DNA display for in vitro selection of diverse peptide libraries

Nucleic Acids Research

Volumn 31, Issue 19, 2003, Pages

  Yonezawa, Masato ^a,b   Doi, Nobuhide ^a   Kawahashi, Yuko ^a,c   Higashinakagawa, Toru ^b   Yanagawa, Hiroshi ^a  

^a KEIO UNIVERSITY   (Japan)

^b WASEDA UNIVERSITY   (Japan)

^c Ikedarika Scientific Corporation   (Japan)

Author keywords

[No Author keywords available]

Indexed keywords

DNA; FLAG PEPTIDE; LIGAND; MONOCLONAL ANTIBODY; PEPTIDE; PEPTIDE LIBRARY; STREPTAVIDIN;

AMINO ACID SEQUENCE; ARTICLE; BIOTINYLATION; CHEMISTRY; DNA MICROARRAY; EVALUATION; GENETIC TRANSCRIPTION; GENETICS; IMMUNOLOGY; METABOLISM; MOLECULAR CLONING; PROTEIN SYNTHESIS;

AMINO ACID SEQUENCE; ANTIBODIES, MONOCLONAL; BIOTINYLATION; CLONING, MOLECULAR; DNA; LIGANDS; OLIGONUCLEOTIDE ARRAY SEQUENCE ANALYSIS; PEPTIDE LIBRARY; PEPTIDES; PROTEIN BIOSYNTHESIS; STREPTAVIDIN; TRANSCRIPTION, GENETIC;

EID: 0141905882     PISSN: 03051048     EISSN: 13624962     Source Type: Journal    
DOI: 10.1093/nar/gng119     Document Type: Article

References (28)

