Molecular considerations for development of phage antibody libraries

References

• Anand NN, Mandal S, MacKenzie CR, Sadowska J, Sigurskjold B, Young NM, Bundle DR, Narang SA. (1991). Bacterial expression and secretion of various single-chain Fv genes encoding proteins specific for a Salmonella serotype B O-antigen. J Biol Chem, 266, 21874–21879.
   PubMed Web of Science ®Google Scholar
• Azzazy HM, Highsmith WE Jr. (2002). Phage display technology: Clinical applications and recent innovations. Clin Biochem, 35, 425–445.
   PubMed Web of Science ®Google Scholar
• Baradaran B, Hosseini AZ, Majidi J, Farajnia S, Barar J, Saraf ZH, Abdolalizadeh J, Omidi Y. (2009). Development and characterization of monoclonal antibodies against human epidermal growth factor receptor in Balb/c mice. Hum Antibodies, 18, 11–16.
   PubMedGoogle Scholar
• Barbas CF 3rd, Kang AS, Lerner RA, Benkovic SJ. (1991). Assembly of combinatorial antibody libraries on phage surfaces: The gene III site. Proc Natl Acad Sci USA, 88, 7978–7982.
   PubMed Web of Science ®Google Scholar
• Bass S, Greene R, Wells JA. (1990). Hormone phage: An enrichment method for variant proteins with altered binding properties. Proteins, 8, 309–314.
   PubMed Web of Science ®Google Scholar
• Bedzyk WD, Weidner KM, Denzin LK, Johnson LS, Hardman KD, Pantoliano MW, Asel ED, Voss EW Jr. (1990). Immunological and structural characterization of a high affinity anti-fluorescein single-chain antibody. J Biol Chem, 265, 18615–18620.
   PubMed Web of Science ®Google Scholar
• Bird RE, Hardman KD, Jacobson JW, Johnson S, Kaufman BM, Lee SM, Lee T, Pope SH, Riordan GS, Whitlow M. (1988). Single-chain antigen-binding proteins. Science, 242, 423–426.
   PubMed Web of Science ®Google Scholar
• Bothmann H, Plückthun A. (1998). Selection for a periplasmic factor improving phage display and functional periplasmic expression. Nat Biotechnol, 16, 376–380.
   PubMed Web of Science ®Google Scholar
• Bradbury AR, Marks JD. (2004). Antibodies from phage antibody libraries. J Immunol Methods, 290, 29–49.
   PubMed Web of Science ®Google Scholar
• Carmen S, Jermutus L. (2002). Concepts in antibody phage display. Brief Funct Genomic Proteomic, 1, 189–203.
   PubMedGoogle Scholar
• Chames P, Hoogenboom HR, Henderikx P. (2002). Selection of antibodies against biotinylated antigens. Methods Mol Biol, 178, 147–157.
   PubMedGoogle Scholar
• Chappel JA, He M, Kang AS. (1998). Modulation of antibody display on M13 filamentous phage. J Immunol Methods, 221, 25–34.
   PubMed Web of Science ®Google Scholar
• Chasteen L, Ayriss J, Pavlik P, Bradbury AR. (2006). Eliminating helper phage from phage display. Nucleic Acids Res, 34, e145.
   PubMed Web of Science ®Google Scholar
• Chen X, Scala G, Quinto I, Liu W, Chun TW, Justement JS, Cohen OJ, vanCott TC, Iwanicki M, Lewis MG, Greenhouse J, Barry T, Venzon D, Fauci AS. (2001). Protection of rhesus macaques against disease progression from pathogenic SHIV-89.6PD by vaccination with phage-displayed HIV-1 epitopes. Nat Med, 7, 1225–1231.
   PubMed Web of Science ®Google Scholar
• Clackson T, Hoogenboom HR, Griffiths AD, Winter G. (1991). Making antibody fragments using phage display libraries. Nature, 352, 624–628.
