by passing the solution a few times through a pipette tip. Quantify RNA using a spectrophotometer or fluorometer (e.g., Qubit).
Optional: Concentration Step: If higher RNA concentration is needed, concentrate the RNA by evaporation as described in [3]. This involves reducing the volume under a vacuum concentrator.
Using this protocol, you can expect to obtain RNA concentrations that are suitable for downstream applications such as qRT-PCR and RNA sequencing. This method efficiently isolates RNA even from fragmented and degraded samples, ensuring amplifiable RNA for further analysis [3][4].
Overall, RNA isolation from frozen plasma or serum samples can yield sufficient concentrations for various molecular biology applications, provided that optimized protocols and appropriate kits are used.
[1] Max, K., Bertram, K., Akat, K., Bogardus, K. A., Li, J., Morozov, P., Ben-Dov, I., Li, X., Weiss, Z. R., Azizian, A., Sopeyin, A., Diacovo, T., Adamidi, C., Williams, Z., & Tuschl, T. (2018). Human plasma and serum extracellular small RNA reference profiles and their clinical utility. Proceedings of the National Academy of Sciences of the United States of America, 115, E5334 - E5343.
[2] Danielson, K. M., Rubio, R., Abderazzaq, F., Das, S., & Wang, Y. E. (2017). High Throughput Sequencing of Extracellular RNA from Human Plasma. PLoS ONE, 12.
[3] Cerkovnik, P., Perhavec, A., Zgajnar, J., & Novaković, S. (2007). Optimization of an RNA isolation procedure from plasma samples.. International journal of molecular medicine, 20 3, 293-300 .
[4] Meerson, A., & Ploug, T. (2016). Assessment of six commercial plasma small RNA isolation kits using qRT-PCR and electrophoretic separation: higher recovery of microRNA following ultracentrifugation. Biology Methods & Protocols, 1.