One-step generation of error-prone PCR libraries using Gateway ® technology

Microbial Cell Factories

Volumn 11, Issue , 2012, Pages

  Gruet, Antoine ^a   Longhi, Sonia ^a   Bignon, Christophe ^a  

^a AIX MARSEILLE UNIVERSITY   (France)

Author keywords

Cloning; Directed evolution; EpPCR; Error prone PCR; Gateway ; GFP; Library; Screening; Sub cloning

Indexed keywords

ARTICLE; BACTERIAL GENETICS; BACTERIUM TRANSFORMATION; CODING ALGORITHM; COMPUTER PROGRAM; ESCHERICHIA COLI; GENE LIBRARY; GENE TECHNOLOGY; GENETIC TRANSFORMATION; MOLECULAR CLONING; NONHUMAN; PLASMID; POLYMERASE CHAIN REACTION; GENETIC PROCEDURES; GENETICS; METABOLISM;

CLONING, MOLECULAR; GENE LIBRARY; GENETIC TECHNIQUES; PLASMIDS; POLYMERASE CHAIN REACTION;

EID: 84856249974     PISSN: None     EISSN: 14752859     Source Type: Journal    
DOI: 10.1186/1475-2859-11-14     Document Type: Article

References (28)

1. Vincentelli R, Bignon C, Gruez A, Canaan S, Sulzenbacher G, Tegoni M, Campanacci V, Cambillau C. Medium-scale structural genomics: strategies for protein expression and crystallization. Acc Chem Res 2003, 36(3):165-172. 10.1021/ar010130s, 12641473.
2. Stemmer WP. DNA shuffling by random fragmentation and reassembly: in vitro recombination for molecular evolution. Proc Natl Acad Sci USA 1994, 91(22):10747-10751. 10.1073/pnas.91.22.10747, 45099, 7938023.
3. Waldo GS, Standish BM, Berendzen J, Terwilliger TC. Rapid protein-folding assay using green fluorescent protein. Nat Biotechnol 1999, 17(7):691-695. 10.1038/10904, 10404163.
4. van den Berg S, Lofdahl PA, Hard T, Berglund H. Improved solubility of TEV protease by directed evolution. J Biotechnol 2006, 121(3):291-298. 10.1016/j.jbiotec.2005.08.006, 16150509.
5. Heddle C, Mazaleyrat SL. Development of a screening platform for directed evolution using the reef coral fluorescent protein ZsGreen as a solubility reporter. Protein Eng Des Sel 2007, 20(7):327-337. 10.1093/protein/gzm024, 17584755.
6. Cao S, Siriwardana CL, Kumimoto RW, Holt BF. Construction of high quality Gateway entry libraries and their application to yeast two-hybrid for the monocot model plant Brachypodium distachyon. BMC Biotechnol 2011, 11:53. 10.1186/1472-6750-11-53, 3239850, 21595971.
7. Longhi S, Receveur-Brechot V, Karlin D, Johansson K, Darbon H, Bhella D, Yeo R, Finet S, Canard B. The C-terminal domain of the measles virus nucleoprotein is intrinsically disordered and folds upon binding to the C-terminal moiety of the phosphoprotein. J Biol Chem 2003, 278(20):18638-18648. 10.1074/jbc.M300518200, 12621042.
8. Bourhis J, Johansson K, Receveur-Bréchot V, Oldfield CJ, Dunker AK, Canard B, Longhi S. The C-terminal domain of measles virus nucleoprotein belongs to the class of intrinsically disordered proteins that fold upon binding to their physiological partner. Virus Res 2004, 99:157-167. 10.1016/j.virusres.2003.11.007, 14749181.
9. Johansson K, Bourhis JM, Campanacci V, Cambillau C, Canard B, Longhi S. Crystal structure of the measles virus phosphoprotein domain responsible for the induced folding of the C-terminal domain of the nucleoprotein. J Biol Chem 2003, 278(45):44567-44573. 10.1074/jbc.M308745200, 12944395.
10. Bourhis JM, Receveur-Bréchot V, Oglesbee M, Zhang X, Buccellato M, Darbon H, Canard B, Finet S, Longhi S. The intrinsically disordered C-terminal domain of the measles virus nucleoprotein interacts with the C-terminal domain of the phosphoprotein via two distinct sites and remains predominantly unfolded. Protein Sci 2005, 14:1975-1992. 10.1110/ps.051411805, 2279309, 16046624.
11. Morin B, Bourhis JM, Belle V, Woudstra M, Carrière F, BGuigliarelli B, Fournel A, Longhi S. Assessing induced folding of an intrinsically disordered protein by site-directed spin-labeling EPR spectroscopy. J Phys Chem B 2006, 110(41):20596-20608. 10.1021/jp063708u, 17034249.
12. Belle V, Rouger S, Costanzo S, Liquiere E, Strancar J, Guigliarelli B, Fournel A, Longhi S. Mapping alpha-helical induced folding within the intrinsically disordered C-terminal domain of the measles virus nucleoprotein by site-directed spin-labeling EPR spectroscopy. Proteins: Struct, Funct, Bioinf 2008, 73(4):973-988.
