Bailey, J. E. (1991). Toward a science of metabolic engineering. Science, 252, 1668–1674.
Article
CAS
Google Scholar
Hutchinson, C. R. (1998). Combinatorial biosynthesis for new drug discovery. Current Opinion in Microbiology, 1(3), 319–329.
Article
CAS
Google Scholar
Jacobson, J. R., & Khosla, C. (1998). New directions in metabolic engineering. Current Opinion in Chemical Biology, 2, 133–137.
Article
Google Scholar
Keasling, J. D. (2010). Manufacturing molecules through metabolic engineering. Science, 330, 1355–1358.
Article
CAS
Google Scholar
Nerem, R. M. (1991). Cellualr engineering. Annals of Biomedical Engineering, 19, 529–545.
Article
CAS
Google Scholar
Koffas, M., Roberge, C., Lee, K., & Stephanopoulos, G. (1999). Metabolic engineering. Annual Review of Biomedical Engineering, 01, 535–557.
Article
CAS
Google Scholar
Price, N. D., et al. (2004). Genome-scale models of microbial cells: evaluating the consequences of constraints. Nature Reviews Microbiology, 2, 886–897.
Article
CAS
Google Scholar
Kosla, C., & Keasling, J. D. (2003). Metabolic engineering for drug discovery and development. Nature Reviews, 2, 1019–1024.
Article
Google Scholar
Van der Oost, J., Ciaramella, M., Moracci, M., Pisani, F. M., Rossi, M., & de Vos, W. M. (1998). Molecular biology of hyperthermophillic Archaea. Advances in Biochemical Engineering/Biotechnology, 61, 87–115.
Article
Google Scholar
Colon, G. E., Nguyen, T. T., Jetten, M. S. M., Sinskey, A. J., & Stephanopoulos, G. (1995). Production of isoleucine by overexpression of ilvA in a Corynebacterium lactofermentum threonine producer. Applied Microbiology and Biotechnology, 43, 482–488.
Article
CAS
Google Scholar
MacQuitty, J. J. (1988). Impact of biotechnology on the chemical industry. ACS Symposium Series, 362, 221–233.
Article
Google Scholar
Stephanopoulos, G. (1999). Metabolic fluxes and metabolic engineering. Metabolic Engineering, 1, 1–11.
Article
CAS
Google Scholar
Nielson, J. (1994). Physiological engineering-towards a new science, pp. 30–38. Proc. The 1994 IChemE Research Event, London.
Cameron, D. C., & Tong, I. T. (1993). Cellular and metabolic engineering. Applied Biochemistry and Biotechnology, 38, 105–140.
Article
CAS
Google Scholar
Hutchinson, C. R. (1994). Drug synthesis by genetically engineered microorganisms. Bio/Technology, 12, 375–380.
Article
CAS
Google Scholar
Craig, G. M., Newman, D. J., & Snader, K. M. (1997). Natural products in drug discovery and development. Journal of Natural Products, 60, 52–60.
Article
Google Scholar
McCaskill, D., & Croteau, R. (1997). Prospects for the bioengineering of isoprenoid biosynthesis. Advances in Biochemical Engineering/Biotechnology, 55, 107–146.
Article
CAS
Google Scholar
Yarmush, M. L., & Berthiaume, F. (1997). Metabolic engineering and human disease. Nature Biotechnology, 15, 525–528.
Article
CAS
Google Scholar
Maynard, N. D., Gutschow, M. V., Birch, E. W., & Professor, M. W. C. (2010). The virus as metabolic engineering. Biotechnology Journal, 5, 686–694.
Article
CAS
Google Scholar
Lee, S. Y., Kim, H. U., Park, J. H., Park, J. M., & Kim, T. Y. (2009). Metabolic engineering of microorganisms: general strategies and drug production. Drug Discovery Today, 14, 81–89.
Article
Google Scholar
Zhang, F., & Keasling, J. (2011). Biosensors and their applications in microbial metabolic engineering. Trends in Microbiology, 19, 323–329.
