An inverse metabolic engineering approach for the design of an improved host platform for over-expression of recombinant proteins in Escherichia coli

Microbial Cell Factories

Volumn 11, Issue , 2012, Pages

  Ghosh, Chaitali ^a   Gupta, Rashmi ^a   Mukherjee, Krishna J ^a  

^a JAWAHARLAL NEHRU UNIVERSITY   (India)

Author keywords

Escherichia coli; Improved host platform; Inverse metabolic engineering; Recombinant protein

Indexed keywords

3, 4 DIHYDROXY 2 BUTANONE 4 PHOSPHATE SYNTHASE; DNA FRAGMENT; GENOMIC DNA; GREEN FLUORESCENT PROTEIN; MESSENGER RNA; PROTEIN HISTIDINE KINASE; RECOMBINANT PROTEIN; UNCLASSIFIED DRUG;

ARTICLE; CELL DENSITY; CLONING; DOWN REGULATION; ESCHERICHIA COLI; GENE SILENCING; METABOLIC ENGINEERING; NONHUMAN; PHENOTYPE; PROTEIN EXPRESSION;

ESCHERICHIA COLI; ESCHERICHIA COLI PROTEINS; GREEN FLUORESCENT PROTEINS; HEAT-SHOCK PROTEINS; INTRAMOLECULAR TRANSFERASES; METABOLIC ENGINEERING; PROTEIN KINASES; RECOMBINANT PROTEINS; RNA, ANTISENSE; RNA, MESSENGER;

ESCHERICHIA COLI;

EID: 84863184752     PISSN: None     EISSN: 14752859     Source Type: Journal    
DOI: 10.1186/1475-2859-11-93     Document Type: Article

References (29)

