-
1
-
-
84939297263
-
Recent advances in microbial production of fuels and chemicals using tools and strategies of systems metabolic engineering
-
Cho, C., Choi, S.Y., Luo, Z.W. and Lee, S.Y. (2014) Recent advances in microbial production of fuels and chemicals using tools and strategies of systems metabolic engineering. Biotechnol. Adv.
-
(2014)
Biotechnol. Adv
-
-
Cho, C.1
Choi, S.Y.2
Luo, Z.W.3
Lee, S.Y.4
-
2
-
-
74849102606
-
Industrial systems biology
-
Otero, J.M. and Nielsen, J. (2010) Industrial systems biology. Biotechnol. Bioeng. 105, 439-460
-
(2011)
Biotechnol. Bioeng
, vol.105
, pp. 439-460
-
-
Otero, J.M.1
Nielsen, J.2
-
3
-
-
84873258066
-
Dynamic strain scanning optimization: An efficient strain design strategy for balanced yield, titer, and productivity DySScO strategy for strain design
-
Zhuang, K., Yang, L., Cluett, W.R. and Mahadevan, R. (2013) Dynamic strain scanning optimization: an efficient strain design strategy for balanced yield, titer, and productivity. DySScO strategy for strain design. BMC Biotechnol. 13, 8
-
(2013)
BMC Biotechnol
, vol.13
, pp. 8
-
-
Zhuang, K.1
Yang, L.2
Cluett, W.R.3
Mahadevan, R.4
-
4
-
-
47249096975
-
Application of systems biology for bioprocess development
-
Park, J.H., Lee, S.Y., Kim, T.Y. and Kim, H.U. (2008) Application of systems biology for bioprocess development. Trends Biotechnol. 26, 404-412
-
(2008)
Trends Biotechnol
, vol.26
, pp. 404-412
-
-
Park, J.H.1
Lee, S.Y.2
Kim, T.Y.3
Kim, H.U.4
-
5
-
-
84861440312
-
Systems metabolic engineering of microorganisms for natural and non-natural chemicals
-
Lee, J.W., Na, D., Park, J.M., Lee, J., Choi, S. and Lee, S.Y. (2012) Systems metabolic engineering of microorganisms for natural and non-natural chemicals. Nat. Chem. Biol. 8, 536-546
-
(2012)
Nat. Chem. Biol
, vol.8
, pp. 536-546
-
-
Lee, J.W.1
Na, D.2
Park, J.M.3
Lee, J.4
Choi, S.5
Lee, S.Y.6
-
6
-
-
84860258944
-
Energy coupling in Saccharomyces cerevisiae: Selected opportunities for metabolic engineering
-
de Kok, S., Kozak, B.U., Pronk, J.T. and van Maris, A.J. (2012) Energy coupling in Saccharomyces cerevisiae: selected opportunities for metabolic engineering. FEMS Yeast Res. 12, 387-397
-
(2012)
FEMS Yeast Res
, vol.12
, pp. 387-397
-
-
De Kok, S.1
Kozak, B.U.2
Pronk, J.T.3
Van Maris, A.J.4
-
7
-
-
77952911331
-
Metabolic and transcriptional response to cofactor perturbations in Escherichia coli
-
Holm, A.K., Blank, L.M., Oldiges, M., Schmid, A., Solem, C., Jensen, P.R. and Vemuri, G.N. (2010) Metabolic and transcriptional response to cofactor perturbations in Escherichia coli. J. Biol. Chem. 285, 17498-17506
-
(2011)
J. Biol. Chem
, vol.285
, pp. 17498-17506
-
-
Holm, A.K.1
Blank, L.M.2
Oldiges, M.3
Schmid, A.4
Solem, C.5
Jensen, P.R.6
Vemuri, G.N.7
-
8
-
-
0036526464
-
Metabolic engineering through cofactor manipulation and its effects on metabolic flux redistribution in Escherichia coli
-