Article
CAS
Google Scholar
Shaw, A. J., Podkaminer, K. K., Desai, S. G., Bardsley, J. S., Rogers, S. R., Thorne, P. G., Hogsetti, D. A., & Lynd, L. R. (2008). Metabolic engineering of a thermophilic bacterium to produce ethanol at high yield. Proceedings of the National Academy of Sciences USA, 105, 13669–13774.
Google Scholar
Haggart, C. R., Bartel, J. A., & Saucerman, J. J. (2011). Whole-genome metabolic network reconstruction and constraint-based modeling. Methods in Enzymology, 500, 411–433.
Article
CAS
Google Scholar
Chavali, A. K., D’Auria, K. M., & Hewlett, E. L. (2012). A metabolic network approach for the identification and prioritization of antimicrobial drug targets. Trends in Microbiology, 20, 113–123.
Article
CAS
Google Scholar
Stephanopoulos, G., & Simpson, T. W. (1997). Flux amplification in complex metabolic networks. Chemical Engineering Science, 52, 2607–2627.
Article
CAS
Google Scholar
Stephanopoulos, G., & Valino, J. J. (1991). Network rigidity and metabolic engineering in metabolite overproduction. Science, 252, 1675–1681.
Article
CAS
Google Scholar
Kacser, H., & Burns, J. A. (1973). The control of flux. Symposia of the Society for Experimental Biology, 27, 65–104.
CAS
Google Scholar
Lee, J. M., Gianchandani, E. P., & Papin, J. A. (2006). Flux balance analysis in the era of metabolomics. Briefings in Bioinformatics, 7, 140–150.
Article
Google Scholar
Chang, M. C., & Keasling, J. D. (2006). Production of isoprenoid pharmaceuticals by engineered microbes. Nature Chemical Biology, 2, 674–681.
Article
CAS
Google Scholar
Palsson, B. (2006). Systems biology: properties of reconstructed networks. Cambridge University Press.
Delgado, J., & Liao, J. C. (1992). Metabolic control analysis from transient metabolite concentrations. Biochemical Journal, 282, 919–927.
CAS
Google Scholar
Nielsen, J., & Jorgensen, H. S. (1995). Metabolic control analysis of biochemical pathways based on a thermokinetic description of reaction rates. Biochemical Journal, 321, 133–138.
Google Scholar
Pissarra, P. N., Nielsen, J., & Bazin, M. J. (1996). Pathway kinetics and metabolic control analysis of high yielding strain of Penicillium chrysogenum during fed-batch cultivation. Biotechnology and Bioengineering, 51, 168–176.
Article
Google Scholar
Petterson, G. (1996). Errors associated with experimental determination of enzyme flux control coefficients. Journal of Theoretical Biology, 179, 191–197.
Article
Google Scholar
Rivera, S. J. B., Bennett, G. N., & San, K. Y. (2001). The effect of increasing NADH availability on the redistribution of metabolic fluxes in E. coli. Chemostat Cultures. Metabolic Engineering, 4, 230–237.
Article
Google Scholar
Yang, Y. T., Bennett, G. N., & San, K. Y. (1998). Genetic and metabolic engineering. Electronic Journal of Biotechnology, 1, 3.
Article
Google Scholar
Gillespie, D. T. (1976). A general method for numerically simulating the stochastic time evolution of coupled chemical reactions. Journal of Computational Physics, 22, 403–434.
Article
CAS
Google Scholar
Mavelli, F. (2012). Stochastic simulations of minimal cells: the Rivocell models. BMC Bioinformatics, 13, S10.
Article
CAS
Google Scholar
Carletti, T., & Filisetti, A. (2012). The stochastic evolution of a protocell: the Gillespie algorithm in a dynamically varying volume. Computational and Mathematical Methods in Medicine, 20, 423627.
Google Scholar
Huang, D., Jia, X., Wen, J., Wang, G., Yu, G., Caiyin, Q., & Chen, Y. (2011). Metabolic flux analysis and principal nodes identification for daptomycin production improvement by Streptomyces roseosporus. Applied Biochemistry and Biotechnology, 7-8, 1725–1739.
Article
Google Scholar
Schuetz, R., Zamboni, N., Zampieri, M., Heinemann, M., & Sauer, U. (2012). Multidimensional optimality of microbial metabolism. Science, 6081, 601–604.
