Development of a Reference Material of a Single DNA Molecule for the Quality Control of PCR Testing

We developed a reference material of a single DNA molecule with a specific nucleotide sequence. The double-strand linear DNA which has PCR target sequences at the both ends was prepared as a reference DNA molecule, and we named the PCR targets on each side as confirmation sequence and standard seque...

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Bibliographic Details
Published in:Analytical chemistry (Washington) 2014-09, Vol.86 (17), p.8621-8627
Main Authors: Mano, Junichi, Hatano, Shuko, Futo, Satoshi, Yoshii, Junji, Nakae, Hiroki, Naito, Shigehiro, Takabatake, Reona, Kitta, Kazumi
Format: Article
Language:English
Subjects:
Biochemistry
Deoxyribonucleic acid
DNA
DNA - analysis
DNA - standards
Enzymes
Gene sequencing
Molecules
Nucleotides
Plants, Genetically Modified - genetics
Polymerase chain reaction
Quality Control
Real time
Real-Time Polymerase Chain Reaction - standards
Reference materials
Wells
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Summary:We developed a reference material of a single DNA molecule with a specific nucleotide sequence. The double-strand linear DNA which has PCR target sequences at the both ends was prepared as a reference DNA molecule, and we named the PCR targets on each side as confirmation sequence and standard sequence. The highly diluted solution of the reference molecule was dispensed into 96 wells of a plastic PCR plate to make the average number of molecules in a well below one. Subsequently, the presence or absence of the reference molecule in each well was checked by real-time PCR targeting for the confirmation sequence. After an enzymatic treatment of the reaction mixture in the positive wells for the digestion of PCR products, the resultant solution was used as the reference material of a single DNA molecule with the standard sequence. PCR analyses revealed that the prepared samples included only one reference molecule with high probability. The single-molecule reference material developed in this study will be useful for the absolute evaluation of a detection limit of PCR-based testing methods, the quality control of PCR analyses, performance evaluations of PCR reagents and instruments, and the preparation of an accurate calibration curve for real-time PCR quantitation.
ISSN:0003-2700
1520-6882
DOI:10.1021/ac501314s