San, K.Y., Bennett, G.N., Berrios-Rivera, S.J., Vadali, R.V., Yang, Y.T., Horton, E., Rudolph, F.B., Sariyar, B. and Blackwood, K. (2002) Metabolic engineering through cofactor manipulation and its effects on metabolic flux redistribution in Escherichia coli. Metab. Eng. 4, 182-192
-
(2002)
Metab. Eng
, vol.4
, pp. 182-192
-
-
San, K.Y.1
Bennett, G.N.2
Berrios-Rivera, S.J.3
Vadali, R.V.4
Yang, Y.T.5
Horton, E.6
Rudolph, F.B.7
Sariyar, B.8
Blackwood, K.9
-
9
-
-
77950863401
-
Model-driven evaluation of the production potential for growth-coupled products of Escherichia coli
-
Feist, A.M., Zielinski, D.C., Orth, J.D., Schellenberger, J., Herrgard, M.J. and Palsson, B.O. (2010) Model-driven evaluation of the production potential for growth-coupled products of Escherichia coli. Metab. Eng. 12, 173-186
-
(2011)
Metab. Eng
, vol.12
, pp. 173-186
-
-
Feist, A.M.1
Zielinski, D.C.2
Orth, J.D.3
Schellenberger, J.4
Herrgard, M.J.5
Palsson, B.O.6
-
10
-
-
78650595035
-
Manipulating redox and ATP balancing for improved production of succinate in e
-
Singh, A., Cher Soh, K., Hatzimanikatis, V. and Gill, R.T. (2011) Manipulating redox and ATP balancing for improved production of succinate in E. coli. Metab. Eng. 13, 76-81
-
(2011)
Coli. Metab. Eng
, vol.13
, pp. 76-81
-
-
Singh, A.1
Cher Soh, K.2
Hatzimanikatis, V.3
Gill, R.T.4
-
11
-
-
79251596379
-
Metabolic engineering of Escherichia coli for biotechnological production of high-value organic acids and alcohols
-
Yu, C., Cao, Y., Zou, H. and Xian, M. (2011) Metabolic engineering of Escherichia coli for biotechnological production of high-value organic acids and alcohols. Appl. Microbiol. Biotechnol. 89, 573-583
-
(2011)
Appl. Microbiol. Biotechnol
, vol.89
, pp. 573-583
-
-
Yu, C.1
Cao, Y.2
Zou, H.3
Xian, M.4
-
12
-
-
76749151341
-
Improving NADPH availability for natural product biosynthesis in Escherichia coli by metabolic engineering
-
Chemler, J.A., Fowler, Z.L., McHugh, K.P. and Koffas, M.A. (2010) Improving NADPH availability for natural product biosynthesis in Escherichia coli by metabolic engineering. Metab. Eng. 12, 96-104
-
(2011)
Metab. Eng
, vol.12
, pp. 96-104
-
-
Chemler, J.A.1
Fowler, Z.L.2
McHugh, K.P.3
Koffas, M.A.4
-
13
-
-
84862860855
-
An engineered Escherichia coli having a high intracellular level of ATP and enhanced recombinant protein production
-
Kim, H.J., Kwon, Y.D., Lee, S.Y. and Kim, P. (2012) An engineered Escherichia coli having a high intracellular level of ATP and enhanced recombinant protein production. Appl. Microbiol. Biotechnol. 94, 1079-1086
-
(2012)
Appl. Microbiol. Biotechnol
, vol.94
, pp. 1079-1086
-
-
Kim, H.J.1
Kwon, Y.D.2
Lee, S.Y.3
Kim, P.4
-
14
-
-
2342516028
-
Effect of overexpression of Actinobacillus succinogenes phosphoenolpyruvate carboxykinase on succinate production in Escherichia coli
-
Kim, P., Laivenieks, M., Vieille, C. and Zeikus, J.G. (2004) Effect of overexpression of Actinobacillus succinogenes phosphoenolpyruvate carboxykinase on succinate production in Escherichia coli. Appl. Environ. Microbiol. 70, 1238-1241
