Koffas Research Group

Network and Metabolic Engineering

Rensselaer Polytechnic Institute

Publications

Recent Publications

Jones, J.A., Vernacchio, V.R., Collins, S.M., Shirke, A.N., Xiu, Y., Englaender, J.A., Cress, B.F., McCutcheon, C., Linhardt, R.J., Gross, R., & Koffas M.A.G. (2017) Complete biosynthesis of anthocyanins using E. coli polycultures. mBio.
Accepted.


Xiu, Y., Jang, S., Jones, J.A., Zill, N.A., Linhardt, R.J., Jung, G.Y., Yuan, Q., & Koffas, M.A.G. (2017) Naringenin-responsive riboswitch-based fluorescent biosensor module for Escherichia coli co-cultures. Biotechnology and Bioengineering.
Accepted.


Ito, T., Murai, M., Ninokura, S., Kitazumi, Y., Mezic, K.G., Cress, B.F., Koffas, M.A.G., Morgan, J.E., Barquera B., & Miyoshi, H. (2017). Identification of the binding sites for ubiquinone and inhibitors in the Na+-pumping NADH-ubiquinone oxidoreductase from Vibrio cholerae by photoaffinity labeling. J Biol Chem, 292(19), 7727-7742. doi: 10.1074/jbc.M117.781393.
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Cress, B.F., Leitz, Q.D., Kim, D.C., Amore, T.D., Suzuki, J.Y., Linhardt, R.J., & Koffas, M.A. (2017). CRISPRi-mediated metabolic engineering of E. coli for O-methylated anthocyanin production. Microbial Cell Factories.
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Englaender, J.A., Jones, J.A., Cress, B.F., Kuhlman, T.E., Linhardt, R.J., & Koffas, M.A. (2017). Effect of Genomic Integration Location on Heterologous Protein Expression and Metabolic Engineering in E. coli. ACS Synthetic Biology.
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He, L., Xiu, Y., Jones, J.A., Baidoo, E.E., Keasling, J.D., Tang, Y.J., & Koffas, M.A. (2017). Deciphering flux adjustments of engineered E. coli cells during fermentation with changing growth conditions. Metabolic Engineering.
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Whitaker, W.B., Jones, J.A., Bennett, K., Gonzalez, J., Vernacchio, V.R., Collins, S.M., Palmer, M.A., Schmidt, S., Antoniewicz, M.R., Koffas, M.A. & Papoutsakis, E.T. (2017). Engineering the Biological Conversion of Methanol to Specialty Chemicals in Escherichia coli. Metabolic Engineering. doi:10.1016/j.ymben.2016.10.015.
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Shirke, A.N., Su, A., Jones, J.A., Butterfoss, G.L., Koffas, M.A., Kim, J.R., & Gross, R.A. (2017). Comparative thermal inactivation analysis of Aspergillus oryzae and Thiellavia terrestris cutinase: Role of glycosylation. Biotechnology and Bioengineering. doi:10.1002/bit.26052.
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2016

Guleria, S., Zhou, J., & Koffas, M.A. (2016). Nutraceuticals (Vitamin C, Carotenoids, Resveratrol). Industrial Biotechnology: Products and Processes, 309-336.


