NanoPad: An integrated platform for bacterial production of camel nanobodies aimed at detecting environmental biomarkers

Proteomics

Volumn 13, Issue 18-19, 2013, Pages 2766-2775

  Fraile, Sofía ^a   Jiménez, Jose I ^a,c   Gutiérrez, Carlos ^b   De Lorenzo, Víctor ^a  

^a CENTRO NACIONAL DE BIOTECNOLOGÍA   (Spain)

^b UNIVERSITY OF LAS PALMAS DE GRAN CANARIA   (Spain)

^c Massachusetts Institute of Technology Cambridge   (United States)

Author keywords

Bioremediation; Biphenyl; BphC; Microbiology; PCBs; Western panning

Indexed keywords

BIPHENYL 2,3 DIOXYGENASE; DIOXYGENASE; HEMOLYSIN; NANOBODY; POLYACRYLAMIDE GEL; UNCLASSIFIED DRUG;

ANTIBODY DETECTION; ARTICLE; BIODEGRADATION; BIOPANNING; CAMEL; CONTROLLED STUDY; CULTURE MEDIUM; NANOPAD; NANOTECHNOLOGY; NONHUMAN; PRIORITY JOURNAL;

BIOREMEDIATION; BIPHENYL; BPHC; MICROBIOLOGY; PCBS; WESTERN-PANNING;

ANIMALS; BACTERIA; BIOLOGICAL MARKERS; BLOTTING, WESTERN; CAMELS; DIOXYGENASES; ENVIRONMENTAL MICROBIOLOGY; ENZYME-LINKED IMMUNOSORBENT ASSAY; IMMUNOGLOBULIN HEAVY CHAINS; PROTEIN ENGINEERING; PROTEOME; PROTEOMICS; RECOMBINANT PROTEINS; SINGLE-DOMAIN ANTIBODIES;

EID: 84885070482     PISSN: 16159853     EISSN: 16159861     Source Type: Journal    
DOI: 10.1002/pmic.201300009     Document Type: Article

References (34)