-
(2004)
Appl. Environ. Microbiol
, vol.70
, pp. 1238-1241
-
-
Kim, P.1
Laivenieks, M.2
Vieille, C.3
Zeikus, J.G.4
-
15
-
-
73949115238
-
Metabolic evolution of energy-conserving pathways for succinate production in Escherichia coli
-
Zhang, X., Jantama, K., Moore, J.C., Jarboe, L.R., Shanmugam, K.T. and Ingram, L.O. (2009) Metabolic evolution of energy-conserving pathways for succinate production in Escherichia coli. Proc. Natl. Acad. Sci. U.S.A. 106, 20180-20185
-
(2009)
Proc. Natl. Acad. Sci. U.S.A
, vol.106
, pp. 20180-20185
-
-
Zhang, X.1
Jantama, K.2
Moore, J.C.3
Jarboe, L.R.4
Shanmugam, K.T.5
Ingram, L.O.6
-
16
-
-
0037417864
-
Engineering the metabolism of Escherichia coli W3110 for the conversion of sugar to redox-neutral and oxidized products: Homoacetate production
-
Causey, T.B., Zhou, S., Shanmugam, K.T. and Ingram, L.O. (2003) Engineering the metabolism of Escherichia coli W3110 for the conversion of sugar to redox-neutral and oxidized products: homoacetate production. Proc. Natl. Acad. Sci. U.S.A. 100, 825-832
-
(2003)
Proc. Natl. Acad. Sci. U.S.A
, vol.100
, pp. 825-832
-
-
Causey, T.B.1
Zhou, S.2
Shanmugam, K.T.3
Ingram, L.O.4
-
17
-
-
0027426767
-
Control of gluconeogenic growth by pps and pck in Escherichia coli
-
Chao, Y.P., Patnaik, R., Roof, W.D., Young, R.F. and Liao, J.C. (1993) Control of gluconeogenic growth by pps and pck in Escherichia coli. J. Bacteriol. 175, 6939-6944
-
(1993)
J. Bacteriol
, vol.175
, pp. 6939-6944
-
-
Chao, Y.P.1
Patnaik, R.2
Roof, W.D.3
Young, R.F.4
Liao, J.C.5
-
18
-
-
0036302723
-
The glycolytic flux in Escherichia coli is controlled by the demand for ATP
-
Koebmann, B.J., Westerhoff, H.V., Snoep, J.L., Nilsson, D. and Jensen, P.R. (2002) The glycolytic flux in Escherichia coli is controlled by the demand for ATP. J. Bacteriol. 184, 3909-3916
-
(2002)
J. Bacteriol
, vol.184
, pp. 3909-3916
-
-
Koebmann, B.J.1
Westerhoff, H.V.2
Snoep, J.L.3
Nilsson, D.4
Jensen, P.R.5
-
19
-
-
0036037629
-
The extent to which ATP demand controls the glycolytic flux depends strongly on the organism and conditions for growth
-
Koebmann, B.J., Westerhoff, H.V., Snoep, J.L., Solem, C., Pedersen, M.B., Nilsson, D., Michelsen, O. and Jensen, P.R. (2002) The extent to which ATP demand controls the glycolytic flux depends strongly on the organism and conditions for growth. Mol. Biol. Rep. 29, 41-45
-
(2002)
Mol. Biol. Rep
, vol.29
, pp. 41-45
-
-
Koebmann, B.J.1
Westerhoff, H.V.2
Snoep, J.L.3
Solem, C.4
Pedersen, M.B.5
Nilsson, D.6
Michelsen, O.7
Jensen, P.R.8
-
20
-
-
0028067589
-
Metabolic responses to substrate futile cycling in Escherichia coli
-
Chao, Y.P. and Liao, J.C. (1994) Metabolic responses to substrate futile cycling in Escherichia coli. J. Biol. Chem. 269, 5122-5126
-
(1994)
J. Biol. Chem
, vol.269
, pp. 5122-5126
-
-
Chao, Y.P.1
Liao, J.C.2
-
21
-
-
0026460088
-
Stimulation of glucose catabolism in Escherichia coli by a potential futile cycle
-
