Comparison of procedures for RNA-extraction from peripheral blood mononuclear cells

PLoS One. 2020 Feb 21;15(2):e0229423. doi: 10.1371/journal.pone.0229423. eCollection 2020.

Abstract

RNA quality and quantity are important factors for ensuring the accuracy of gene expression analysis and other RNA-based downstream applications. Thus far, only a limited number of methodological studies have compared sample storage and RNA extraction procedures for human cells. We compared three commercially available RNA extraction kits, i.e., (NucliSENS) easyMAG, RNeasy (Mini Kit) and RiboPure (RNA Purification Kit-blood). In addition, additional conditions, such as storage medium and storage temperature of human peripheral blood mononuclear cells were evaluated, i.e., 4 °C for RNAlater or -80 °C for QIAzol and for the respective cognate lysis buffers; easyMAG, RNeasy or RiboPure. RNA was extracted from aliquots that had been stored for one day (Run 1) or 83 days (Run 2). After DNase treatment, quantity and quality of RNA were assessed by means of a NanoDrop spectrophotometer, 2100 Bioanalyzer and RT-qPCR for the ACTB reference gene. We observed that high-quality RNA can be obtained using RNeasy and RiboPure, regardless of the storage medium, whereas samples stored in RNAlater resulted in the least amount of RNA extracted. In addition, RiboPure combined with storage of samples in its cognate lysis buffer yielded twice as much RNA as all other procedures. These results were supported by RT-qPCR and by the reproducibility observed for two independent extraction runs.

Publication types

  • Comparative Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Actins / genetics
  • Humans
  • Leukocytes, Mononuclear / metabolism*
  • RNA / analysis
  • RNA / genetics
  • RNA / isolation & purification*
  • Reagent Kits, Diagnostic
  • Real-Time Polymerase Chain Reaction / methods*
  • Real-Time Polymerase Chain Reaction / standards
  • Reference Standards
  • Reproducibility of Results
  • Specimen Handling / methods*

Substances

  • Actins
  • Reagent Kits, Diagnostic
  • RNA

Grants and funding

The author AR has received funding from the European Union’s Horizon 2020 research and innovation program under the Marie Sklodowska-Curie grant agreement No. 642095. https://ec.europa.eu/programmes/horizon2020/en/h2020-section/marie-sklodowska-curie-actions The funders had no role in study design, data collection and analysis, decision to publish, or preparation of the manuscript.