   PubMed Web of Science ®Google Scholar
• Deshayes K, Schaffer ML, Skelton NJ, Nakamura GR, Kadkhodayan S, Sidhu SS. (2002). Rapid identification of small binding motifs with high-throughput phage display: Discovery of peptidic antagonists of IGF-1 function. Chem Biol, 9, 495–505.
   PubMed Web of Science ®Google Scholar
• Gao C, Mao S, Lo CH, Wirsching P, Lerner RA, Janda KD. (1999). Making artificial antibodies: A format for phage display of combinatorial heterodimeric arrays. Proc Natl Acad Sci USA, 96, 6025–6030.
   PubMed Web of Science ®Google Scholar
• Goenaga AL, Zhou Y, Legay C, Bougherara H, Huang L, Liu B, Drummond DC, Kirpotin DB, Auclair C, Marks JD, Poul MA. (2007). Identification and characterization of tumor antigens by using antibody phage display and intrabody strategies. Mol Immunol, 44, 3777–3788.
   PubMed Web of Science ®Google Scholar
• Greenwood J, Willis AE, Perham RN. (1991). Multiple display of foreign peptides on a filamentous bacteriophage. Peptides from Plasmodium falciparum circumsporozoite protein as antigens. J Mol Biol, 220, 821–827.
   PubMed Web of Science ®Google Scholar
• Griffiths AD, Williams SC, Hartley O, Tomlinson IM, Waterhouse P, Crosby WL, Kontermann RE, Jones PT, Low NM, Allison TJ. (1994). Isolation of high affinity human antibodies directly from large synthetic repertoires. EMBO J, 13, 3245–3260.
   PubMed Web of Science ®Google Scholar
• Hartley O. (2002). The use of phage display in the study of receptors and their ligands. J Recept Signal Transduct Res, 22, 373–392.
   PubMed Web of Science ®Google Scholar
• Healy JM, Murayama O, Maeda T, Yoshino K, Sekiguchi K, Kikuchi M. (1995). Peptide ligands for integrin α v β 3 selected from random phage display libraries. Biochemistry, 34, 3948–3955.
   PubMed Web of Science ®Google Scholar
• Hof D, Cheung K, Roossien HE, Pruijn GJ, Raats JM. (2006). A novel subtractive antibody phage display method to discover disease markers. Mol Cell Proteomics, 5, 245–255.
   PubMed Web of Science ®Google Scholar
• Holliger P, Prospero T, Winter G. (1993). “Diabodies”: Small bivalent and bispecific antibody fragments. Proc Natl Acad Sci USA, 90, 6444–6448.
   PubMed Web of Science ®Google Scholar
• Holton TA, Graham MW. (1991). A simple and efficient method for direct cloning of PCR products using ddT-tailed vectors. Nucleic Acids Res, 19, 1156.
   PubMed Web of Science ®Google Scholar
• Hoogenboom HR, Winter G. (1992). By-passing immunisation. Human antibodies from synthetic repertoires of germline VH gene segments rearranged in vitro. J Mol Biol, 227, 381–388.
   PubMed Web of Science ®Google Scholar
• Huse WD, Sastry L, Iverson SA, Kang AS, Alting-Mees M, Burton DR, Benkovic SJ, Lerner RA. (1989). Generation of a large combinatorial library of the immunoglobulin repertoire in phage lambda. Science, 246, 1275–1281.
   PubMed Web of Science ®Google Scholar
• Huston JS, Levinson D, Mudgett-Hunter M, Tai MS, Novotný J, Margolies MN, Ridge RJ, Bruccoleri RE, Haber E, Crea R. (1988). Protein engineering of antibody binding sites: Recovery of specific activity in an anti-digoxin single-chain Fv analogue produced in Escherichia coli. Proc Natl Acad Sci USA, 85, 5879–5883.
   PubMed Web of Science ®Google Scholar
• Iannolo G, Minenkova O, Petruzzelli R, Cesareni G. (1995). Modifying filamentous phage capsid: Limits in the size of the major capsid protein. J Mol Biol, 248, 835–844.
