Publications 2013

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2013

M. Tai, G. Stephanopoulos, “Engineering the push and pull of lipid biosynthesis in oleaginous yeast Yarrowia lipolytica for biofuel production”, Metabolic Engineering, 15, 1-9, 2013.
10.1016/j.ymben.2012.08.007

B. M. Woolston, S. Edgar and G. Stephanopoulos, “Metabolic Engineering: Past and Future”, Annu. Rev. Chem. Biomol. Eng., 4, 259–288, 2013.
10.1146/annurev-chembioeng-061312-103312

B. N. Nicolay, P. A. Gameiro, K. Tschop, M. Korenjak, A. M. Heilmann, J. M. Asara, G. Stephanopoulos, O. Iliopoulos and N. J. Dyson, “Loss of RBF1 changes glutamine catabolism”, Genes and Development, 27(2), 182-196, 2013.
10.1101/gad.206227.112

P. A. Gameiro, A. Metelo, R. Pérez-Carro, A. Alexandra, Z. Wang, K. W. Rathmell, A. Olumi, P. López-Larrubia, G. Stephanopoulos and O. Iliopoulos, “Hypoxia inducible factor (HIF) promotes reductive carboxylation by regulating citrate levels and renders VHL-deficient and hypoxic cells sensitive to glutamine deprivation”, Cancer Research, 73(3), 2013.
10.1158/1538-7445

P. A. Gameiro, J. Yang, A. M. Metelo, R. Pérez-Carro, R. Baker, Z. Wang, A. Arreola, W. K. Rathmell, A. Olumi, P. López-Larrubia and G. Stephanopoulos, O. Iliopoulos, “In vivo HIF-mediated reductive carboxylation Is regulated by citrate levels and sensitizes VHL-deficient cells to glutamine deprivation”, Cell Metabolism, 17(3), 372-385, 2013.
10.1016/j.cmet.2013.02.002

H. Zhang and G. Stephanopoulos, “Engineering E. coli for caffeic acid biosynthesis from renewable sugars”, Applied Microbiology and Biotechnology, 97(8), 3333-3341
2013.10.1007/s00253-012-4544-8

J. L. Avalos, G. R. Fink and G. Stephanopoulos, “Compartmentalization of metabolic pathways in yeast mitochondria improves the production of branched-chain alcohols”, Nat. Biotechnol., 31, 335–341, 2013.
10.1038/nbt.2509

K. Hiller, A. Wegner, D. Weindl, T. Cordes, C. M. Metallo, J. K. Kelleher and G. Stephanopoulos, “NTFD–a stand-alone application for the non-targeted detection of stable isotope-labeled compounds in GC/MS data”, Bioinformatics, 29, 1226–1228, 2013.
10.1093/bioinformatics/btt119

P. A. Gameiro, L. A. Laviolette, J. K. Kelleher, O. Iliopoulos and G. Stephanopoulos, “Cofactor balance by nicotinamide nucleotide transhydrogenase (NNT) coordinates reductive carboxylation and glucose catabolism in the tricarboxylic acid (TCA) cycle”, J. Biol. Chem, 288, 12967–12977, 2013.
10.1074/jbc.M112.396796

A. Csibi, S. Fendt, C. Li, G. Poulogiannis, A. Y. Choo, D. J. Chapski, S. M. Jeong, J. M. Dempsey, A. Parkhitko, T. Morrison, E. P. Henske, M. C. Haigis, L. C. Cantley, G. Stephanopoulos, J. Yu and J. Blenis, “The mTORC1 Pathway Stimulates Glutamine Metabolism and Cell Proliferation by Repressing SIRT4”, Cell, 153(4), 840-854, 2013.
10.1016/j.cell.2013.04.023

S. Carlsen, P. K. Ajikumar, L. R. Formenti, K. Zhou, T. H. Phon, M. L. Nielsen, A. E. Lantz, M. C. Kielland-Brandt and G. Stephanopoulos, “Heterologous expression and characterization of bacterial 2-C-methyl-d-erythritol-4-phosphate pathway in Saccharomyces cerevisiae”, Appl. Microbiol. Biotechnol, 97, 5753–5769, 2013.
10.1007/s00253-013-4877-y

S. M. Fendt, E. L. Bell, M. A. Keibler, B. A. Olenchock, J. R. Mayers, T. M. Wasylenko, N. I. Vokes, L. Guarente, M. G. Vander Heiden and G. Stephanopoulos, “Reductive glutamine metabolism is a function of the ketoglutarate to citrate ratio in cells”, Nature Communications, 4, 1-11, 2013.
10.1038/ncomms3236

S. M. Fendt, E. L. Bell, M. A. Keibler, S. M. Davidson, G. J. Wirth, B. Fiske, J. R. Mayers, M. Schwab, G. Bellinger, A. Csibi, A. Patnaik, M. J. Blouin, L. C. Cantley, L. Guarante, J., Belnis, M. N. Pollak, A. F. Olumi, M. G. Vander Heiden and G. Stephanopoulos, “Metformin decreases glucose oxidation and increases the dependency of prostate cancer cells on reductive glutamine metabolism”, Cancer Res., 73, 4429–4438, 2013.
10.1158/0008-5472

P. Hu, H. Rismani-Yazdi and G. Stephanopoulos, “Anaerobic CO2 fixation by the acetogenic bacterium Moorella thermoacetica”, AIChE J., 59, 3176–3183, 2013.
10.1002/aic.14127

F. Ahmad, M. N. Atiyeh, B. Pereira and G. Stephanopoulos, “A review of cellulosic microbial fuel cells: Performance and challenges”, Biomass and Bioenergy, 56, 177–188, 2013.
10.1016/j.biombioe.2013.04.006

T. M. Wasylenko and G. Stephanopoulos, “Kinetic isotope effects significantly influence intracellular metabolite 13C labeling patterns and flux determination”, Biotechnol. J., 8, 1080–1089, 2013.
10.1002/biot.201200276

K. Zhou, R. Zou, C. Zhang, G. Stephanopoulos and H. P. Too, “Optimization of amorphadiene synthesis in bacillus subtilis via transcriptional, translational, and media modulation”, Biotechnol. Bioeng., 110, 2556–2561, 2013.
10.1002/bit.24900

C. Zhang, X. X. Chen, R. Y. Zou, K. Zhou and G. Stephanopoulos, “Combining Genotype Improvement and Statistical Media Optimization for Isoprenoid Production in E. coli.”, PLoS One, 8, 2013.
10.1371/journal.pone.0075164

R. Zou, K. Zhou, G. Stephanopoulos and H. P. Too, “Combinatorial Engineering of 1-Deoxy-D-Xylulose 5-Phosphate Pathway Using Cross-Lapping In Vitro Assembly (CLIVA) Method”, PLoS One, 8(11), 2013.
10.1371/journal.pone.0079557

X. Chen, C. Q. Zhang, R. Y. Zou, K. Zhou, G. Stephanopoulos and H. P. Too, “Statistical experimental design guided optimization of a one-pot biphasic multienzyme total synthesis of amorpha-4,11-diene”, PLoS One, 8, 2013.
10.1371/journal.pone.0079650

K. H. Seow, L. H. Zhou, G. Stephanopoulos and H. P. Too, “c-Jun N-terminal kinase in synergistic neurite outgrowth in PC12 cells mediated through P90RSK”, BMC NEUROSCIENCE, 14, 2013.
10.1186/1471-2202-14-153