1. Bailey JE. Towards a science of metabolic engineering. Science 1991, 252:1668-1675. 10.1126/science.2047876, 2047876.
2. Stephanopoulos G, Sinskey AJ. Metabolic engineering methodologies and future prospects. Trends Biotechnol 1993, 11:392-396. 10.1016/0167-7799(93)90099-U, 7764086.
3. Stephanopoulos G. Metabolic fluxes and metabolic engineering. Metab Eng 1999, 1:1-11. 10.1006/mben.1998.0101, 10935750.
4. Stephanopoulos G, Kelleher J. How to make a superior cell. Science 2001, 292:2024-2026. 10.1126/science.1062556, 11408647.
5. Baudin A, Ozier-Kalogeropoulos O, Denouel A, Lacroute F, Cullin C. A simple and efficient method for direct gene deletion in Saccharomyces cerevisiae. Nucleic Acids Res 1993, 21:3329-3330. 10.1093/nar/21.14.3329, 309783, 8341614.
6. Datsenko KA, Wanner BL. One step inactivation of chromosomal genes in Escherichia coli K-12 using PCR products. Proc Natl Acad Sci USA 2000, 97:6640-6645. 10.1073/pnas.120163297, 18686, 10829079.
7. Lutz R, Bujard H. Independent and tight regulation of transcriptional units in Escherichia coli via the LacR/O, the TetR/O and AraC/I-1-I-2 regulatory elements. Nucleic Acids Res 1997, 25:1203-1210. 10.1093/nar/25.6.1203, 146584, 9092630.
8. Mumberg D, Muller R, Funk M. Yeast vectors for the controlled expression of heterologous proteins in different genetic backgrounds. Gene 1995, 156:119-122. 10.1016/0378-1119(95)00037-7, 7737504.
9. Voss I, Steinbuchel A. Application of a KDPG-aldolase gene-dependent addiction system for enhanced production of cyanophycin in Ralstonia eutropha strain H16. Metab Eng 2006, 8:66-78. 10.1016/j.ymben.2005.09.003, 16266816.
10. Yong J, Stephanopolous G. Multi-dimensional gene target search for improving lycopene biosynthesis in Escherichia coli. Metab Eng 2007, 9:337-347. 10.1016/j.ymben.2007.03.003, 17509919.
11. Lee SY, Kim HU, Park JH, Park JM, Kim TY. Metabolic engineering of microorganisms: general strategies and drug production. Drug Discov Today 2009, 14:78-88. 10.1016/j.drudis.2008.08.004, 18775509.
12. Chou CP. Engineering cell physiology to enhance recombinant protein production in Escherichia coli. Appl Microbiol Biotechnol 2007, 76:521-532. 10.1007/s00253-007-1039-0, 17571257.
13. Choi JH, Lee SJ, Lee SJ, Lee SY. Enhanced production of insulin-like growth factor I fusion protein in Escherichia coli by coexpression of the down-regulated genes identified by transcriptome profiling. Appl Environ Microbiol 2003, 69:4737-4742. 10.1128/AEM.69.8.4737-4742.2003, 169106, 12902266.
14. March JC, Eiteman MA, Altman E. Expression of an anaplerotic enzyme, pyruvate carboxylase, improves recombinant protein production in Escherichia coli. Appl Environ Microbiol 2002, 68:5620-5624. 10.1128/AEM.68.11.5620-5624.2002, 129945, 12406757.
15. Weikert C, Canonaco F, Sauer U, Bailey JE. Co-overexpression of RspAB improves recombinant protein production in Escherichia coli. Metab Eng 2000, 2:293-299. 10.1006/mben.2000.0163, 11120641.
16. Lütke-Eversloh T, Stephanopoulos G. Combinatorial pathway analysis for improved L-tyrosine production in Escherichia coli: identification of enzymatic bottlenecks by systematic gene overexpression. Metab Eng 2008, 10:69-77. 10.1016/j.ymben.2007.12.001, 18243023.
17. Mukherjee KJ, Rowe DC, Watkins NA, Summers DK. Studies of single-chain antibody expression in quiescent Escherichia coli. Appl Environ Microbiol 2004, 70:3005-3012. 10.1128/AEM.70.5.3005-3012.2004, 404426, 15128562.
18. Bailey JA, Sburlati A, Hatzimanikatis V, Lee K, Renner W, Tsai P. Inverse metabolic engineering: a strategy for directed genetic engineering of useful phenotypes. Biotechnol Bioeng 1996, 52:109-121. 10.1002/(SICI)1097-0290(19961005)52:1<109::AID-BIT11>3.0.CO;2-J, 18629857.
19. Delgado J, Liao JC. Inverse flux analysis for reduction of acetate excretion in Escherichia coli. Biotechnol Prog 1997, 13:361-367. 10.1021/bp970047x, 9265774.
20. Sonderegger M, Schümperli M, Sauer U. Selection of quiescent Escherichia coli with high metabolic activity. Metab Eng 2005, 7:4-9. 10.1016/j.ymben.2004.05.005, 15721805.
21. Srivastava P, Bhattacharaya P, Pandey G, Mukherjee KJ. Overexpression and purification of recombinant human interferon alpha2b in Escherichia coli. Protein Expr Purif 2005, 41(2):313-322. 10.1016/j.pep.2004.12.018, 15866717.
22. Banack T, Clauson N, Ogbaa N, Villar J, Oliver D, Firshein W. Overexpression of the Hda DnaA-related protein in Escherichia coli inhibits multiplication, affects membrane permeability, and induces the SOS response. J Bacteriol 2005, 187(24):8507-8510. 10.1128/JB.187.24.8507-8510.2005, 1317017, 16321957.
23. Chin JW, Cirino PC. Strain engineering strategies for improving whole-cell biocatalysis: engineering Escherichia coli to overproduce xylitol as an example. Meth Mol Biol 2011, 743:185-203.
24. Pandhal J, Ow SY, Noirel J, Wright PC. Improving N-glycosylation efficiency in Escherichia coli using shotgun proteomics, metabolic network analysis, and selective reaction monitoring. Biotechnol Bioeng 2011, 108(4):902-912. 10.1002/bit.23011, 21404263.
25. Waegeman H, De Lausnay S, Beauprez J, Maertens J, De Mey M, Soetaert W. Increasing recombinant protein production in Escherichia coli K12 through metabolic engineering. N Biotechnol 2011, [Epub ahead of print].
26. Bacher A. Biosynthesis of flavins 1991, 215-259. Boca Raton Fla: CRC press, Chemistry and biochemistry of flavoenzymes.
27. Bacher A, Eisenreich K, Kis K, Ladenstein R, Richter G, Scheuring J, Weinkauf S. Biosynthesis of flavins. Bioorganic chemistry frontiers 1993, 147-192. Berlin, Germany Springer, Dugas H, Schmidtchen FP.
28. Raina S, Mabey L, Georgopoulos C. The Escherichia coli htrP gene product is essential for bacterial growth at high temperatures: mapping, cloning, sequencing, and transcriptional regulation of htrP. J Bacteriol 1991, 173:5999-6008. 208344, 1917833.
29. Guzman LM, Belin D, Carson MJ, Beckwith J. Tight regulation, modulation, and high-level expression by vectors containing the arabinose PBAD promoter. J Bacteriol 1995, 177:4121-4130. 177145, 7608087.