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Nucleic Acids Research, 2003, Vol. 31, No. 19 e118
© 2003 Oxford University Press

DNA display for in vitro selection of diverse peptide libraries

Masato Yonezawa1,2, Nobuhide Doi1, Yuko Kawahashi1,3, Toru Higashinakagawa2 and Hiroshi Yanagawa*,1

1 Department of Biosciences and Informatics, Keio University, Yokohama 223-8522, Japan, 2 Department of Biology, School of Education, Waseda University, Tokyo 169-8050, Japan and 3 Tsukuba Technical Center, Ikedarika Scientific Corp., Tsukuba 305-0062, Japan

*To whom correspondence should be addressed. Tel: +81 45 566 1775; Fax: +81 45 566 1440; Email: hyana{at}bio.keio.ac.jp

We describe the use of a DNA display system for in vitro selection of peptide ligands from a large library of peptides displayed on their encoding DNAs. The method permits completely in vitro construction of a DNA-tagged peptide library by using a wheat germ in vitro transcription/translation system compartmentalized in water-in-oil emulsions. Starting with a library of 109–1010 random decapeptides, 21 different peptide ligands were isolated for monoclonal antibody anti-FLAG M2. DNA display selected more diverse peptides with a DYKXXD consensus motif than previously reported phage display systems. Binding and recovery rates of three peptides were significantly higher than those of the original FLAG peptide, implying that these peptides would be superior to the FLAG peptide for purification of tagged proteins. The simplicity of DNA display enables two selection rounds per day to be conducted. Further, DNA display can overcome the limitations of previous display technologies by avoiding the use of bacterial cells and RNA tags. Thus, DNA display is expected to be useful for rapid screening of a wide variety of peptide ligands for corresponding receptors.


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