Patnaik, R., Roof, W.D., Young, R.F. and Liao, J.C. (1992) Stimulation of glucose catabolism in Escherichia coli by a potential futile cycle. J. Bacteriol. 174, 7527-7532
-
(1992)
J. Bacteriol
, vol.174
, pp. 7527-7532
-
-
Patnaik, R.1
Roof, W.D.2
Young, R.F.3
Liao, J.C.4
-
22
-
-
84940467061
-
Enforced ATP futile cycling increases specific productivity and yield of anaerobic lactate production in Escherichia coli
-
Hadicke, O., Bettenbrock, K. and Klamt, S. (2015) Enforced ATP futile cycling increases specific productivity and yield of anaerobic lactate production in Escherichia coli. Biotechnol. Bioeng. 112, 2195-2199
-
(2015)
Biotechnol. Bioeng
, vol.112
, pp. 2195-2199
-
-
Hadicke, O.1
Bettenbrock, K.2
Klamt, S.3
-
23
-
-
80555149396
-
Engineering topology and kinetics of sucrose metabolism in Saccharomyces cerevisiae for improved ethanol yield
-
Basso, T.O., de Kok, S., Dario, M., do Espirito-Santo, J.C., Muller, G., Schlolg, P.S., Silva, C.P., Tonso, A., Daran, J.M., Gombert, A.K. et al. (2011) Engineering topology and kinetics of sucrose metabolism in Saccharomyces cerevisiae for improved ethanol yield. Metab. Eng. 13, 694-703
-
(2011)
Metab. Eng
, vol.13
, pp. 694-703
-
-
Basso, T.O.1
De Kok, S.2
Dario, M.3
Do Espirito-Santo, J.C.4
Muller, G.5
Schlolg, P.S.6
Silva, C.P.7
Tonso, A.8
Daran, J.M.9
Gombert, A.K.10
-
24
-
-
0035795143
-
Fungal respiration: A fusion of standard and alternative components
-
Joseph-Horne, T., Hollomon, D.W. and Wood, P.M. (2001) Fungal respiration: a fusion of standard and alternative components. Biochim. Biophys. Acta 1504, 179-195
-
(2001)
Biochim. Biophys. Acta
, vol.1504
, pp. 179-195
-
-
Joseph-Horne, T.1
Hollomon, D.W.2
Wood, P.M.3
-
25
-
-
0032988014
-
Molecular cloning and functional expression of alternative oxidase from Candida albicans
-
Huh, W.K. and Kang, S.O. (1999) Molecular cloning and functional expression of alternative oxidase from Candida albicans. J. Bacteriol. 181, 4098-4102
-
(1999)
J. Bacteriol
, vol.181
, pp. 4098-4102
-
-
Huh, W.K.1
Kang, S.O.2
-
26
-
-
33746891860
-
Cofactor engineering in Saccharomyces cerevisiae: Expression of a H2O-forming NADH oxidase and impact on redox metabolism
-
Heux, S., Cachon, R. and Dequin, S. (2006) Cofactor engineering in Saccharomyces cerevisiae: expression of a H2O-forming NADH oxidase and impact on redox metabolism. Metab. Eng. 8, 303-314
-
(2006)
Metab. Eng
, vol.8
, pp. 303-314
-
-
Heux, S.1
Cachon, R.2
Dequin, S.3
-
27
-
-
33847785682
-
Increasing NADH oxidation reduces overflow metabolism in Saccharomyces cerevisiae
-
Vemuri, G.N., Eiteman, M.A., McEwen, J.E., Olsson, L. and Nielsen, J. (2007) Increasing NADH oxidation reduces overflow metabolism in Saccharomyces cerevisiae. Proc. Natl. Acad. Sci. U.S.A. 104, 2402-2407
-
(2007)
Proc. Natl. Acad. Sci. U.S.A
, vol.104
, pp. 2402-2407
-
-
Vemuri, G.N.1
Eiteman, M.A.2
McEwen, J.E.3
Olsson, L.4
Nielsen, J.5
-
28
-
-
68049137324
-
Metabolic impact of redox cofactor perturbations in Saccharomyces cerevisiae
-
