Promoter knock-in: A novel rational method for the fine tuning of genes

BMC Biotechnology

Volumn 10, Issue , 2010, Pages

  De Mey, Marjan ^a   Maertens, Jo ^a   Boogmans, Sarah ^b   Soetaert, Wim K ^a   Vandamme, Erick J ^a   Cunin, Raymond ^b   Foulquié Moreno, Maria R ^b,c,d  

^a GHENT UNIVERSITY   (Belgium)

^b VRIJE UNIVERSITEIT BRUSSEL   (Belgium)

^c UNIVERSITY OF LEUVEN   (Belgium)

^d DEPARTMENT OF PLANT SYSTEMS BIOLOGY   (Belgium)

Author keywords

[No Author keywords available]

Indexed keywords

CONSTITUTIVE PROMOTERS; E. COLI; EXPRESSION LEVELS; FINE TUNING; GENETIC BACKGROUNDS; METABOLIC ENGINEERING; METABOLIC FLUX; NOVEL METHODOLOGY; PROMOTER STRENGTH; RATIONAL METHODS; REGULATORY ELEMENTS; RELATIVE STRENGTH; RIBOSOME BINDING SITES; SCALING-UP; SHAKE FLASKS; TRANSCRIPTION FACTOR BINDING SITES; WILD TYPES;

BINDING ENERGY; BINDING SITES; BIOCHEMISTRY; ESCHERICHIA COLI; GENES; LUMINOUS PAINT; METABOLISM; OPTIMIZATION; TRANSCRIPTION FACTORS;

TRANSCRIPTION;

BACTERIAL PROTEIN; PROTEIN PPC; UNCLASSIFIED DRUG;

ARTICLE; BACTERIUM MUTANT; BINDING SITE; BIOREACTOR; CONTROLLED STUDY; DNA FLANKING REGION; ESCHERICHIA COLI; GENE EXPRESSION; GENE INSERTION; GENE TARGETING; METABOLIC ENGINEERING; NONHUMAN; POLYMERASE CHAIN REACTION; PROMOTER REGION; REGULATORY SEQUENCE; RIBOSOME; WILD TYPE; BACTERIAL GENE; GENE EXPRESSION REGULATION; GENETICS; METHODOLOGY; MOLECULAR GENETICS; NUCLEOTIDE SEQUENCE;

ESCHERICHIA COLI;

BASE SEQUENCE; BINDING SITES; ESCHERICHIA COLI; GENE EXPRESSION REGULATION, BACTERIAL; GENE KNOCK-IN TECHNIQUES; GENES, BACTERIAL; MOLECULAR SEQUENCE DATA; PROMOTER REGIONS, GENETIC;

EID: 77952310558     PISSN: None     EISSN: 14726750     Source Type: Journal    
DOI: 10.1186/1472-6750-10-26     Document Type: Article

References (22)