Englaender, J.A., Zhu, Y., Shirke, A.N., Lin, L., Liu, X., Zhang, F., Gross, R., Koffas, M.A.G., & Linhardt, R.J. (2016). Expression and secretion of glycosylated heparin biosynthetic enzymes using Komagataella pastoris. Applied Microbiology and Biotechnology, 1-9.
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Ibrahim, M.H., Cress, B.F., Linhardt, R.J., Koffas, M.A., & Gross, R.A. (2016). Draft Genome Sequence of Bacillus subtilis Ia1a, a New Strain for Poly-γ-Glutamic Acid and Exopolysaccharide Production. Genome Announcements, 4(6), e01361-16.
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Vaidyanathan, D., Williams, A., Dordick, J.S., Koffas, M.A., & Linhardt, R.J. (2016). Engineered heparins as new anticoagulant drugs. Bioengineering & Translational Medicine. doi:10.1002/btm2.10042.
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Zhang, X., Khalidi, O., Kim, S.Y., Wang, R., Schultz, V., Cress, B.F., Gross, R.A., Koffas, M.A. & Linhardt, R.J., (2016). Synthesis and biological evaluation of 5,7-dihydroxyflavanone derivatives as antimicrobial agents. Bioorg Med Chem Lett, 26(13), 3089-3092. doi:10.1016/j.bmcl.2016.05.003.
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Cress, B.F., Jones, J.A., Kim, D.C., Leitz, Q.D., Englaender, J.A., Collins, S.M., Linhardt, R.J., & Koffas, M.A.G. (2016). Rapid generation of CRISPR/dCas9-regulated, orthogonally repressible hybrid T7-lac promoters for modular, tuneable control of metabolic pathway fluxes in Escherichia coli. Nucleic Acids Research. doi:10.1093/nar/gkw231.
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Wu, G., Yan, Q., Jones, J.A., Tang, Y.J., Fong, S.S. & Koffas, M.A. (2016). Metabolic Burden: Cornerstones in Synthetic Biology and Metabolic Engineering Applications. Trends in Biotechnology. doi:10.1016/j.tibtech.2016.02.010.
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Jones, J.A. & Koffas, M.A.G. (2016). Optimizing Metabolic Pathways for the Improved Production of Natural Products. Methods in Enzymology. doi:10.1016/bs.mie.2016.02.010.
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Pandey, R.P., Parajuli, P., Koffas, M.A. & Sohng, J.K. (2016). Microbial production of natural and non-natural flavonoids: Pathway engineering, directed evolution and systems/synthetic biology. Biotechnology Advances. doi:10.1016/j.biotechadv.2016.02.012.
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Jones, J.A., Vernacchio, V.R., Sinkoe, A.L., Collins, S.M., Ibrahim, M.H., Lachance, D.M., Hahn, J. & Koffas, M.A. (2016). Experimental and computational optimization of an Escherichia coli co-culture for the efficient production of flavonoids. Metabolic Engineering, 35, 55-63. doi:10.1016/j.ymben.2016.01.006.
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Wang, J., Guleria, S., Koffas, M.A. & Yan, Y. (2016). Microbial production of value-added nutraceuticals. Current Opinion in Biotechnology, 37, 97-104. doi:10.1016/j.copbio.2015.11.003.
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2015

Jones, J.A., Collins, S.M., Vernacchio, V.R., Lachance, D.M. & Koffas, M.A. (2015). Optimization of naringenin and p‐coumaric acid hydroxylation using the native E. coli hydroxylase complex, HpaBC. Biotechnology progress. doi:10.1002/btpr.2185.
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Cress, B.F., Trantas, E.A., Ververidis, F., Linhardt, R.J. & Koffas, M.A. (2015). Sensitive cells: enabling tools for static and dynamic control of microbial metabolic pathways. Current opinion in biotechnology, 36, 205-214. doi:10.1007/s00253-015-6821-9.
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Lim, C. G., Wong, L., Bhan, N., Dvora, H., Xu, P., Venkiteswaran, S. & Koffas, M.A.G. (2015). Development of a Recombinant Escherichia coli Strain for Overproduction of the Plant Pigment Anthocyanin. Applied and environmental microbiology, 81(18), 6276-6284. doi:10.1128/AEM.01448-15.
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Suflita, M., Fu, L., He, W., Koffas, M. & Linhardt, R.J. (2015). Heparin and related polysaccharides: synthesis using recombinant enzymes and metabolic engineering. Applied microbiology and biotechnology, 99, 7465-7479. doi:10.1007/s00253-015-6821-9.
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Mora‐Pale, M., Bhan, N., Masuko, S., James, P., Wood, J., McCallum, S., Linhardt, R.J., Dordick, J.S. & Koffas, M.A.G. (2015). Antimicrobial mechanism of resveratrol‐trans‐dihydrodimer produced from peroxidase‐catalyzed oxidation of resveratrol. Biotechnology and bioengineering, 9999, 1-13. doi:10.1002/bit.25686.
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Bhan, N., Li, L., Cai, C., Xu, P., Linhardt, R. J. & Koffas, M.A.G. (2015). Enzymatic formation of a resorcylic acid by creating a structure‐guided single‐point mutation in stilbene synthase. Protein Science, 24(2), 167-173. doi:10.1002/pro.2600.
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Bhan, N., Cress, B.F., Linhardt, R. J. & Koffas, M.A.G. (2015). Expanding the chemical space of polyketides through structure guided mutagenesis of Vitis vinifera stilbene synthase. Biochimie, 115, 136-143. doi:10.1016/j.biochi.2015.05.019.
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Trantas, E.A., Koffas, M.A.G., Xu, P. & Koffas, M.A.G. (2015). When plants produce not enough or at all: metabolic engineering of flavonoids in microbial hosts. Frontiers in Plant Science, 6, 1-16. doi:10.3389/fpls.2015.00007.
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Jones J. A., Vernacchio V. R., Lachance D. M., Lebovich M., Fu L., Shirke A., Schultz V., Cress B., Linhardt, R. J. & Koffas, M.A.G. (2015). ePathOptimize: A combinatorial approach for transcriptional balancing of metabolic pathways. Scientific Reports, 5(11301), 1-10. doi:10.1038/srep11301.
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Cress, B.F., Toparlak, O.D., Guleria, S., Lebovich, M., Stieglitz, J.T., Englaender, JA., Jones, J.A., Linhardt, R. J. & Koffas, M.A.G. (2015). CRISPathBrick: Modular Combinatorial Assembly of Type II-A CRISPR Arrays for dCas9-Mediated Multiplex Transcriptional Repression in E. coli. ACS synthetic biology. doi:10.1021/acssynbio.5b00012.
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Zhao, S., Jones, J. A., Lachance, D. M., Bhan, N., Khalidi, O., Venkataraman, S., Wang, Z., & Koffas, M.A.G. (2015). Improvement of catechin production in Escherichia coli through combinatorial metabolic engineering. Metabolic Engineering, 28, 43-53. doi:10.1016/j.ymben.2014.12.002.
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He, W., Fu, L., Li, G., Jones, A.J., Linhardt, R.J., & Koffas, M. (2015). Production of chondroitin in metabolically engineered E. coli. Metabolic Engineering, 27, 92-100. doi:0.1016/j.ymben.2014.11.003.
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Jones, A.J., Toparlak, Ö.D., & Koffas, M. A. G. (2015). Metabolic pathway balancing and its role in the production of biofuels and chemicals. Current Opinion in Biotechnology, 33, 52-59. doi:10.1016/j.copbio.2014.11.013. ePub ahead of print.
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2014