   PubMed Web of Science ®Google Scholar
• Imai S, Mukai Y, Nagano K, Shibata H, Sugita T, Abe Y, Nomura T, Tsutsumi Y, Kamada H, Nakagawa S, Tsunoda S. (2006). Quality enhancement of the non-immune phage scFv library to isolate effective antibodies. Biol Pharm Bull, 29, 1325–1330.
   PubMed Web of Science ®Google Scholar
• Intasai N, Arooncharus P, Kasinrerk W, Tayapiwatana C. (2003). Construction of high-density display of CD147 ectodomain on VCSM13 phage via gpVIII: Effects of temperature, IPTG, and helper phage infection-period. Protein Expr Purif, 32, 323–331.
   PubMed Web of Science ®Google Scholar
• Janeway C, Traverse P, Walport M, Shlomchik M.. (2004). Immunobiology: The immune system in health and disease. New York: Garland Science.
   Google Scholar
• Jespers LS, Messens JH, De Keyser A, Eeckhout D, Van den Brande I, Gansemans YG, Lauwereys MJ, Vlasuk GP, Stanssens PE. (1995). Surface expression and ligand-based selection of cDNAs fused to filamentous phage gene VI. Biotechnology (NY), 13, 378–382.
   PubMedGoogle Scholar
• Johansen LK, Albrechtsen B, Andersen HW, Engberg J. (1995). pFab60: A new, efficient vector for expression of antibody Fab fragments displayed on phage. Protein Eng, 8, 1063–1067.
   PubMedGoogle Scholar
• Kaufman DL, Evans GA. (1990). Restriction endonuclease cleavage at the termini of PCR products. BioTechniques, 9, 304–306.
   PubMed Web of Science ®Google Scholar
• Knappik A, Ge L, Honegger A, Pack P, Fischer M, Wellnhofer G, Hoess A, Wölle J, Plückthun A, Virnekäs B. (2000). Fully synthetic human combinatorial antibody libraries (HuCAL) based on modular consensus frameworks and CDRs randomized with trinucleotides. J Mol Biol, 296, 57–86.
   PubMed Web of Science ®Google Scholar
• Knappik A, Krebber C, Plückthun A. (1993). The effect of folding catalysts on the in vivo folding process of different antibody fragments expressed in Escherichia coli. Biotechnology (NY), 11, 77–83.
   PubMedGoogle Scholar
• Kramer RA, Cox F, van der Horst M, van der Oudenrijn S, Res PC, Bia J, Logtenberg T, de Kruif J. (2003). A novel helper phage that improves phage display selection efficiency by preventing the amplification of phages without recombinant protein. Nucleic Acids Res, 31, e59.
   Google Scholar
• Krebber A, Burmester J, Plückthun A. (1996). Inclusion of an upstream transcriptional terminator in phage display vectors abolishes background expression of toxic fusions with coat protein g3p. Gene, 178, 71–74.
   PubMed Web of Science ®Google Scholar
• Kretzschmar T, Geiser M. (1995). Evaluation of antibodies fused to minor coat protein III and major coat protein VIII of bacteriophage M13. Gene, 155, 61–65.
   PubMed Web of Science ®Google Scholar
• Little M, Welschof M, Braunagel M, Hermes I, Christ C, Keller A, Rohrbach P, Kürschner T, Schmidt S, Kleist C, Terness P. (1999). Generation of a large complex antibody library from multiple donors. J Immunol Methods, 231, 3–9.
   PubMed Web of Science ®Google Scholar
• Lowman HB, Bass SH, Simpson N, Wells JA. (1991). Selecting high-affinity binding proteins by monovalent phage display. Biochemistry, 30, 10832–10838.
   PubMed Web of Science ®Google Scholar
• Lu D, Jimenez X, Witte L, Zhu Z. (2004). The effect of variable domain orientation and arrangement on the antigen-binding activity of a recombinant human bispecific diabody. Biochem Biophys Res Commun, 318, 507–513.