13. Bernard C, Gely S, Bourhis JM, Morelli X, Longhi S, Darbon H. Interaction between the C-terminal domains of N and P proteins of measles virus investigated by NMR. FEBS Lett 2009, 583(7):1084-1089. 10.1016/j.febslet.2009.03.004, 19275899.
14. Bischak CG, Longhi S, Snead DM, Costanzo S, Terrer E, Londergan CH. Probing structural transitions in the intrinsically disordered C-terminal domain of the measles virus nucleoprotein by vibrational spectroscopy of cyanylated cysteines. Biophys J 2010, 99(5):1676-1683. 10.1016/j.bpj.2010.06.060, 2931715, 20816082.
15. Gely S, Lowry DF, Bernard C, Ringkjobing-Jensen M, Blackledge M, Costanzo S, Darbon H, Daughdrill GW, Longhi S. Solution structure of the C-terminal × domain of the measles virus phosphoprotein and interaction with the intrinsically disordered C-terminal domain of the nucleoprotein. J Mol Recognit 2010, 23:435-447. 10.1002/jmr.1010, 20058326.
16. Kavalenka A, Urbancic I, Belle V, Rouger S, Costanzo S, Kure S, Fournel A, Longhi S, Guigliarelli B, Strancar J. Conformational analysis of the partially disordered measles virus NTAIL-XD complex by SDSL EPR spectroscopy. Biophys J 2010, 98(6):1055-1064. 10.1016/j.bpj.2009.11.036, 2849088, 20303863.
17. Ringkjøbing Jensen M, Communie G, Ribeiro ED, Martinez N, Desfosses A, Salmon L, Mollica L, Gabel F, Jamin M, Longhi S, et al. Intrinsic disorder in measles virus nucleocapsids. Proc Natl Acad Sci USA 2011, 108(24):9839-9844. 10.1073/pnas.1103270108, 3116414, 21613569.
18. Magliery TJ, Wilson CG, Pan W, Mishler D, Ghosh I, Hamilton AD, Regan L. Detecting protein-protein interactions with a green fluorescent protein fragment reassembly trap: scope and mechanism. J Am Chem Soc 2005, 127(1):146-157. 10.1021/ja046699g, 15631464.
19. Wilson CG, Magliery TJ, Regan L. Detecting protein-protein interactions with GFP-fragment reassembly. Nat Methods 2004, 1(3):255-262. 10.1038/nmeth1204-255, 16145770.
20. Jackrel ME, Cortajarena AL, Liu TY, Regan L. Screening libraries to identify proteins with desired binding activities using a split-GFP reassembly assay. ACS Chem Biol 2010, 5(6):553-562. 10.1021/cb900272j, 20038141.
21. Miyazaki K, Takenouchi M. Creating random mutagenesis libraries using megaprimer PCR of whole plasmid. Biotechniques 2002, 33(5). 1033-1034-1036-1038.
22. van den Ent F, Lowe J. RF cloning: a restriction-free method for inserting target genes into plasmids. J Biochem Biophys Methods 2006, 67(1):67-74. 10.1016/j.jbbm.2005.12.008, 16480772.
23. Fu C, Wehr DR, Edwards J, Hauge B. Rapid one-step recombinational cloning. Nucleic Acids Res 2008, 36(9):e54. 10.1093/nar/gkn167, 2396420, 18424799.
24. Vincentelli R, Canaan S, Campanacci V, Valencia C, Maurin D, Frassinetti F, Scappucini-Calvo L, Bourne Y, Cambillau C, Bignon C. High-throughput automated refolding screening of inclusion bodies. Protein Sci 2004, 13(10):2782-2792. 2286565, 15388864.
25. Kohli BM, Ostermeier C. A Rubredoxin based system for screening of protein expression conditions and on-line monitoring of the purification process. Protein Expr Purif 2003, 28(2):362-367. 10.1016/S1046-5928(02)00704-0, 12699702.
26. Stech J, Stech O, Herwig A, Altmeppen H, Hundt J, Gohrbandt S, Kreibich A, Weber S, Klenk HD, Mettenleiter TC. Rapid and reliable universal cloning of influenza A virus genes by target-primed plasmid amplification. Nucleic Acids Res 2008, 36(21):e139. 10.1093/nar/gkn646, 2588516, 18832366.
27. Karlin D, Longhi S, Canard B. Substitution of two residues in the measles virus nucleoprotein results in an impaired self-association. Virology 2002, 302(2):420-432. 10.1006/viro.2002.1634, 12441086.
28. Benoit I, Coutard B, Oubelaid R, Asther M, Bignon C. Expression in Escherichia coli, refolding and crystallization of Aspergillus niger feruloyl esterase A using a serial factorial approach. Protein Expr Purif 2007, 55(1):166-174. 10.1016/j.pep.2007.04.001, 17533138.