Abstract
Megaprimer-based methodology has been widely applied in site-directed mutagenesis, but rarely used in gene splicing. In this article, we describe a modification of the megaprimer PCR method, which can efficiently create and amplify a specific ligated chimeric gene segment in a PCR reaction and under a common PCR program that is widely used by researchers. More importantly, this modified method for splicing two or more gene fragments together revealed the mechanism of the megaprimer PCR method, by elucidating the key factor in the megaprimer-based protocol. In this method, the denatured megaprimer divided into two strands. One strand was used as template DNA to regenerate megaprimer and the other strand was used as an oligonucleotide primer to create a ligated chimeric gene product. In this article, we detail the modified megaprimer protocol for creating and amplifying these chimeric gene products, including a specific protocol for large chimeric gene products. We also provide additional tips to increase specificity and efficiency of the protocols. In conclusion, the improved megaprimer PCR protocol is a simple, broadly applicable protocol for splicing two different gene fragments together without relying on restriction sites.




Similar content being viewed by others
Explore related subjects
Discover the latest articles and news from researchers in related subjects, suggested using machine learning.References
Heckman, K. L., & Pease, L. R. (2007). Gene splicing and mutagenesis by PCR-driven overlap extension. Nature Protocols, 2, 924–932. doi:10.1038/nprot.2007.132.
Urban, A., Neukirchen, S., & Jaeger, K. E. (1997). A rapid and efficient method for site-directed mutagenesis using one-step overlap extension PCR. Nucleic Acids Research, 25, 2227–2228. doi:10.1093/nar/25.11.2227.
Sandhu, G. S., Aleff, R. A., & Kline, B. C. (1992). Dual asymmetric PCR: One-step construction of synthetic genes. Biotechniques, 12, 14–16.
Fang, G., Weiser, B., Visosky, A., Moran, T., & Burger, H. (1999). PCR-mediated recombination: A general method applied to construct chimeric infectious molecular clones of plasma-derived HIV–1 RNA. Nature Medicine, 5, 239–242. doi:10.1038/5607.
Szewczyk, E., Nayak, T., Oakley, C. E., Edgerton, H., Xiong, Y., Taheri-Talesh, N., et al. (2007). Fusion PCR and gene targeting in Aspergillus nidulans. Nature Protocols, 1, 3111–3120. doi:10.1038/nprot.2006.405.
Karreman, C. (1998). Fusion PCR, a one-step variant of the “megaprimer” method of mutagenesis. Biotechniques, 24, 736, 740, 742.
Coljee, V. W., Murray, H. L., Donahue, W. F., & Jarrell, K. A. (2000). Seamless gene engineering using RNA- and DNA-overhang cloning. Nature Biotechnology, 18, 789–791. doi:10.1038/77363.
Kammann, M., Laufs, J., Schell, J., & Gronenborn, B. (1989). Rapid insertional mutagenesis of DNA by polymerase chain reaction (PCR). Nucleic Acids Research, 17, 5404. doi:10.1093/nar/17.13.5404.
Sarkar, G., & Sommer, S. S. (1990). The “megaprimer” method of site-directed mutagenesis. Biotechniques, 8, 404–407.
Ke, S. H., & Madison, E. L. (1997). Rapid and efficient site-directed mutagenesis by single-tube ‘megaprimer’ PCR method. Nucleic Acids Research, 25, 3371–3372. doi:10.1093/nar/25.16.3371.
Barik, S. (1997). Mutagenesis and gene fusion by megaprimer PCR. Totowa: Humana Press Inc.
Söderberg, M., & Lang, M. A. (2006). Megaprimer-based methodology for deletion of a large fragment within a repetitive Polypyrimidine-Rich DNA. Molecular Biotechnology, 32, 65–71. doi:10.1385/MB:32:1:065.
Picard, V., Ersdal-Badju, E., Lu, A., & Bock, S. C. (1994). A rapid efficient one-tube PCR-based mutagenesis technique using Pfu DNA polymerase. Nucleic Acids Research, 22, 2587–2591. doi:10.1093/nar/22.13.2587.
Stoynova, L., Solorzano, R., & Collins, E. D. (2004). Generation of large deletion mutants from plasmid DNA. Biotechniques, 36, 402–406.
Datta, A. K. (1995). Efficient amplification using ‘megaprimer’ by asymmetric polymerase chain reaction. Nucleic Acids Research, 23, 4530–4531. doi:10.1093/nar/23.21.4530.
Ling, M. M., & Robinson, B. H. (1997). Approaches to DNA mutagenesis: an overview. Analytical Biochemistry, 254, 157–178. doi:10.1006/abio.1997.2428.
Lundberg, K. S., Shoemaker, D. D., Adams, M. W. W., Short, J. M., Sorge, J. A., & Mathur, E. J. (1991). High-fidelity amplification using a thermostable DNA polymerase isolated from Pyrococcus furiosus. Gene, 108, 1–6. doi:10.1016/0378-1119(91)90480-Y.
Acknowledgments
The authors would gratefully acknowledge the laboratory support provided by Professor Xiaofang Luo. This work is supported by China National “948” Program (Grant No. 2005-4-34, 2007-4-02); National High Technology Program (2006AA10Z182); Special Research Fund for Doctor’s Degree Dissertation in Chinese Universities (20060022012); National Natural Science Foundation of China (30371148). This article has been edited by International Science Editing.
Author information
Authors and Affiliations
Corresponding author
Electronic Supplementary Material
Rights and permissions
About this article
Cite this article
Chen, JR., Lü, JJ. & Wang, HF. Rapid and Efficient Gene Splicing Using Megaprimer-Based Protocol. Mol Biotechnol 40, 224–230 (2008). https://doi.org/10.1007/s12033-008-9078-z
Received:
Accepted:
Published:
Issue Date:
DOI: https://doi.org/10.1007/s12033-008-9078-z