   Google Scholar
• Malik P, Terry TD, Gowda LR, Langara A, Petukhov SA, Symmons MF, Welsh LC, Marvin DA, Perham RN. (1996). Role of capsid structure and membrane protein processing in determining the size and copy number of peptides displayed on the major coat protein of filamentous bacteriophage. J Mol Biol, 260, 9–21.
   PubMed Web of Science ®Google Scholar
• Marchuk D, Drumm M, Saulino A, Collins FS. (1991). Construction of T-vectors, a rapid and general system for direct cloning of unmodified PCR products. Nucleic Acids Res, 19, 1154.
   PubMed Web of Science ®Google Scholar
• Marks JD, Hoogenboom HR, Bonnert TP, McCafferty J, Griffiths AD, Winter G. (1991). By-passing immunization. Human antibodies from V-gene libraries displayed on phage. J Mol Biol, 222, 581–597.
   PubMed Web of Science ®Google Scholar
• McCafferty J, Griffiths AD, Winter G, Chiswell DJ. (1990). Phage antibodies: Filamentous phage displaying antibody variable domains. Nature, 348, 552–554.
   PubMed Web of Science ®Google Scholar
• McGregor DP, Robins SP. (2001). External surface display of proteins linked to DNA-binding domains. Anal Biochem, 294, 108–117.
   PubMed Web of Science ®Google Scholar
• Nord K, Gunneriusson E, Ringdahl J, Ståhl S, Uhlén M, Nygren PA. (1997). Binding proteins selected from combinatorial libraries of an α-helical bacterial receptor domain. Nat Biotechnol, 15, 772–777.
   PubMed Web of Science ®Google Scholar
• O’Connell D, Becerril B, Roy-Burman A, Daws M, Marks JD. (2002). Phage versus phagemid libraries for generation of human monoclonal antibodies. J Mol Biol, 321, 49–56.
   PubMed Web of Science ®Google Scholar
• Pansri P, Jaruseranee N, Rangnoi K, Kristensen P, Yamabhai M. (2009). A compact phage display human scFv library for selection of antibodies to a wide variety of antigens. BMC Biotechnol, 9, 6.
   PubMed Web of Science ®Google Scholar
• Phipps ML, Xu X, Nock S, Kassner PD. (2000). Detection of antibody display phage without clearing of bacterial culture. BioTechniques, 29, 737, 739–737, 740.
   PubMed Web of Science ®Google Scholar
• Qin W, Zhao A, Han Y, Wen W, Li Y, Chen G, Zhang Z, Wang H. (2007). A novel technique for efficient construction of large scFv libraries. Mol Biotechnol, 37, 201–205.
   PubMed Web of Science ®Google Scholar
• Rakonjac J, Jovanovic G, Model P. (1997). Filamentous phage infection-mediated gene expression: Construction and propagation of the gIII deletion mutant helper phage R408d3. Gene, 198, 99–103.
   PubMed Web of Science ®Google Scholar
• Sblattero D, Bradbury A. (2000). Exploiting recombination in single bacteria to make large phage antibody libraries. Nat Biotechnol, 18, 75–80.
   PubMed Web of Science ®Google Scholar
• Schofield DJ, Pope AR, Clementel V, Buckell J, Chapple SDj, Clarke KF, Conquer JS, Crofts AM, Crowther SR, Dyson MR, Flack G, Griffin GJ, Hooks Y, Howat WJ, Kolb-Kokocinski A, Kunze S, Martin CD, Maslen GL, Mitchell JN, O’Sullivan M, Perera RL, Roake W, Shadbolt SP, Vincent KJ, Warford A, Wilson WE, Xie J, Young JL, McCafferty J. (2007). Application of phage display to high throughput antibody generation and characterization. Genome Biol, 8, R254.
   PubMed Web of Science ®Google Scholar
• Scott JK, Smith GP. (1990). Searching for peptide ligands with an epitope library. Science, 249, 386–390.