Hou, J., Lages, N.F., Oldiges, M. and Vemuri, G.N. (2009) Metabolic impact of redox cofactor perturbations in Saccharomyces cerevisiae. Metab. Eng. 11, 253-261
-
(2009)
Metab. Eng
, vol.11
, pp. 253-261
-
-
Hou, J.1
Lages, N.F.2
Oldiges, M.3
Vemuri, G.N.4
-
29
-
-
0030752053
-
Production of succinic acid through overexpression of NAD(+)-dependent malic enzyme in an Escherichia coli mutant
-
Stols, L. and Donnelly, M.I. (1997) Production of succinic acid through overexpression of NAD(+)-dependent malic enzyme in an Escherichia coli mutant. Appl. Environ. Microbiol. 63, 2695-2701
-
(1997)
Appl. Environ. Microbiol
, vol.63
, pp. 2695-2701
-
-
Stols, L.1
Donnelly, M.I.2
-
30
-
-
79551490770
-
L-malate production by metabolically engineered Escherichia coli
-
Zhang, X., Wang, X., Shanmugam, K.T. and Ingram, L.O. (2011) L-malate production by metabolically engineered Escherichia coli. Appl. Environ. Microbiol. 77, 427-434
-
(2011)
Appl. Environ. Microbiol
, vol.77
, pp. 427-434
-
-
Zhang, X.1
Wang, X.2
Shanmugam, K.T.3
Ingram, L.O.4
-
31
-
-
75749121042
-
Key process conditions for production of C(4) dicarboxylic acids in bioreactor batch cultures of an engineered Saccharomyces cerevisiae strain
-
Zelle, R.M., de Hulster, E., Kloezen, W., Pronk, J.T. and van Maris, A.J. (2010) Key process conditions for production of C(4) dicarboxylic acids in bioreactor batch cultures of an engineered Saccharomyces cerevisiae strain. Appl. Environ. Microbiol. 76, 744-750
-
(2011)
Appl. Environ. Microbiol
, vol.76
, pp. 744-750
-
-
Zelle, R.M.1
De Hulster, E.2
Kloezen, W.3
Pronk, J.T.4
Van Maris, A.J.5
-
32
-
-
79551491773
-
Anaplerotic role for cytosolic malic enzyme in engineered Saccharomyces cerevisiae strains
-
Zelle, R.M., Harrison, J.C., Pronk, J.T. and van Maris, A.J. (2011) Anaplerotic role for cytosolic malic enzyme in engineered Saccharomyces cerevisiae strains. Appl. Environ. Microbiol. 77, 732-738
-
(2011)
Appl. Environ. Microbiol
, vol.77
, pp. 732-738
-
-
Zelle, R.M.1
Harrison, J.C.2
Pronk, J.T.3
Van Maris, A.J.4
-
33
-
-
77955933873
-
Phosphoenolpyruvate carboxykinase as the sole anaplerotic enzyme in Saccharomyces cerevisiae
-
Zelle, R.M., Trueheart, J., Harrison, J.C., Pronk, J.T. and van Maris, A.J. (2010) Phosphoenolpyruvate carboxykinase as the sole anaplerotic enzyme in Saccharomyces cerevisiae. Appl. Environ. Microbiol. 76, 5383-5389
-
(2011)
Appl. Environ. Microbiol
, vol.76
, pp. 5383-5389
-
-
Zelle, R.M.1
Trueheart, J.2
Harrison, J.C.3
Pronk, J.T.4
Van Maris, A.J.5
-
34
-
-
6044224979
-
Microbial export of lactic and 3-hydroxypropanoic acid: Implications for industrial fermentation processes
-
van Maris, A.J., Konings, W.N., van Dijken, J.P. and Pronk, J.T. (2004) Microbial export of lactic and 3-hydroxypropanoic acid: implications for industrial fermentation processes. Metab. Eng. 6, 245-255
-
(2004)
Metab. Eng
, vol.6
, pp. 245-255
-
-
Van Maris, A.J.1
Konings, W.N.2
Van Dijken, J.P.3
Pronk, J.T.4
-
35
-
-
70350521215
-
