APPLICATION OF DROPLET DIGITAL PCR FOR RNA ABSOLUTE QUANTIFICATION

Nguyen Linh Toan1, Bui Khac Cuong2,
1 Department of Pathophysiology, Vietnam Military Medical University
2 Trung tâm nghiên cứu động vật thực nghiệm, Học viện quân y

Main Article Content

Abstract

Objectives: Droplet Digital PCR (ddPCR) is a PCR method using a microdroplet system that allows the measurement of thousands of independent amplification events in a single reaction. The ddPCR technique requires lower sample and reagent volumes, and reduces overall costs compared to other methods while maintaining high sensitivity and accuracy. Methods: The study was conducted by the experimental method, using ddPCR to quantify the number of RNA copies in research samples. The quantification process on the ddPCR system includes microdroplet generation, amplification, microdroplet reading and data analysis to calculate RNA concentration. Results: RNA concentration in undiluted, diluted samples by a factor of 10 and 100 were 380 copies/µL, 40.7 copies/µL and 3.4 copies/µL, respectively. The signal distribution histogram showed a significant difference in signal intensity between the two populations of microdroplets with and without amplification products. The data showed a very tight positive linear correlation between RNA concentration and the dilution factors. Conclusion: ddPCR is a highly sensitive technique for RNA absolute quantification.

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References

1. Pinheiro LB, Coleman VA, Hindson CM, et al. Evaluation of a droplet digital polymerase chain reaction format for DNA copy number quantification. Anal Chem. Jan 17 2012; 84(2):1003-11. doi:10.1021/ac202578x.
2. Drandi D, Ferrante M, Borriero M, Ferrero S. MYD88 L265P mutation detection by ddPCR: Recommendations for screening and minimal residual disease monitoring : ddPCR for highly sensitive detection of MYD88 L265P mutation. Methods Mol Biol. 2023; 2621:57-72. doi:10.1007/978-1-0716-2950-5_5.
3. Wolter M, Felsberg J, Malzkorn B, Kaulich K, Reifenberger G. Droplet digital PCR-based analyses for robust, rapid, and sensitive molecular diagnostics of gliomas. Acta Neuropathol Commun. Mar 31 2022; 10(1):42. doi:10.1186/ s40478-022-01335-6.
4. Falzone L, Musso N, Gattuso G, et al. Sensitivity assessment of droplet digital PCR for SARS-CoV-2 detection. Int J Mol Med. Sep 2020; 46(3):957-964. doi:10.3892/ijmm.2020.4673.
5. Gezer U, Bronkhorst AJ, Holdenrieder S. The Clinical Utility of Droplet Digital PCR for Profiling Circulating Tumor DNA in Breast Cancer Patients. Diagnostics (Basel). Dec 5 2022;12(12)doi:10.3390/diagnostics12123042.
6. Dutton DG, Painter S. The battered woman syndrome: effects of severity and intermittency of abuse. Am J Orthopsychiatry. Oct 1993; 63(4):614-22. doi:10.1037/h0079474.
7. Wan L, Ma J, Gong X, et al. Droplet digital polymerase chain reaction improves the detection of BCR-ABL1 kinase domain mutation in Philadelphia chromosome-positive acute lymphoblastic leukemia. Int J Lab Hematol. Mar 29 2023; doi:10.1111/ijlh.14069
8. Maeda C, Ono Y, Hayashi A, et al. Multiplex digital PCR assay to detect multiple KRAS and GNAS mutations associated with pancreatic carcinogenesis from minimal specimen amounts. J Mol Diagn. Mar 23 2023; doi:10.1016/j.jmoldx.2023.02.007.