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Open AccessArticle

A Novel Pretreatment-Free Duplex Chamber Digital PCR Detection System for the Absolute Quantitation of GMO Samples

1
Beijing Advanced Innovation Center for Food Nutrition and Human Health, College of Food Science & Nutritional Engineering, China Agricultural University, Beijing 100083, China
2
Beijing Laboratory for Food Quality and Safety, College of Food Science and Nutritional Engineering, China Agricultural University, Beijing 100083, China
*
Author to whom correspondence should be addressed.
Academic Editor: Stephen A. Bustin
Int. J. Mol. Sci. 2016, 17(3), 402; https://doi.org/10.3390/ijms17030402
Received: 16 January 2016 / Revised: 13 March 2016 / Accepted: 14 March 2016 / Published: 18 March 2016
(This article belongs to the Section Molecular Pathology, Diagnostics, and Therapeutics)
Digital polymerase chain reaction (PCR) has developed rapidly since it was first reported in the 1990s. However, pretreatments are often required during preparation for digital PCR, which can increase operation error. The single-plex amplification of both the target and reference genes may cause uncertainties due to the different reaction volumes and the matrix effect. In the current study, a quantitative detection system based on the pretreatment-free duplex chamber digital PCR was developed. The dynamic range, limit of quantitation (LOQ), sensitivity and specificity were evaluated taking the GA21 event as the experimental object. Moreover, to determine the factors that may influence the stability of the duplex system, we evaluated whether the pretreatments, the primary and secondary structures of the probes and the SNP effect influence the detection. The results showed that the LOQ was 0.5% and the sensitivity was 0.1%. We also found that genome digestion and single nucleotide polymorphism (SNP) sites affect the detection results, whereas the unspecific hybridization within different probes had little side effect. This indicated that the detection system was suited for both chamber-based and droplet-based digital PCR. In conclusion, we have provided a simple and flexible way of achieving absolute quantitation for genetically modified organism (GMO) genome samples using commercial digital PCR detection systems. View Full-Text
Keywords: GMO; digital PCR; pretreatment-free; absolute quantitative detection method GMO; digital PCR; pretreatment-free; absolute quantitative detection method
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MDPI and ACS Style

Zhu, P.; Wang, C.; Huang, K.; Luo, Y.; Xu, W. A Novel Pretreatment-Free Duplex Chamber Digital PCR Detection System for the Absolute Quantitation of GMO Samples. Int. J. Mol. Sci. 2016, 17, 402.

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