Journal of Dairy Science and Biotechnology

Korean Society of Dairy Science and Biotechnology (한국낙농식품응용생물학회)
권호 표지

Emulsion PCR Improves the Specificity and Sensitivity of PCR-based Pathogen Detection

식중독균 검출의 민감도 향상을 위한 Emulsion PCR 적용

  • Chai, Changhoon (Division of Applied Animal Science, Kangwon National University)
  • 채창훈 (강원대학교 동물생명과학대학 동물응용과학부)
  • Received : 2016.02.23
  • Accepted : 2016.03.16
  • Published : 2016.03.31
Download PDF
⟨ Previous Next ⟩

Abstract

Emulsion PCR (ePCR) has recently gained interest in the areas of food safety and biotechnology owing to its highly specific and sensitive performance in the amplification of target DNA. To facilitate the applications of ePCR to food safety and biotechnology, this paper describes the principles of ePCR and the factors that should be considered in designing ePCR. In addition, current research and applications related to ePCR are discussed.

Keywords

References

  1. Abolmaaty, A., Gu, W., Witkowsky, R. and Levin, R. E. 2007. The use of activated charcoal for the removal of PCR inhibitors from oyster samples. Journal of Microbiological Methods 68(2):349-352. https://doi.org/10.1016/j.mimet.2006.09.012
  2. Chai, C. and Oh, S.-W. 2015. Emulsion PCR to improve sensitivity of PCR-based E. coli O157:H7 ATCC 35150 detection. Food Science and Biotechnology 24(4):1559-1563. https://doi.org/10.1007/s10068-015-0201-1
  3. Corbisier, P., Pinheiro, L., Mazoua, S., Kortekaas, A.-M., Chung, P. Y. J., Gerganova, T., Roebben, G., Emons, H. and Emslie, K. 2015. DNA copy number concentration measured by digital and droplet digital quantitative PCR using certified reference materials. Analytical and Bioanalytical Chemistry 407(7):1831-1840. https://doi.org/10.1007/s00216-015-8458-z
  4. Hori, M., Fukano, H. and Suzuki, Y. 2007. Uniform amplification of multiple DNAs by emulsion PCR. Biochemical and Biophysical Research Communications 352(2):323-328. https://doi.org/10.1016/j.bbrc.2006.11.037
  5. John, M. E. 1992. An efficient method for isolation of RNA and DNA from plants containing polyphenolics. Nucleic Acids Research 20(9):2381. https://doi.org/10.1093/nar/20.9.2381
  6. Johnson, G., Nolan, T. and Bustin, S. 2013. Real-time quantitative PCR, pathogen detection and MIQE. Pages 1-16 in PCR detection of microbial pathogens. M. Wilks, ed. Humana Press.
  7. Lazcka, O., Campo, F. J. D. and Munoz, F. X. 2007. Pathogen detection: a perspective of traditional methods and biosensors. Biosensors and Bioelectronics 22(7):1205-1217. https://doi.org/10.1016/j.bios.2006.06.036
  8. Margulies, M., Egholm, M., Altman, W. E., Attiya, S., Bader, J. S., Bemben, L. A., Berka, J., Braverman, M. S., Chen, Y. J., Chen, Z., Dewell, S. B., Du, L., Fierro, J. M., Gomes, X. V., Godwin, B. C., He, W., Helgesen, S., Ho, C. H., Irzyk, G. P., Jando, S. C., Alenquer, M. L., Jarvie, T. P., Jirage, K. B., Kim, J. B., Knight, J. R., Lanza, J. R., Leamon, J. H., Lefkowitz, S. M., Lei, M., Li, J., Lohman, K. L., Lu, H., Makhijani, V. B., McDade, K. E., McKenna, M. P., Myers, E. W., Nickerson, E., Nobile, J. R., Plant, R., Puc, B. P., Ronan, M. T., Roth, G. T., Sarkis, G. J., Simons, J. F., Simpson, J. W., Srinivasan, M., Tartaro, K. R., Tomasz, A., Vogt, K. A., Volkmer, G. A., Wang, S. H., Wang, Y., Weiner, M. P., Yu, P., Begley, R. F. and Rothberg, J. M. 2005. Genome sequencing in microfabricated high-density picolitre reactors. Nature 437(7057):376-380. https://doi.org/10.1038/nature03959
  9. Matzas, M., Stahler, P. F., Kefer, N., Siebelt, N., Boisguerin, V., Leonard, J. T., Keller, A., Stahler, C. F., Haberle, P., Gharizadeh, B., Babrzadeh, F. and Church, G. M. 2010. High-fidelity gene synthesis by retrieval of sequence-verified DNA identified using high-throughput pyrosequencing. Nature Biotechnology 28(12):1291-1294. https://doi.org/10.1038/nbt.1710
  10. Meyerhans, A., Vartanian, J.-P. and Wain-Hobson, S. 1990. DNA recombination during PCR. Nucleic Acids Research 18(7):1687-1691. https://doi.org/10.1093/nar/18.7.1687
  11. Ministry of Food and Drug Safety. 2016. Food Poisoning Statistics. https://www.foodsafetykorea.go.kr/portal/healthyfoodlife/foodPoisoningStat.do. 16 March 2016.