Article
Google Scholar
Ay, F., Dang, M., & Kahveci, T. (2012). Metabolic network alignment in large scale by network compression (13): Suppl 3:S2.
Kern, A., Tilley, E., Hunter, I. S., Legisa, M., & Glieder, A. (2007). Engineering primary metabolic pathways of industrial microorganisms. J. Biotech, 1, 6–29.
Google Scholar
Orman, M. A., Berthiaume, F., Androulakis, I. P., & Lerapetritou, M. G. (2011). Advanced stoichiometric analysis of metabolic networks of mammalian systems. Critical Reviews in Biomedical Engineering, 6, 511–534.
Article
Google Scholar
Wahrheit, J., Nicolae, A., & Heinzle, E. (2011). Eukaryotic metabolism: measuring compartment fluxes. Biotechnology Journal, 9, 1071–1085.
Article
Google Scholar
Nookaew, I., Olivares-Hernandez, R., Bhumiratana, S., & Nielsen, J. (2011). Genome-scale metabolic models of S. cerevisiae. Methods in Molecular Biology, 759, 445–463.
Article
CAS
Google Scholar
Noh, K., & Wiechert, W. (2011). The benefit of being transient: isotope-based metabolic flux analysis at the short time scale. Applied Microbiology and Biotechnology, 5, 1247–1265.
Google Scholar
Price, N. D., & Kim, P. J. (2010). Macroscopic kinetic effect of cell to cell variation in biochemical reactions. Physical Review Letters, 104, 148103.
Article
Google Scholar
Kravchenko-Balasha, N., Levitzki, A., Goldstein, A., Rotter, V., Gross, A., Remacle, R., & Levine, R. D. (2012). On the fundamental structure of gene networks in living cells. Proceedings of the National Academy of Sciences USA, 12, 4702–4707.
Article
Google Scholar
Kravchenko-Balasha, N., LRemacle, F., Gross, A., Rotter, V., Levitzki, A., & Levine, R. D. (2011). Convergence of logic of cellular regulation in different premalignant cells by an information theoretical approach. BMC Systems Biology, 5, 42.
Article
Google Scholar
Han, M. J., Lee, S. Y., Koh, S. T., Noh, S. G., & Han, W. H. (2010). Biotechnological applications of microbial proteomes. Journal of Biotechnology, 4, 314–319.
Google Scholar
Jensen, P.R., & Hammer, K. (1998). Artificial promoters for metabolic optimization (2–3):191–5.
Weeks, A. M., & Chang, M. C. (2011). Constructing de novo biosynthetic pathways for chemical synthesis inside living cells. Biochemistry, 24, 5404–5418.
Article
Google Scholar
Chemlet, J. A., & Koffas, M. A. (2008). Metabolic engineering for plant natural product biosynthesis in microbes. Current Opinion in Biotechnology, 6, 597–605.
Article
Google Scholar
Mitchell, W. (2011). Natural products from synthetic biology. (4):505–15.
White, N. J. (2008). Qinghaosu (Artemisinin): the price of success. Science, 18, 330–334.
Article
Google Scholar
Madduri, K., Kennedy, J., Rivola, G., Inventi-Solari, A., & Fillippini, S. (1998). Production of the antitumor drug epirubicin (4′-epidoxorubicin) and its precursor by a genetically engineered strain of S. peucetius. Nature Biotechnology, 16, 69–74.
Article
CAS
Google Scholar
Nicolaou, K.C., Yang, Z., Liu, J.J., & Ueno, H. (1994). Total synthesis of taxol (367):630–634.
McDaniel, R., Ebert-Khosla, S., Hopwood, D. A., & Khosla, C. (1993). Engineering biosynthesis of novel polyketides. Science, 262, 1547–1550.
Article
Google Scholar
Pitera, D. J., Paddon, C. J., Newman, C. J., & Keasling, J. D. (2007). Balancing a heterologous mevalonate pathway for improved isoprenoid production in E. Coli. Metabolic Engineering, 9, 193–207.
Article
CAS
Google Scholar
Martin, V. J., Pitera, D. J., Withers, S. T., Newman, J. D., & Keasling, J. D. (2003). Engineering a mevalonate pathway in E. coli for production of terpenoids. Nature Biotechnology, 21, 796–802.