Bhan, N., Li, L., Cai, C., Xu, P., Linhardt, R.J., & Koffas, M.A.G. (2014). Enzymatic formation of a resorcylic acid by creating a structure-guided single-point mutation in stilbene synthase. Protein Science, 1-34. doi:10.1002/pro.2600.
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Xu, P., Li, L., Zhang, F., Stephanopoulos, G., & Koffas, M. A. G. (2014). Improving fatty acids production by engineering dynamic pathway regulation and metabolic control. PNAS, 1-6. doi:10.1073/pnas.1406401111. ePub ahead of print.
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Zhang, H.-J., Fan, X.-G., Qiu, X.-L., Zhang, Q.-X., Wang, W.-Y., Li, S.-X., Deng, L.-H., Koffas, M. A. G., Wei, D.-S., & Yuan, Q.-P. (2014). A novel cleaning process for industrial production of xylose in pilot scale from corncob by using screw-steam-explosive extruder. Bioprocess and Biosystems Engineering, 1-12. doi:10.1007/s00449-014-1219-0.
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Xu, P., Wang, W., Li, L., Bhan, N., Zhang, F. & Koffas, M. A. G. (2014). Design and kinetic analysis of a hybrid promoter−regulator system for malonyl-CoA sensing in Escherichia coli. ACS Chemical Biology, 9, 451-458. doi:10.1021/cb400623m.
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Cress, B. F., Englaender, J. A., He, W., Kasper, D., Linhardt, R. J. & Koffas, M. A. G. (2014). Masquerading microbial pathogens: capsular polysaccharides mimic host-tissue molecules. FEMS Microbiology Reviews, 1-38. doi:10.1111/1574-6976.12056.
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Koffas, M. A. G. & Marienhagen, J. (2014). Editorial overview: Food biotechnology. Current Opinion in Biotechnology, 26, v-vii. doi:10.1016/j.copbio.2014.02.005.
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Mora-Pale, M., Sanchez-Rodriguez, S. P., Linhardt, R. J., Dordick, J. S. & Koffas, M. A. G. (2014). Biochemical strategies for enhancing the in vivo production of natural products with pharmaceutical potential. Current Opinion in Biotechnology, 25, 86-94. doi:10.1016/j.copbio.2013.09.009.
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Joo, E. J., Cress, B. F. & Koffas, M. A. G. (2014). Using Recombinant microorganisms for the synthesis and modification of flavonoids and stilbenes. In Phenols in Human Health and Disease, 483-488. doi:10.1016/B978-0-12-398456-2.00036-0.
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2013

