A proteomics approach for the identification and cloning of monoclonal antibodies from serum

Nature Biotechnology

Volumn 30, Issue 5, 2012, Pages 447-452

  Cheung, Wan Cheung ^a   Beausoleil, Sean A ^a   Zhang, Xiaowu ^a   Sato, Shuji ^a   Schieferl, Sandra M ^a   Wieler, James S ^a   Beaudet, Jason G ^a   Ramenani, Ravi K ^a   Popova, Lana ^a   Comb, Michael J ^a   Rush, John ^a   Polakiewicz, Roberto D ^a  

^a CELL SIGNALING TECHNOLOGY   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AFFINITY PURIFICATION; ANTIBODY THERAPEUTICS; DNA SEQUENCING; HEAVY AND LIGHT CHAINS; LIQUID CHROMATOGRAPHY COUPLED TO TANDEM MASS SPECTROMETRY; POLYCLONAL ANTIBODY; PROTEOMICS; RECOMBINANT MONOCLONAL ANTIBODY; REFERENCE DATABASE; SPECIFIC ACTIVITY; SPECTRAL MATCH;

ANIMALS; ANTIGENS; BODY FLUIDS; GENETIC ENGINEERING; IMMUNIZATION; LIQUID CHROMATOGRAPHY; MASS SPECTROMETRY; MOLECULAR BIOLOGY; PURIFICATION; SURFACE PLASMON RESONANCE;

MONOCLONAL ANTIBODIES;

DNA; IMMUNOGLOBULIN; MONOCLONAL ANTIBODY; POLYCLONAL ANTIBODY;

ANIMAL EXPERIMENT; ANTIBODY DETECTION; ANTIBODY ISOLATION; ANTIBODY PRODUCTION; ANTIGEN SPECIFICITY; CONTROLLED STUDY; DNA SEQUENCE; ISOLATION AND PURIFICATION; LIQUID CHROMATOGRAPHY; MOLECULAR CLONING; NONHUMAN; PRIORITY JOURNAL; PROTEOMICS; REVIEW; TANDEM MASS SPECTROMETRY;

ANIMALS; ANTIBODIES; ANTIBODIES, MONOCLONAL; ANTIBODY SPECIFICITY; B-LYMPHOCYTES; BLOOD PROTEINS; CHROMATOGRAPHY, LIQUID; IMMUNOGLOBULIN G; IMMUNOGLOBULIN VARIABLE REGION; MICE; PROTEOMICS; RABBITS; RECEPTORS, PROGESTERONE; SERUM; TANDEM MASS SPECTROMETRY;

ANIMALIA; MUS; ORYCTOLAGUS CUNICULUS;

EID: 84860381828     PISSN: 10870156     EISSN: 15461696     Source Type: Journal    
DOI: 10.1038/nbt.2167     Document Type: Review

References (35)