1. Amstutz,P., Forrer,P., Zahnd,C. and PluÈckthun,A. (2001) In vitro display technologies: novel developments and applications. Curr. Opin. Biotechnol., 12, 400±405.
2. Dower,W.J. and Mattheakis,L.C. (2002) In vitro selection as a powerful tool for the applied evolution of proteins and peptides. Curr. Opin. Chem. Biol., 6, 390±398.
3. Doi,N. and Yanagawa,H. (2001) Genotype-phenotype linkage for directed evolution and screening of combinatorial protein libraries. Comb. Chem. High Throughput Screen., 4, 497±509.
4. Smith,G.P. (1985) Filamentous fusion phage: novel expression vectors that display cloned antigens on the virion surface. Science, 228, 1315±1317.
5. Mattheakis,L.C., Bhatt,R.R. and Dower,W.J. (1994) An in vitro polysome display system for identifying ligands from very large peptide libraries. Proc. Natl Acad. Sci. USA, 91, 9022±9026.
6. Hanes,J. and PluÈckthun,A. (1997) In vitro selection and evolution of functional proteins by using ribosome display. Proc. Natl Acad. Sci. USA, 94, 4937±4942.
7. He,M. and Taussig,M.J. (1997) Antibody-ribosome-mRNA (ARM) complexes as ef®cient selection particles for in vitro display and evolution of antibody combining sites. Nucleic Acids Res., 25, 5132±5134.
8. Nemoto,N., Miyamoto-Sato,E., Husimi,Y. and Yanagawa,H. (1997) In vitro virus: bonding of mRNA bearing puromycin at the 3¢-terminal end to the C-terminal end of its encoded protein on the ribosome in vitro. FEBS Lett., 414, 405±408.
9. Roberts,R.W. and Szostak,J.W. (1997) RNA-peptide fusions for the in vitro selection of peptides and proteins. Proc. Natl Acad. Sci. USA, 94, 12297±12302.
10. Kurz,M., Gu,K., Al-Gawari,A. and Lohse,P.A. (2001) cDNA-protein fusions: covalent protein-gene conjugates for the in vitro selection of peptides and proteins. Chembiochem, 2, 666±672.
11. Tabuchi,I., Soramoto,S., Nemoto,N. and Husimi,Y. (2001) An in vitro DNA virus for in vitro protein evolution. FEBS Lett., 508, 309±312.
12. Taw®k,D.S. and Grif®ths,A.D. (1998) Man-made cell-like compartments for molecular evolution. Nat. Biotechnol., 16, 652±656.
13. Lee,Y.-F., Taw®k,D.S. and Grif®ths,A.D. (2002) Investigating the target recognition of DNA cytosine-5 methyltransferase HhaI by library selection using in vitro compartmentalisation. Nucleic Acids Res., 30, 4937±4944.
14. Grif®ths,A.D. and Taw®k,D.S. (2003) Directed evolution of an extremely fast phosphotriesterase by in vitro compartmentalization. EMBO J., 22, 24±35.
15. Doi,N. and Yanagawa,H. (1999) STABLE: protein-DNA fusion system for screening of combinatorial protein libraries in vitro. FEBS Lett., 457, 227±230.
16. Doi,N., Takashima,H., Kinjo,M., Sakata,K., Kawahashi,Y., Oishi,Y., Oyama,R., Miyamoto-Sato,E., Sawasaki,T., Endo,Y. et al. (2002) Novel ¯uorescence labeling and high-throughput assay technologies for in vitro analysis of protein interactions. Genome Res., 12, 487±492.
17. Kawahashi,Y., Doi,N., Takashima,H., Tsuda,C., Oishi,Y., Oyama,R., Yonezawa,M., Miyamoto-Sato,E. and Yanagawa,H. (2003) In vitro protein microarrays for detecting protein-protein interactions: application of a new method for ¯uorescence labeling of proteins. Proteomics, 3, 1236±1243.
18. Ruiz-Taylor,L.A., Martin,T.L., Zaugg,F.G., Witte,K., Indermuhle,P., Nock,S. and Wagner,P. (2001) Monolayers of derivatized poly(L-lysine)grafted poly(ethylene glycol) on metal oxides as a class of biomolecular interfaces. Proc. Natl Acad. Sci. USA, 98, 852±857.
19. Reznik,G.O., Vajda,S., Smith,C.L., Cantor,C.R. and Sano,T. (1996) Streptavidins with intersubunit crosslinks have enhanced stability. Nat. Biotechnol., 8, 1007±1011.
20. Sano,T., Vajda,S. and Cantor,C.R. (1998) Genetic engineering of streptavidin, a versatile af®nity tag. J. Chromatogr. B Biomed. Sci. Appl., 715, 85±91.
21. Einhauer,A. and Jungbauer,A. (2001) The FLAG peptide, a versatile fusion tag for the puri®cation of recombinant proteins. J. Biochem. Biophys. Methods, 49, 455±465.
22. Ho,Y., Gruhler,A., Heilbut,A., Bader,G.D., Moore,L., Adams,S.L., Millar,A., Taylor,P., Bennett,K., Boutilier,K. et al. (2002) Systematic identi®cation of protein complexes in Saccharomyces cerevisiae by mass spectrometry. Nature, 415, 180±183.
23. Miceli,R.M., DeGraaf,M.E. and Fischer,H.D. (1994) Two-stage selection of sequences from a random phage display library delineates both core residues and permitted structural range within an epitope. J. Immunol. Methods, 167, 279±287.
24. de Wildt,R.M., Mundy,C.R., Gorick,B.D. and Tomlinson,I.M. (2000) Antibody arrays for high-throughput screening of antibody-antigen interactions. Nat. Biotechnol., 9, 989±994.
25. Jermutus,L., Honegger,A., Schwesinger,F., Hanes,J. and PluÈckthun,A. (2001) Tailoring in vitro evolution for protein af®nity or stability. Proc. Natl Acad. Sci. USA, 98, 75±80.
26. Leung,D.W., Chen,E. and Goeddel,D.V. (1989) A method for random mutagenesis of a de®ned DNA segment using a modi®ed polymerase chain reaction. Technique, 1, 11±15.
27. Stemmer,W.P. (1994) Rapid evolution of a protein in vitro by DNA shuf¯ing. Nature, 370, 389±391.
28. Tsuji,T., Onimaru,M. and Yanagawa,H. (2001) Random multirecombinant PCR for the construction of combinatorial protein libraries. Nucleic Acids Res., 29, e97.