Article
CAS
Google Scholar
Leonard, E., & Koffas, M. A. (2007). Engineering of artificial plant cytochrome P450 enzymes for synthesis of isoflavones by E. Coli. Applied and Environmental Microbiology, 73, 7246–7251.
Article
CAS
Google Scholar
Jung, W. S., Lee, S. K., Hong, J. S. J., Park, S. R., Jeong, S. J., Han, A. R., Sohng, J. K., Kim, B. G., Choi, C. Y., & Sherman, D. H. (2006). Heterologous expression of tylosin polyketide synthase and production of a hybrid bioactive macrolide in Streptomyces venezuelae. Applied Genetics and Molecular Biotechnology, 72, 763–769.
Article
CAS
Google Scholar
Lum, A. M., Huang, J., Hutchinson, C. R., & Kao, C. M. (2004). Reverse engineering of industrial pharmaceutical-producing actinomycete strains using DNA microarrays. Metabolic Engineering, 3, 186–196.
Article
Google Scholar
Butler, A. R., & Cundliffe, E. (2001). Influence of dimethylsulfoxide on tylosin production in Streptomyces fradiae. Journal of Industrial Microbiology and Biotechnology, 27, 46–51.
Article
CAS
Google Scholar
Shang, K., Hu, Y., Zhu, C., & Zhu, B. (2008). Production of 4′-epidaunorubicun by metabolic engineering of Streptomyces coeruleorubidus strain SIPI-1482. World Journal of Microbiology and Biotechnology, 24, 1107–1113.
Article
CAS
Google Scholar
Pfiefer, B. A., Admiraal, S. J., Gramajo, H., Cane, D. E., & Khosla, C. (2001). Biosynthesis of complex polyketides in a metabolically engineered strain of E. coli. Science, 291, 1790–1792.
Article
Google Scholar
Vadali, R. V., Bennett, G. N., & San, K. Y. (2004). Cofactor engineering of intracellular CoA/acetyl-CoA and its effect on metabolic flux redistribution in E. coli. Metabolic Engineering, 2, 133–139.
Article
Google Scholar
Kinoshita, S., Nakayama, K., & Kitada, S. (1958). l-Lysine production using microbial auxotroph. J. Gen. Appl. Microbiol.
Dikshit, K. L., & Webster, D. A. (1988). Cloning, characterization and expression of the bacterial globin gene from Vitreoscilla in E. Coli. Gene, 70, 377–386.
Article
CAS
Google Scholar
Brabetz, W., Liebl, W., & Schleifer, K. H. (1991). Studies on the utilization of lactose by Corynebacterium glutamicum, bearing the lactose operon of Escherichia coli. Archives of Microbiology, 155, 607–612.
Article
CAS
Google Scholar
Cameron, D. C., Altaras, N. E., Hoffman, M. L., & Shaw, A. J. (1998). Metabolic engineering of propanediol pathways. Biotechnology Progress, 14, 116–125.
Article
CAS
Google Scholar
Fussenegger, M., Schlatter, S., Datwyler, D., Mazur, X., & Bailey, J. (1998). Controlled proliferation by multi-gene metabolic engineering enhances the productivity of Chinese hamster ovary cells. Nature Biotechnology, 16, 468–472.
Article
CAS
Google Scholar
Dunlop, M. J., Keasling, J. D., & Mukhopadhyay, A. (2010). A model for improving microbial biofuel production using a synthetic feedback loop. Systems and Synthetic Biology, 2, 95–104.
Article
Google Scholar
Salas, J. A., & Mendez, C. (1998). Genetic manipulation of antitumor-agent biosynthesis to produce novel drugs. Trends in Biotechnology, 16, 475–482.
Article
CAS
Google Scholar
Zadran, S., Qin, Q., Bi, X., Zadran, H., Kim, Y., Foy, M. R., Thompson, R., & Baudry, M. (2009). 17-Beta-estradiol increases neuronal excitability through MAP kinase-induced calpain activation. Proceedings of the National Academy of Sciences of the United States of America, 106(51), 21936–21941.
Article
Google Scholar