   PubMed Web of Science ®Google Scholar
• Sheets MD, Amersdorfer P, Finnern R, Sargent P, Lindquist E, Schier R, Hemingsen G, Wong C, Gerhart JC, Marks JD, Lindqvist E. (1998). Efficient construction of a large nonimmune phage antibody library: The production of high-affinity human single-chain antibodies to protein antigens. Proc Natl Acad Sci USA, 95, 6157–6162.
   PubMed Web of Science ®Google Scholar
• Sidhu SS, Lowman HB, Cunningham BC, Wells JA. (2000). Phage display for selection of novel binding peptides. Meth Enzymol, 328, 333–363.
   PubMed Web of Science ®Google Scholar
• Smith GP. (1985). Filamentous fusion phage: Novel expression vectors that display cloned antigens on the virion surface. Science, 228, 1315–1317.
   PubMed Web of Science ®Google Scholar
• Smith MW, Smith JW, Harris C, Brancale A, Allender CJ, Gumbleton M. (2007). Phage display identification of functional binding peptides against 4-acetamidophenol (Paracetamol): An exemplified approach to target low molecular weight organic molecules. Biochem Biophys Res Commun, 358, 285–291.
   PubMed Web of Science ®Google Scholar
• Soltes G, Barker H, Marmai K, Pun E, Yuen A, Wiersma EJ. (2003). A new helper phage and phagemid vector system improves viral display of antibody Fab fragments and avoids propagation of insert-less virions. J Immunol Methods, 274, 233–244.
   PubMed Web of Science ®Google Scholar
• Takkinen K, Laukkanen ML, Sizmann D, Alfthan K, Immonen T, Vanne L, Kaartinen M, Knowles JK, Teeri TT. (1991). An active single-chain antibody containing a cellulase linker domain is secreted by Escherichia coli. Protein Eng, 4, 837–841.
   PubMedGoogle Scholar
• Vaughan TJ, Williams AJ, Pritchard K, Osbourn JK, Pope AR, Earnshaw JC, McCafferty J, Hodits RA, Wilton J, Johnson KS. (1996). Human antibodies with sub-nanomolar affinities isolated from a large non-immunized phage display library. Nat Biotechnol, 14, 309–314.
   PubMed Web of Science ®Google Scholar
• Wall JG, Plückthun A. (1995). Effects of overexpressing folding modulators on the in vivo folding of heterologous proteins in Escherichia coli. Curr Opin Biotechnol, 6, 507–516.
   PubMed Web of Science ®Google Scholar
• Wang CI, Yang Q, Craik CS. (1995). Isolation of a high affinity inhibitor of urokinase-type plasminogen activator by phage display of ecotin. J Biol Chem, 270, 12250–12256.
   PubMed Web of Science ®Google Scholar
• Wang LX, Ni J, Singh S, Li H. (2004). Binding of high-mannose-type oligosaccharides and synthetic oligomannose clusters to human antibody 2G12: Implications for HIV-1 vaccine design. Chem Biol, 11, 127–134.
   PubMed Web of Science ®Google Scholar
• Waterhouse P, Griffiths AD, Johnson KS, Winter G. (1993). Combinatorial infection and in vivo recombination: A strategy for making large phage antibody repertoires. Nucleic Acids Res, 21, 2265–2266.
   PubMed Web of Science ®Google Scholar
• Wilson DR, Finlay BB. (1998). Phage display: Applications, innovations, and issues in phage and host biology. Can J Microbiol, 44, 313–329.
   PubMed Web of Science ®Google Scholar
• Wu S, Ke A, Doudna JA. (2007). A fast and efficient procedure to produce scFvs specific for large macromolecular complexes. J Immunol Methods, 318, 95–101.
   PubMed Web of Science ®Google Scholar
• Yanisch-Perron C, Vieira J, Messing J. (1985). Improved M13 phage cloning vectors and host strains: Nucleotide sequences of the M13mp18 and pUC19 vectors. Gene, 33, 103–119.
   PubMed Web of Science ®Google Scholar