Volume 5, Issue 6, November 2017, Pages: 496-501
Received: Dec. 27, 2017;
Published: Dec. 28, 2017
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Yun Wei Zhang, School of Biomedicial Sciences, Huaqiao University, Quanzhou, China
Dan Hou, Key Laboratory of Oral Medicine, Guangzhou Institute of Oral Disease, Stomatology Hospital of Guangzhou Medical University, Guangzhou, China
Wei Dong Xiao, School of Biomedicial Sciences, Huaqiao University, Quanzhou, China
Jenni Firrman, Dairy and Functional Foods Research Units, Eastern Regional Research Center, Agriculture Research Service, United States Department of Agriculture, Wyndmoor, The United States of America
Lin Shu Liu, Dairy and Functional Foods Research Units, Eastern Regional Research Center, Agriculture Research Service, United States Department of Agriculture, Wyndmoor, The United States of America
Yong Diao, School of Biomedicial Sciences, Huaqiao University, Quanzhou, China
Zhi Qing Qi, School of Biomedicial Sciences, Huaqiao University, Quanzhou, China
Rolling circle amplification (RCA) of genomic or plasmid DNA has found wide used in technique academic and biotechnology reseach. In this study, we have successfully found what caused the nonspecific product in the reaction, thus designing an improved RCA which overcomes false priming at sites where primer dimers are formed. The results demonstrated that PEG or PEI could interact with the components of the improved RCA system, and help increase the reaction rate and yield of the improved RCA system, and dramatically reduces the nonspecific RCA products. This low-cost and efficient method dramatically overcomes nonspecific product amplification phenomenon in the RCA reaction which is problematic and has existed for a long time.
Yun Wei Zhang,
Wei Dong Xiao,
Lin Shu Liu,
Zhi Qing Qi,
Method for Improving Rolling Circle Amplification Sensitivity and Specificity, Science Discovery.
Vol. 5, No. 6,
2017, pp. 496-501.
Chen N, Feng Z. Interconnect Delay Performance Evaluation for Non-Crossing Level and Row Operands Parallel RCA [J]. Tianjin Daxue Xuebao, 2017, 50(4):429-436.
Annabel Rector, Ruth Tachezy, Marc Van Ranst. A sequence-independent strategy for detection and cloning of circular DNA virus genomes by using mμltiply primed rolling-circle amplification. J Virol, 2004, 78(10): 4993–4998.
Seok Y, Joung H A, Jeon H S, et al. Loop-mediated isothermal amplification on the paper-based device for simultaneous and time-dependent detection of bacterial meningitis DNA[J]. Korean Biotechnology Conference, 2016.
Mikawa T, Inoue J, Shigemori Y. Single-stranded DNA binding protein facilitates specific enrichment of circular DNA molecules using rolling circle amplification. Anal Biochem, 2009, 391(2):81-84.
Yoshimura T, Nishida K, Uchibayashi K, Ohuchi S. Microwave assisted rolling circle amplification. Nucleic Acids Symp Ser (Oxf), 2006, (50):305-306.
Hamidi S V, Ghourchian H. Colorimetric monitoring of rolling circle amplification for detection of H5N1 influenza virus using metal indicator.[J]. Biosensors & Bioelectronics, 2015, 72:121-126.
Seok Y, Joung H A, Byun J Y, et al. A Paper-Based Device for Performing Loop-Mediated Isothermal Amplification with Real-Time Simultaneous Detection of Multiple DNA Targets.[J]. Theranostics, 2017, 7(8):2220-2230.
Geng Y, Wu J, Shao L, et al. Sensitive colorimetric biosensing for methylation analysis of p16/CDKN2 promoter with hyperbranched rolling circle amplification [J]. Biosensors & Bioelectronics, 2014, 61(20):593-597.
Kobori T, Takahashi H. Expanding possibilities of rolling circle amplification as a biosensing platform. Anal Sci, 2014, 30(1):59-64.
Xing Y, Wang P, Zang Y, et al. A colorimetric method for H1N1 DNA detection using rolling circle amplification. [J]. Analyst, 2013, 138(12):3457-62.
Zhao W, Ali MM, Brook MA, Li Y. Rolling circle amplification: applications in nanotechnology and biodetection with functional nucleic acids. Angew Chem Int Ed Engl, 2008, 47(34):6330-6337.
Inoue J, Shigemori Y, Mikawa T. Improvements of rolling circle amplification (RCA) efficiency and accuracy using Thermus thermophilus SSB mutant protein. Nucleic Acids Res, 2006, 34(9):e69-e69.
Dabrowski S, Olszewski M, Piatek R, Brillowska-Dabrowska A, Konopa G, Kur J. Identification and characterization of single-stranded-DNA-binding proteins from Thermus thermophilus and Thermus aquaticus-new arrangement of binding domains. Microbiology, 2002, 148(Pt 10):3307-3315.
Ewe A, Höbel S, Heine C, et al. Optimized polyethylenimine (PEI)-based nanoparticles for siRNA delivery, analyzed in vitro and in an ex vivo tumor tissue slice culture model. [J]. Drug Delivery & Translational Research, 2017, 7(2):206-216.
Wang H, Li Q, Yang J, et al. Comb-shaped polymer grafted with REDV peptide, PEG and PEI as targeting gene carrier for selective transfection of human endothelial cells [J]. Journal of Materials Chemistry B, 2017, 5(7).
Muhuri S, Mimura K, Miyoshi D, Sugimoto N. Stabilization of three-way junctions of DNA under molecular crowding conditions. J Am Chem Soc, 2009, 131(26):9268-9280.
Alalaiwe A, Roberts G, Carpinone P, et al. Influence of PEG coating on the oral bioavailability of gold nanoparticles in rats.[J]. Drug Delivery, 2017, 24(1):591.
Gonçalves C, Akhter S, Pichon C, et al. Intra-cellular availability of pDNA and mRNA after transfection: A comparative study in between polyplexes, lipoplexes and lipopolyplexes[J]. Molecular Pharmaceutics, 2016, 13(9).
Miyoshi D, Sugimoto N. Molecular crowding effects on structure and stability of DNA. Biochimie, 2008, 90(7): 1040-1051.
Feng B, Frykholm K, Nordén B, Westerlund F. DNA strand exchange catalyzed by molecular crowding in PEG solutions. Chem Commun (Camb), 2010, 46(43): 8231-8233.
Hayashi K, Nakazawa M, Ishizaki Y, Hiraoka N, Obayashi A. Stimulation of intermolecular ligation with E. coli DNA ligase by high concentrations of monovalent cations in polyethylene glycol solutions. Nucleic Acids Res, 1985, 13(22):7979–7992.
Zimmerman SB, Harrison B. Macromolecular crowding increases binding of DNA polymerase to DNA: an adaptive effect. Proc Natl Acad Sci USA, 1987, 84(7): 1871–1875.
Pheiffer BH, Zimmerman SB. Polymer-stimulated ligation: enhanced blunt- or cohesive-end ligation of DNA or deoxyribooligonucleotides by T4 DNA ligase in polymer solutions. Nucleic Acids Res, 1983, 11(22):7853-7871.
Sasaki Y, Miyoshi D, Sugimoto N. Effect of molecular crowding on DNA polymerase activity. Biotechnol J, 2006, 1(4):440-446.
Samarakoon T, Wang S Y, Alford M H. Enhancing PCR amplification of DNA from recalcitrant plant specimens using a trehalose-based additive. [J]. Applications in Plant Sciences, 2013, 1(1):38-51.