1. He, Z., Deng, Y., Van Nostrand, J. D., Tu, Q. et al., GeoChip 3.0 as a high-throughput tool for analyzing microbial community composition, structure and functional activity. ISME J. 2010, 4, 1167-1179.
2. de Lorenzo, V., Systems biology approaches to bioremediation. Curr. Opin. Biotechnol. 2008, 19, 579-589.
3. Zafra, O., Fraile, S., Gutierrez, C., Haro, A. et al., Monitoring biodegradative enzymes with nanobodies raised in Camelus dromedarius with mixtures of catabolic proteins. Environ. Microbiol. 2011, 13, 960-974.
4. Köhler, G., Milstein, C., Continuous cultures of fused cells secreting antibody of predefined specificity. Nature 1975, 256, 495-497.
5. Fishwild, D. M., O'Donnell, S. L., Bengoechea, T., Hudson, D. V. et al., High-avidity human IgGk monoclonal antibodies from a novel strain of minilocus transgenic mice. Nat. Biotechnol. 1996, 14, 845-851.
6. Li, J., Sai, T., Berger, M., Chao, Q. et al., Human antibodies for immunotherapy development generated via a human B cell hybridoma technology. Proc. Natl. Acad. Sci. USA 2006, 103, 3557-3562.
7. Winter, G., Griffiths, A. D., Hawkins, R. E., Hoogenboom, H. R., Making antibodies by phage display technology. Ann. Rev. Microbiol. 1994, 12, 433-455.
8. Boder, E. T., Wittrup, K. D., Yeast surface display for screening combinatorial polypeptide libraries. Nat. Biotechnol. 1997, 15, 553-557.
9. Georgiou, G., Stathopoulos, C., Daugherty, P. S., Nayak, A. R. et al., Display of heterologous proteins on the surface of microorganisms: from the screening of combinatorial libraries to live recombinant vaccines. Nat. Biotechnol. 1997, 15, 29-34.
10. Fernandez, L. A., Prokaryotic expression of antibodies and affibodies. Curr. Opin. Biotechnol. 2004, 15, 364-373.
11. Hamers-Casterman, C., Atarhouch, T., Muyldermans, S., Robinson, G. et al., Naturally occurring antibodies devoid of light chains. Nature 1993, 363, 446-448.
12. Ding, Y. L., Liu, M. Y., Han, W., Yang, S. L. et al., Application of phage-displayed single chain antibodies in western blot. Acta Biochim. Biophys. Sin. 2005, 37, 205-209.
13. Tzschaschel, B. D., Guzman, C. A., Timmis, K. N., de Lorenzo, V., An Escherichia coli hemolysin transport system-based vector for the export of polypeptides: export of shiga-like toxin IIeB subunit by Salmonella typhimurium aroA. Nat. Biotechnol. 1996, 14, 765-769.
14. Carter, P., Bedouelle, H., Winter, G., Improved oligonudeotide site-directed rautagenesis using M13 vectors. Nucl. Acids Res. 1985, 13, 4431-4443.
15. Sambrook, R., Molecular Cloning: A Laboratory Manual (3rd ed.), Cold Spring Harbor Laboratory Press, New York 2001.
16. Manoil, C., Beckwith, J., TnphoA: a transposon probe for protein export signals. Proc. Natl. Acad. Sci. USA 1985, 82, 8129-8133.
17. Goris, J., De Vos, P., Caballero-Mellado, J., Park, J. et al., Classification of the biphenyl- and polychlorinated biphenyl-degrading strain LB400T and relatives as Burkholderia xenovorans sp. nov. Int. J. Syst. Evol. Microbiol. 2004, 54, 1677-1681.
18. Abril, M. A., Michan, C., Timmis, K. N., Ramos, J. L., Regulator and enzyme specificities of the TOL plasmid-encoded upper pathway for degradation of aromatic hydrocarbons and expansion of the substrate range of the pathway. J. Bacteriol. 1989, 171, 6782-6790.
19. Ausubel, F. M., Brent, R., Kingston, R. E., Moore, D. D. et al., Current Protocols in Molecular Biology, John Wiley & Sons, New York 1994.
20. Dowling, D. N., Pipke, R., Dwyer, D. F., A DNA module encoding bph genes for the degradation of polychlorinated biphenyls (PCBs). FEMS Microbiol. Lett. 1993, 113, 149-154.
21. Fernández, S., de Lorenzo, V., Pérez-Martín, J., Activation of the transcriptional regulator XylR of Pseudomonas putida by release of repression between functional domains. Mol. Microbiol. 1995, 16, 205-213.
22. Stein, D. C., Plasmid with easily excesable cassettes. Gene 1992, 117, 157-158.
23. Fernandez, L. A., Sola, I., Enjuanes, L., de Lorenzo, V., Specific secretion of active single-chain Fv antibodies into the supernatants of Escherichia coli cultures by use of the hemolysin system. Appl. Environ. Microbiol. 2000, 66, 5024-5029.
24. Fraile, S., Muñoz, A., de Lorenzo, V., Fernández, L. A., Secretion of proteins with dimerization capacity by the hemolysin type I transport system of Escherichia coli. Mol. Miocrobiol. 2004, 53, 1109-1121.
25. Clackson, T., Lowman, H. B. (Eds.), Phage Display. A Practical Approach, Oxford University Press, New York 2004.
26. Fraile, S., Roncal, F., Fernandez, L. A., de Lorenzo, V., Monitoring intracellular levels of XylR in Pseudomonas putida with a single-chain antibody specific for aromatic-responsive enhancer-binding proteins. J. Bacteriol. 2001, 183, 5571-5579.
27. Wessel, D., Flügge, U. I., A method for the quantitative recovery of protein in dilute solution in the presence of detergents and lipids. Anal. Biochem. 1984, 138, 141-143.
28. Erickson, B. D., Mondello, F. J., Nucleotide sequencing and transcriptional mapping of the genes encoding biphenyl dioxygenase, a multicomponent polychlorinated-biphenyl-degrading enzyme in Pseudomonas strain LB400. J. Bacteriol. 1992, 174, 2903-2912.
29. Finklea, J., Priester, L. E., Creason, J. P., Hauser, T. et al., Polychlorinated biphenyl residues in human plasma expose a major urban pollution problem. Am. J. Public Health 1972, 62, 645-651.
30. Pieper, D. H., Seeger, M., Bacterial metabolism of polychlorinated biphenyls. J. Mol. Biol. Biotechnol. 2008, 15, 121-138.
31. Ravn, P., Kjaer, S., Jensen, K. H., Wind, T. et al., Identification of phage antibodies toward the Werner protein by selection on Western blots. Electrophoresis 2000, 21, 509-516.
32. Furuta, M., Ito, T., Eguchi, C., Tanaka, T. et al., Two-dimensional electrophoresis/phage panning (2D-PP): a novel technology for direct antibody selection on 2-D blots. J. Biochem. 2002, 132, 245-247.
33. Zhou, H., Zhang, Y. L., Lu, G., Ji, H. et al., Recombinant antibody libraries and selection technologies. New Biotechnol. 2011, 28, 448-452.
34. Nakai, C., Kagamiyama, H., Nozaki, M., Nakazawa, T. et al., Complete nucleotide sequence of the metapyrocatechase gene on the TOL plasmid of Pseudomonas putida mt-2. J. Biol. Chem. 1983, 258, 2923-2928.