Cambio - Excellence in Molecular Biology

In vitro Transcription

In vitro Transcription: mRNA Quality Control

Benchtop PAGE mRNA QC is the New LC/MS

Tired of wait times and costs associated with outsourcing your mRNA for liquid chromatography/mass spectrometry (LC/MS) 5’ capping efficiency and 3’ tail length analyses? Now you can easily perform precise quantitative mRNA 5’ capping efficiency and 3’ poly(A) tail length assessments using standard lab equipment with the EZ-QC™ mRNA Assay Kits.

Discover quantitative fluorescence-based benchtop polyacrylamide gel electrophoresis (PAGE) assays for accurate and cost-effective QC of mRNA 5’ capping and 3’ poly(A) tail length analysis in a single day. Accelerate your mRNA research with the EZ-QC™ Kits for a fraction of the cost of LC/MS.

Benefits:

  • Fast benchtop 5’ capping and 3’ tailing QC analyses
  • Low-input mRNA (picomoles, not micromoles!)
  • Uses common polyacrylamide gel electrophoresis (PAGE) equipment
  • Cost-effective – stretch your budget for more experiments

 

How Our EZ-QC™ mRNA Assays Work

 

EZ-QC™ mRNA Capping Efficiency Assay Kit
Quantitates total capping efficiency (% capped vs uncapped RNA) of synthesized mRNA

How it works:

 

  • A chimeric RNA-DNA-RNA Targeting Oligonucleotide (user provided) hybridizes to the 5′ end of synthesized mRNA.
  • The hybridization complex undergoes RNase H cleavage, releasing capped and uncapped 5′-end fragments.
  • Released capped and uncapped 5′-end fragments are resolved using PAGE and quantitated by fluorescence-based gel band analysis.

 

EZ-QC™ mRNA Cap 1 Efficiency Assay Kit
Quantitates the percentage of Cap 1 vs Cap 0 caps of synthesized mRNA

How it works:

  • 5’ ends of a synthesized mRNA sample are labeled fluorescently with cyanine5 hydrazide (Cy5).
  • Hydrolysis of the Cy5-labeled mRNA mixture releases Cy5-labeled Cap 1 and Cap 0 caps.
  • Size resolution by PAGE and fluorescence-based gel imaging is used to determine percentage of Cap 1 vs
    Cap 0.

 

 

EZ-QC™ mRNA Poly(A) Tail Length Assay Kit
Quantitates poly(A) tail length of synthesized mRNA

How it works:

  • RNase A is used to digest the synthesized mRNA, leaving only intact Poly(A) tails.
  • Poly(A) tails are stained with fluorescent dyes (e.g., SYBR Gold Nucleic Acid Gel Stain (Invitrogen) + provided poly(A) fluorescence enhancer).
  • Poly(A) tail lengths (from 20 to >300 A’s) are resolved using PAGE with our proprietary Poly(A) 20-mer Ladder and quantitated by fluorescence-based gel band analysis.

 

Min-Immune™ Gold dsRNA Removal Kit

The Min-Immune™ Gold dsRNA Removal Kit provides a novel enzymatic solution for the removal of double-stranded RNA (dsRNA) contamination present in RNA samples produced by in vitro transcription (IVT). Each 25-reaction kit will treat 1,500 µg of IVT RNA or mRNA.

CellScript

Catalogue No.DescriptionPack SizePriceQty
MGDR250125Min-Immune™ Gold dsRNA Removal Kit25 Reactions POA Quantity Add to Order

Description

Min-Immune™ Gold dsRNA Removal Kit

 

 

Product Description

The Min-Immune™ Gold dsRNA Removal Kit provides a novel enzymatic solution for the removal of double-stranded RNA (dsRNA) contamination present in RNA samples produced by in vitro transcription (IVT). Each 25-reaction kit will treat 1,500 μg of IVT RNA or mRNA.

The removal of dsRNA from mRNA preparations has been shown to be essential for reducing the innate immunogenic response to the mRNA in cells.1-4 Alternative dsRNA removal methods, such as reverse-phase HPLC,5 hydroxyapatite chromatography6 and cellulose chromatography,7 are associated with high capital costs as well as reduced final product yields. The Min-Immune™ Gold dsRNA Removal Kit provides an easy to use, scalable method for removing the dsRNA content of IVT or mRNA preps without a reduction of the single-stranded RNA yield.