1. Baltimore, D. Gene conversion: some implications for immunoglobulin genes. Cell 24, 592-594 (1981).
2. Becker, R.S. & Knight, K.L. Somatic diversification of immunoglobulin heavy chain VDJ genes: evidence for somatic gene conversion in rabbits. Cell 63, 987-997 (1990).
3. Hozumi, N. & Tonegawa, S. Evidence for somatic rearrangement of immunoglobulin genes coding for variable and constant regions. Proc. Natl. Acad. Sci. USA 73, 3628-3632 (1976).
4. Kim, S., Davis, M., Sinn, E., Patten, P. & Hood, L. Antibody diversity: somatic hypermutation of rearranged VH genes. Cell 27, 573-581 (1981).
5. Keller, M.A. & Stiehm, E.R. Passive immunity in prevention and treatment of infectious diseases. Clin. Microbiol. Rev. 13, 602-614 (2000).
6. Lambert, J.S. & Stiehm, E.R. Passive immunity in the prevention of maternal-fetal transmission of human immunodeficiency virus infection. Ann. NY Acad. Sci. 693, 186-193 (1993).
7. Köhler, G. & Milstein, C. Continuous cultures of fused cells secreting antibody of predefined specificity. Nature 256, 495-497 (1975).
8. Barbas, C.F. III., Burton, D.R., Scott, J.K. & Silverman, G.J. Phage Display: A Laboratory Manual (Cold Spring Harbor Laboratory Press, 2001).
9. Harlow, E. & Lane, D. Using Antibodies: A Laboratory Manual (Cold Spring Harbor Laboratory Press, 1998).
10. Lanzavecchia, A., Corti, D. & Sallusto, F. Human monoclonal antibodies by immortalization of memory B cells. Curr. Opin. Biotechnol. 18, 523-528 (2007).
11. Meijer, P.J. et al. Isolation of human antibody repertoires with preservation of the natural heavy and light chain pairing. J. Mol. Biol. 358, 764-772 (2006).
12. O'Brien, P.M. & Aitken, R. Antibody Phage Display: Methods and Protocols (Humana Press, 2002).
13. Pasqualini, R. & Arap, W. Hybridoma-free generation of monoclonal antibodies. Proc. Natl. Acad. Sci. USA 101, 257-259 (2004).
14. Sullivan, M., Kaur, K., Pauli, N. & Wilson, P.C. Harnessing the immune system's arsenal: producing human monoclonal antibodies for therapeutics and investigating immune responses. F1000 Biol. Rep. 3, 17 http://f1000.com/ reports/b/3/17 (2011).
15. Walker, L.M. et al. Broad and potent neutralizing antibodies from an African donor reveal a new HIV-1 vaccine target. Science 326, 285-289 (2009).
16. Fischer, N. Sequencing antibody repertoires: the next generation. MAbs 3, 17-20 (2011).
17. Lakhani, S.R. et al. The pathology of familial breast cancer: predictive value of immunohistochemical markers estrogen receptor, progesterone receptor, HER-2, and p53 in patients with mutations in BRCA1 and BRCA2. J. Clin. Oncol. 20, 2310-2318 (2002).
18. Becker, R.S., Suter, M. & Knight, K.L. Restricted utilization of VH and DH genes in leukemic rabbit B cells. Eur. J. Immunol. 20, 397-402 (1990).
19. Knight, K.L. Restricted VH gene usage and generation of antibody diversity in rabbit. Annu. Rev. Immunol. 10, 593-616 (1992).
20. Mage, R.G., Lanning, D. & Knight, K.L. B cell and antibody repertoire development in rabbits: the requirement of gut-associated lymphoid tissues. Dev. Comp. Immunol. 30, 137-153 (2006).
21. Yates, J.R. III, Eng, J.K., McCormack, A.L. & Schieltz, D. Method to correlate tandem mass spectra of modified peptides to amino acid sequences in the protein database. Anal. Chem. 67, 1426-1436 (1995).
22. Elias, J.E. & Gygi, S.P. Target-decoy search strategy for increased confidence in large-scale protein identifications by mass spectrometry. Nat. Methods 4, 207-214 (2007).
23. Huttlin, E.L. et al. A tissue-specific atlas of mouse protein phosphorylation and expression. Cell 143, 1174-1189 (2010).
24. Kircher, M. & Kelso, J. High-throughput DNA sequencing-concepts and limitations. Bioessays 32, 524-536 (2010).
25. Dereeper, A. et al. Phylogeny.fr: robust phylogenetic analysis for the non-specialist. Nucleic Acids Res. 36, W465-W469 (2008).
26. Reddy, S.T. et al. Monoclonal antibodies isolated without screening by analyzing the variable-gene repertoire of plasma cells. Nat. Biotechnol. 28, 965-969 (2010).
27. Bandeira, N., Pham, V., Pevzner, P., Arnott, D. & Lill, J.R. Automated de novo protein sequencing of monoclonal antibodies. Nat. Biotechnol. 26, 1336-1338 (2008).
28. Castellana, N.E. et al. Resurrection of a clinical antibody: template proteogenomic de novo proteomic sequencing and reverse engineering of an anti-lymphotoxin-alpha antibody. Proteomics 11, 395-405 (2011).
29. Rappsilber, J., Ishihama, Y. & Mann, M. Stop and go extraction tips for matrix-assisted laser desorption/ionization, nanoelectrospray, and LC/MS sample pretreatment in proteomics. Anal. Chem. 75, 663-670 (2003).
30. Villén, J. & Gygi, S.P. The SCX/IMAC enrichment approach for global phosphorylation analysis by mass spectrometry. Nat. Protoc. 3, 1630-1638 (2008).
31. Beausoleil, S.A., Villen, J., Gerber, S.A., Rush, J. & Gygi, S.P. A probability-based approach for high-throughput protein phosphorylation analysis and site localization. Nat. Biotechnol. 24, 1285-1292 (2006).
32. Wu, T.T. & Kabat, E.A. An analysis of the sequences of the variable regions of Bence Jones proteins and myeloma light chains and their implications for antibody complementarity. J. Exp. Med. 132, 211-250 (1970).
33. Doronina, V.A. et al. Site-specific release of nascent chains from ribosomes at a sense codon. Mol. Cell. Biol. 28, 4227-4239 (2008).
34. Donnelly, M.L. et al. The 'cleavage' activities of foot-and-mouth disease virus 2A site-directed mutants and naturally occurring '2A-like' sequences. J. Gen. Virol. 82, 1027-1041 (2001).
35. Boussif, O. et al. A versatile vector for gene and oligonucleotide transfer into cells in culture and in vivo: polyethylenimine. Proc. Natl. Acad. Sci. USA 92, 7297-7301 (1995).