Bhan, N., Xu, P., Khalidi, O., & Koffas, M. A. G. (2013). Redirecting carbon flux into malonyl-CoA to improve resveratrol titers: Proof of concept for genetic interventions predicted by OptForce computational framework. Chemical Engineering Science, 103, 109–114. doi:10.1016/j.ces.2012.10.009.
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Bhan, N., Xu, P. & Koffas, M. A. G. (2013). Pathway and protein engineering approaches to produce novel and commodity small molecules. Current Opinion in Biotechnology, 24, 1137-1143. doi:10.1016/j.copbio.2013.02.019.
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Cress, B. F., Erkert, K. A., Barquera, B. & Koffas, M. A. G. (2013). Draft Genome Sequence of Pseudoalteromonas luteoviolacea Strain B, ATCC 29581. Genome Announcement, 1(2):e00048-13. doi:10.1128/genomeA.00048-13.
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Cress, B. F., Greene, Z. R., Linhardt, R. J. & Koffas, M. A. G. (2013). Draft Genome Sequence of Escherichia coli Strain ATCC 23502, serovar O5:K4:H4. Genome Announcement, 1(2):e00046-13. doi:10.1128/genomeA.00046-13.
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Cress, B. F., Greene, Z. R., Linhardt, R. J. & Koffas, M. A. G. (2013). Draft Genome Sequence of Escherichia coli Strain ATCC 23506, serovar O10:K5:H4. Genome Announcement, 1(2):e00049-13. doi:10.1128/genomeA.00049-13.
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Cress, B. F., Linhardt, R. J. & Koffas, M. A. G. (2013). Draft Genome Sequence of Escherichia coli Strain Nisle 1917, serovar O6:K5:H1. Genome Announcement, 1(2):e00047-13. doi:10.1128/genomeA.00047-13.
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Cress, B. F., Linhardt, R. J. & Koffas, M. A. G. (2013). Isoflavonoid production by genetically engineered microorganisms. In Natural Products, Springer-Verlag Berlin Heidelberg, 1647-1681. doi:10.1007/978-3-642-22144-6_53.
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Mora-Pale, M., Sanchez-Rodriguez, S. P., Linhardt, R. J., Dordick, J. S. & Koffas, M. A. G. (2013). Metabolic engineering and in vitro biosynthesis of phytochemicals and non-natural analogues. Plant Science, 210, 10-24. doi:10.1016/j.plantsci.2013.05.005.
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Wang, W., Englaender, J. A., Xu, P., Mehta, K. K., Suwan, J., Dordick, J. S., Zhang, F., Yuan, Q., Linhardt, R. J. & Koffas, M. A. G. (2013). Expression of low endotoxin 3-O-sulfotransferase in Bacillus subtilis and Bacillus megaterium. Applied Biochemistry and Biotechnology, 171, 954-962. doi:10.1007/s12010-013-0415-8.
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Xu, P., Gu, Q., Wang, W., Wong, L., Bower, A. G. W., Collins, C. H. & Koffas, M. A. G. (2013). Modular optimization of multi-gene pathways for fatty acids production in E. coli. Nature Communications, 4, 1409. doi:10.1038/ncomms2425.
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Xu, P. & Koffas, M. A. G. (2013). Assembly of multi-gene pathways and combinatorial pathway libraries through ePathBrick vectors. Synthetic Biology, 1073, Springer Science, 107-129. doi:10.1007/978-1-62703-625-2_10.
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2012

Bhan, N. & Koffas, M. A. G. (2012). Non-natural Isoflavonoids. Isoflavones: Chemistry, Analysis, Function and Effects, (5), 83, doi:10.1016/j.copbio.2012.08.010.
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Malla, S., Koffas, M. A. G., Kazlauskas, R. J. & Kim, B.-G. (2012). Production of 7-O-methyl aromadendrin, a medicinally valuable flavonoid, in Escherichia coli. Applied and Environmental Microbiology, 78, 684-694, doi:10.1128/aem.06274-11.
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Xu, P., Bhan, N. & Koffas, M. A. G. (2012). Engineering plant metabolism into microbes: from systems biology to synthetic biology. Current Opinion in Biotechnology, 24(2), doi:10.1016/j.copbio.2012.08.010.
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Xu, P., Vansiri, A., Bhan, N. & Koffas, M. A. G. (2012). ePathBrick: A synthetic biology platform for engineering metabolic pathways in E. coli. ACS Synthetic Biology, 1, 256-266, doi:10.1021/sb300016b.
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2011