Metabolic engineering of Saccharomyces cerevisiae for production of carboxylic acids: Current status and challenges
-
Abbott, D.A., Zelle, R.M., Pronk, J.T. and van Maris, A.J. (2009) Metabolic engineering of Saccharomyces cerevisiae for production of carboxylic acids: current status and challenges. FEMS Yeast Res. 9, 1123-1136
-
(2009)
FEMS Yeast Res
, vol.9
, pp. 1123-1136
-
-
Abbott, D.A.1
Zelle, R.M.2
Pronk, J.T.3
Van Maris, A.J.4
-
36
-
-
50249115104
-
Dynamic metabolic engineering for increasing bioprocess productivity
-
Anesiadis, N., Cluett, W.R. and Mahadevan, R. (2008) Dynamic metabolic engineering for increasing bioprocess productivity. Metab. Eng. 10, 255-266
-
(2008)
Metab. Eng
, vol.10
, pp. 255-266
-
-
Anesiadis, N.1
Cluett, W.R.2
Mahadevan, R.3
-
37
-
-
12544260062
-
Estimating optimal profiles of genetic alterations using constraint-based models
-
Gadkar, K.G., Doyle Iii, F.J., Edwards, J.S. and Mahadevan, R. (2005) Estimating optimal profiles of genetic alterations using constraint-based models. Biotechnol. Bioeng. 89, 243-251
-
(2005)
Biotechnol. Bioeng
, vol.89
, pp. 243-251
-
-
Gadkar, K.G.1
Doyle, F.J.2
Edwards, J.S.3
Mahadevan, R.4
-
38
-
-
84899628032
-
Metabolic flux redirection from a central metabolic pathway toward a synthetic pathway using a metabolic toggle switch
-
Soma, Y., Tsuruno, K., Wada, M., Yokota, A. and Hanai, T. (2014) Metabolic flux redirection from a central metabolic pathway toward a synthetic pathway using a metabolic toggle switch. Metab. Eng. 23, 175-184
-
(2014)
Metab. Eng
, vol.23
, pp. 175-184
-
-
Soma, Y.1
Tsuruno, K.2
Wada, M.3
Yokota, A.4
Hanai, T.5
-
39
-
-
20444430488
-
Tunable promoters in systems biology
-
Mijakovic, I., Petranovic, D. and Jensen, P.R. (2005) Tunable promoters in systems biology. Curr. Opin. Biotechnol. 16, 329-335
-
(2005)
Curr. Opin. Biotechnol
, vol.16
, pp. 329-335
-
-
Mijakovic, I.1
Petranovic, D.2
Jensen, P.R.3
-
40
-
-
84921479351
-
Engineering metabolism through dynamic control
-
Venayak, N., Anesiadis, N., Cluett, W.R. and Mahadevan, R. (2015) Engineering metabolism through dynamic control. Curr. Opin. Biotechnol. 34C, 142-152
-
(2015)
Curr. Opin. Biotechnol
, vol.34
, pp. 142-152
-
-
Venayak, N.1
Anesiadis, N.2
Cluett, W.R.3
Mahadevan, R.4
-
41
-
-
84920937371
-
Computational methods in metabolic engineering for strain design
-
Long, M.R., Ong, W.K. and Reed, J.L. (2015) Computational methods in metabolic engineering for strain design. Curr. Opin. Biotechnol. 34C, 135-141
-
(2015)
Curr. Opin. Biotechnol
, vol.34
, pp. 135-141
-
-
Long, M.R.1
Ong, W.K.2
Reed, J.L.3
-
42
-
-
84858439602
-
Constraining the metabolic genotype-phenotype relationship using a phylogeny of silico methods
-
Lewis, N.E., Nagarajan, H. and Palsson, B.O. (2012) Constraining the metabolic genotype-phenotype relationship using a phylogeny of in silico methods. Nat. Rev. Microbiol. 10, 291-305
-
(2012)
Nat. Rev. Microbiol
, vol.10
, pp. 291-305
-
-
Lewis, N.E.1
Nagarajan, H.2
Palsson, B.O.3
|