  12. Miotke, L., Lau, B. T., Rumma, R. T. and Ji, H. P. 2014. High sensitivity detection and quantitation of DNA copy number and single nucleotide variants with single color droplet digital PCR. Analytical Chemistry 86(5):2618-2624. https://doi.org/10.1021/ac403843j
  13. Murgha, Y. E., Rouillard, J.-M. and Gulari, E. 2014. Methods for the preparation of large quantities of complex single-stranded oligonucleotide libraries. PLoS ONE 9(4):e94752. https://doi.org/10.1371/journal.pone.0094752
  14. Nakano, M., Komatsu, J., Matsuura, S., Takashima, K., Katsura, S. and Mizuno, A. 2003. Single-molecule PCR using water-in-oil emulsion. J. Biotechnol. 102(2):117-124. https://doi.org/10.1016/S0168-1656(03)00023-3
  15. Powell, H. A., Gooding, C. M., Garrett, S. D., Lund, B. M. and McKee, R. A. 1994. Proteinase inhibition of the detection of Listeria monocytogenes in milk using the polymerase chain reaction. Letters in Applied Microbiology 18(1):59-61. https://doi.org/10.1111/j.1472-765X.1994.tb00802.x
  16. Radstrom, P., Knutsson, R., Wolffs, P., Lovenklev, M. and Lofstrom, C. Pre-PCR processing. Molecular Biotechnology 26(2):133-146. https://doi.org/10.1385/MB:26:2:133
  17. Rasmussen, S. R., Rasmussen, H. B., Larsen, M. R., Hoff-Jorgensen, R. and Cano, R. J. 1994. Combined polymerase chain reaction-hybridization microplate assay used to detect bovine leukemia virus and Salmonella. Clinical Chemistry 40(2):200-205.
  18. Schuler, F., Trotter, M., Geltman, M., Schwemmer, F., Wadle, S., Dominguez-Garrido, E., Lopez, M., Cervera-Acedo, C., Santibanez, P., von Stetten, F., Zengerle, R. and Paust, N. 2016. Digital droplet PCR on disk. Lab on a Chip 16(1):208-216. https://doi.org/10.1039/C5LC01068C
  19. Schuster, S. C. 2008. Next-generation sequencing transforms today's biology. Nature Methods 5(1):16-18. https://doi.org/10.1038/nmeth1156
  20. Schutze, T., Rubelt, F., Repkow, J., Greiner, N., Erdmann, V. A., Lehrach, H., Konthur, Z. and Glokler, J. 2011. A streamlined protocol for emulsion polymerase chain reaction and subsequent purification. Analytical Biochemistry 410(1):155-157. https://doi.org/10.1016/j.ab.2010.11.029
  21. Shao, K., Ding, W., Wang, F., Li, H., Ma, D. and Wang, H. 2011. Emulsion PCR: a high efficient way of PCR amplification of random DNA libraries in aptamer selection. PLoS ONE 6(9):e24910. https://doi.org/10.1371/journal.pone.0024910
  22. Shendure, J., Porreca, G. J., Reppas, N. B., Lin, X., McCutcheon, J. P., Rosenbaum, A. M., Wang, M. D., Zhang, K., Mitra, R. D. and Church, G. M. 2005. Accurate multiplex polony sequencing of an evolved bacterial genome. Science 309(5741):1728-1732. https://doi.org/10.1126/science.1117389
  23. Shin, H., Lee, S., Kim, J.-S., Kim, J. and Han, K.-H. 2010. Socioeconomic costs of food-borne disease using the cost-of-illness model: Applying the QALY method. Journal of Preventive Medicine and Public Health 43(4):352-361. https://doi.org/10.3961/jpmph.2010.43.4.352
  24. Singh, R. P. and Heldman, D. R. 2013. Introduction to food engineering. Elsevier Science, Burlington, MA.
  25. Sipahioglu, H. M., Usta, M. and Ocak, M. 2006. Use of dried high-phenolic laden host leaves for virus and viroid preservation and detection by PCR methods. Journal of Virological Methods 137(1):120-124. https://doi.org/10.1016/j.jviromet.2006.06.009
  26. Siqueira, J. F., Fouad, A. F. and Rocas, I. N. 2012. Pyrosequencing as a tool for better understanding of human microbiomes. Journal of Oral Microbiology 4:10743. https://doi.org/10.3402/jom.v4i0.10743
  27. Swami, A., Espinosa, G., Guillot, S., Raspaud, E., Boue, F. and Langevin, D. 2008. Confinement of DNA in water-in-oil microemulsions. Langmuir 24(20):11828-11833. https://doi.org/10.1021/la802233e
  28. Wiktor, P., Brunner, A., Kahn, P., Qiu, J., Magee, M., Bian, X., Karthikeyan, K. and LaBaer, J. 2015. Microreactor array device. Scientific Reports 5:8736. https://doi.org/10.1038/srep08736
  29. Williams, R., Peisajovich, S. G., Miller, O. J., Magdassi, S., Tawfik, D. S. and Griffiths, A. D. 2006. Amplification of complex gene libraries by emulsion PCR. Nature Methods 3(7):545-550. https://doi.org/10.1038/nmeth896