1. Alper H, Fischer C, Nevoigt E, Stephanopoulos G. Tuning genetic control through promoter engineering. Proc Natl Acad Sci USA 2005, 102:12678-12683. 10.1073/pnas.0504604102, 1200280, 16123130.
2. Cox RS, Surette MG, Elowitz MB. Programming gene expression with combinatorial promoters. Mol Syst Biol 2007, 3:145. 2132448, 18004278.
3. De Mey M, Maertens J, Lequeux GJ, Soetaert WK, Vandamme EJ. Construction and model-based analysis of a promoter library for E. coli: an indispensable tool for metabolic engineering. BMC Biotechnol 2007, 7:34. 10.1186/1472-6750-7-34, 1913913, 17572914.
4. Hammer K, Mijakovic I, Jensen PR. Synthetic promoter libraries--tuning of gene expression. Trends Biotechnol 2006, 24:53-55. 10.1016/j.tibtech.2005.12.003, 16406119.
5. Hartner FS, Ruth C, Langenegger D, Johnson SN, Hyka P, Lin-Cereghino GP, Lin-Cereghino J, Kovar K, Cregg JM, Glieder A. Promoter library designed for fine-tuned gene expression in Pichia pastoris. Nucleic Acids Res 2008, 36:e76. 10.1093/nar/gkn369, 2475614, 18539608.
6. Jensen PR, Hammer K. The sequence of spacers between the consensus sequences modulates the strength of prokaryotic promoters. Appl Environ Microbiol 1998, 64:82-87. 124675, 9435063.
7. Jensen PR, Hammer K. Artificial promoters for metabolic optimization. Biotechnol Bioeng 1998, 58:191-195. 10.1002/(SICI)1097-0290(19980420)58:2/3<191::AID-BIT11>3.0.CO;2-G, 10191389.
8. Meynial-Salles I, Cervin MA, Soucaille P. New tool for metabolic pathway engineering in Escherichia coli: one-step method to modulate expression of chromosomal genes. Appl Environ Microbiol 2005, 71:2140-2144. 10.1128/AEM.71.4.2140-2144.2005, 1082524, 15812048.
9. Miksch G, Bettenworth F, Friehs K, Flaschel E, Saalbach A, Twellmann T, Nattkemper TW. Libraries of synthetic stationary-phase and stress promoters as a tool for fine-tuning of expression of recombinant proteins in Escherichia coli. J Biotechnol 2005, 120:25-37. 10.1016/j.jbiotec.2005.04.027, 16019099.
10. Rud I, Jensen PR, Naterstad K, Axelsson L. A synthetic promoter library for constitutive gene expression in Lactobacillus plantarum. Microbiology 2006, 152:1011-1019. 10.1099/mic.0.28599-0, 16549665.
11. Solem C, Jensen PR. Modulation of gene expression made easy. Appl Environ Microbiol 2002, 68:2397-2403. 10.1128/AEM.68.5.2397-2403.2002, 127566, 11976114.
12. Izui K, Miwa T, Kajitani M, Fujita N, Sabe H, Ishihama A, Katsuki H. Promoter analysis of the phosphoenolpyruvate carboxylase gene of Escherichia coli. Nucleic Acids Res 1985, 13:59-71. 10.1093/nar/13.1.59, 340974, 3889833.
13. Lesnik EA, Fogel GB, Weekes D, Henderson TJ, Levene HB, Sampath R, Ecker DJ. Identification of conserved regulatory RNA structures in prokaryotic metabolic pathway genes. Biosystems 2005, 80:145-154. 10.1016/j.biosystems.2004.11.002, 15823413.
14. Kaberdin VR, Blasi U. Translation initiation and the fate of bacterial mRNAs. FEMS Microbiol Rev 2006, 30:967-979. 10.1111/j.1574-6976.2006.00043.x, 16989654.
15. Alper H, Fischer C, Nevoigt E, Stephanopoulos G. Tuning genetic control through promoter engineering. Proc Natl Acad Sci USA 2005, 102:12678-12683. 10.1073/pnas.0504604102, 1200280, 16123130.
16. Santos CN, Stephanopoulos G. Combinatorial engineering of microbes for optimizing cellular phenotype. Curr Opin Chem Biol 2008, 12:168-176. 10.1016/j.cbpa.2008.01.017, 18275860.
17. Solem C, Jensen PR. Modulation of gene expression made easy. Appl Environ Microbiol 2002, 68:2397-2403. 10.1128/AEM.68.5.2397-2403.2002, 127566, 11976114.
18. De Muynck C, Borght J, De Mey M, De Maeseneire SL, Van Bogaert IN, Beauprez J, Soetaert W, Vandamme E. Development of a selection system for the detection of L-ribose isomerase expressing mutants of Escherichia coli. Appl Microbiol Biotechnol 2007, 76:1051-1057. 10.1007/s00253-007-1084-8, 17619876.
19. Baart GJE, Beauprez JJR, Foulquié Moreno MR, Heijnen JJ, Maertens J. Bacterial mutants for enhanced succinate production. 2010, Universiteit Gent, Vrije Universiteit Brussel, TU Delft.
20. Datsenko KA, Wanner BL. One-step inactivation of chromosomal genes in Escherichia coli K12 using PCR products. Proc Natl Acad Sci USA 2000, 97:6640-6645. 10.1073/pnas.120163297, 18686, 10829079.
21. Mashego MR, van Gulik WM, Vinke JL, Heijnen JJ. Critical evaluation of sampling techniques for residual glucose determination in carbon-limited chemostat cultures of Saccharomyces cerevisiae. Biotechnol Bioeng 2003, 83:395-399. 10.1002/bit.10683, 12800134.
22. De Maeseneire SL, De Mey M, Vandedrinck S, Vandamme EJ. Metabolic characterisation of E. coli citrate synthase and phosphoenolpyruvate-carboxylase mutants in aerobic cultures. Biotechnol Lett 2006, 28:1945-1953. 10.1007/s10529-006-9182-8, 17028777.