 

  • Easy to use, scalable enzymatic method for removing double-stranded RNA (dsRNA) from RNA samples.
  • Remove dsRNA without the need for chromatographic methods like HPLC.
  • No reduction in single-stranded RNA (ssRNA) yields.
  • Reduces the innate immunogenic response to mRNA in cells.

Uses and Label Licenses for Specific Products: See the Licensing tab for more information.

Product Performance

dsRNA reduction

A Min-Immune™ Gold dsRNA Removal Kit treated 1.4 kb pseudouridine-containing RNA sample was compared to an untreated sample (Figure 1, right panel) and dsRNA Standards (Figure 1, left panel). Triplicates of each sample and standard were immobilized on a charged nitrocellulose membrane, then immunoblotted with a primary dsRNA-specific antibody and a secondary antibody conjugated to horseradish peroxidase (HRP). Signal was detected using enhanced chemiluminescence on a Syngene® G:Box. A regression equation was generated using the dsRNA standard curve on the left and is used to calculate the percent dsRNA present in both the treated and untreated samples seen on the right side of the blot. Results show a reduction of dsRNA content in the treated sample replicates to levels below the limit of detection (0.005%) of this assay after treatment with the Min-Immune™ Gold dsRNA Removal Kit.

Figure 2. dsRNA immuno-dot blot assayed with dsRNA-specific J2 antibody detection using horseradish peroxidase and chemiluminescent detection. 1 µg of Untreated or Treated mRNA was blotted for each experimental sample.

Panel A: Example result of an mRNA prep where the dsRNA content is totally removed by treatment. This mRNA can be used for downstream applications.

Panel B: Example result of an mRNA prep where the mRNA contains an inherent dsRNA region which is not recognized by Min-Immune™ Gold RNase III but is recognized by the J2 antibody. This mRNA can be used in downstream applications.

Panel C: Example result of an mRNA prep where the dsRNA content is not totally removed by treatment. This mRNA would require retreatment prior to many downstream applications.

 

Important Store at -20°C in a freezer without a defrost cycle. Do not store at –70°C.

 

 

Min-Immune™ Gold dsRNA Removal Kit Contents (25 reactions)
Kit Component Reagent Volume
Min-Immune™ Gold RNase III (20X)
in 50% glycerol, 50 mM Tris-HCl, pH 7.5, 500 mM NaCl, 1 mM dithiothreitol (DTT), 0.1 mM EDTA and 0.1% Triton® X-100.
150 μl
Min-Immune™ Gold 10X RNase III Treatment Buffer 300 μl
ScriptGuard™ RNase Inhibitor, 40 U/μl
in 50% glycerol, 50 mM Tris-HCl, pH 7.5, 100 mM NaCl, 10 mM DTT, 0.1 mM EDTA and 0.1% Triton X-100.
75 μl
5 M Ammonium Acetate 2 x 1.6 ml
RNase-Free Water 2 x 1.7 ml

Materials Required, but not Supplied

  • mRNA or IVT RNA for treatment.
  • 70% ethanol

Optional Materials

dsRNA-specific detection system including:

  • dsRNA-specific antibody (e.g., J2 antibody [Absolute Biotech-Exalpha])
  • Dot/slot blotting system for use with the antibody
  • An image analyzer for blot visualization and/or quantification
  • dsRNA standards

References:

  1. Karikó, K. et al., (2011) Nucleic Acids Res. 39, e142.
  2. Schlee, M., Hartmann, G., (2016) Nat. Rev. Immunol. 16, 566.
  3. Pardi, N. et al., (2018) Nat. Rev. Drug Discov. 17, 261.
  4. Mu, X., Hur, S., (2021) Acc. Chem. Res. 54, 4012.
  5. Weissman, D. et al., (2013) Methods Mol. Biol. 969, 43.
  6. Kalmakoff J., Payne C.C., (1973) Anal. Biochem. 55, 26.
  7. Baiersdörfer M. (2019) Mol. Ther. Nucleic Acids. 15, 26.

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