Fowler, Z. L., Baron, C. M., Panepinto, J. C. & Koffas, M. A. G. (2011). Melanization of flavonoids by fungal and bacterial laccases. Yeast, 28, 181-188, doi:10.1002/yea.1829.
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Fowler, Z. L., Shah, K., Panepinto, J. C., Jacobs, A. & Koffas, M. A. G. (2011). Development of non-natural flavanones as antimicrobial agents. Plos One, 6(10), doi:10.1371/journal.pone.0025681.
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Lim, C. G., Fowler, Z. L., Hueller, T., Schaffer, S. & Koffas, M. A. G. (2011). High-yield resveratrol production in engineered Escherichia coli. Applied and Environmental Microbiology, 77(10), 3451-3460, doi:10.1128/aem.02186-10.
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Santos, C. N. S., Koffas, M. & Stephanopoulos, G. (2011). Optimization of a heterologous pathway for the production of flavonoids from glucose. Metabolic Engineering, 13, 392-400, doi:10.1016/j.ymben.2011.02.002.
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Xu, P., Ranganathan, S., Fowler, Z. L., Maranas, C. D. & Koffas, M. A. G. (2011). Genome-scale metabolic network modeling results in minimal interventions that cooperatively force carbon flux towards malonyl-CoA. Metabolic Engineering, 13, 578-587, doi:10.1016/j.ymben.2011.06.008 (2011).
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Xu, P., Ranganathan, S., Maranas, C. D. & Koffas, M. (2011). An integrated computational and experimental study to increase the intra-cellular malonyl-CoA: application to flavanone synthesis. In Bioengineering Conference (NEBEC), IEEE, 1-2, ISSN 2160-7001, ISBN 9781612848273, doi:10.1109/NEBC.2011.5778699.
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2010

Bedekar, A., Shah, K. & Koffas, M. (2010). Natural products for type II diabetes treatment. In Advances in Applied Microbiology, 71, Academic Press, 21-73, ISSN 0065-2164, ISBN 9780123809933, doi:10.1016/S0065-2164(10)71002-9.
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Chemler, J. A., Fowler, Z. L., McHugh, K. P. & Koffas, M. A. G. (2010). Improving NADPH availability for natural product biosynthesis in Escherichia coli by metabolic engineering. Metabolic Engineering, 12, 96-104, doi:10.1016/j.ymben.2009.07.003.
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Chemler, J. A., Lim, C. G., Daiss, J. L. & Koffas, M. A. G. (2010). A versatile microbial system for biosynthesis of novel polyphenols with altered estrogen receptor binding activity. Chemistry & Biology, 17, 392-401, doi:10.1016/j.chembiol.2010.03.010.
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Fowler, Z. & Koffas, M. (2010). Microbial biosynthesis of fine chemicals: an emerging technology. In The metabolic pathway engineering handbook – tools and applications, CRC Press, 22- 1-30, ISBN 9781420077650.
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Lim, C.-G. & Koffas, M. A. G. (2010). Bioavailability and recent advances in the bioactivity of flavonoid and stilbene compounds. Current Organic Chemistry, 14, 1727-1751.
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Xu, P & Koffas, M. A. G. (2010). Metabolic engineering of Escherichia coli for biofuel production. Biofuels, 1(3), 493-504, doi:10.4155/bfs.10.13.
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2009

Chemler, J. A., Fowler, Z. L., & Koffas, M. A. G. (2009). Trends in microbial synthesis of natural products and biofuels. In Advances in enzymology and related areas of molecular biology: and related areas of molecular biology, 76, 151-217.
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Chemler, J. A., Leonard, E. & Koffas, M. A. G. (2009). Flavonoid biotransformations in microorganisms. In Anthocyanins,Springer Science, 191-255, doi:10.1007/978-0-387-77335-3_7.
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Fowler, Z. L., Gikandi, W. W. & Koffas, M. A. G. (2009). Increased malonyl coenzyme A biosynthesis by tuning the Escherichia coli metabolic network and its application to flavanone production. Applied and Environmental Microbiology, 75(18), 5831-5839, doi:10.1128/aem.00270-09.
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Fowler, Z. L. & Koffas, M. A. G. (2009). Biosynthesis and biotechnological production of flavanones: current state and perspectives. Applied Microbiology and Biotechnology, 83, 799-808, doi:10.1007/s00253-009-2039-z.
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Koffas, M. A. G. (2009) Expanding the repertoire of biofuel alternatives through metabolic pathway evolution. Proceedings of the National Academy of Sciences of the United States of America, 106(4), 965-966, doi:10.1073/pnas.0811893106.
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2008

Chemler, J. A. & Koffas, M. A. G. (2008). Metabolic engineering for plant natural product biosynthesis in microbes. Current Opinion in Biotechnology, 19, 597-605, doi:10.1016/j.copbio.2008.10.011.
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Koffas, M. (2008). Engineering flavonoid biosynthesis in microorganisms. Comparative Biochemistry and Physiology - Part A: Molecular & Integrative Physiology, 150, S184-S184, doi:10.1016/j.cbpa.2008.04.497.
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Leonard, E., Yan, Y., Chemler, J., Matern, U., Martens, S. & Koffas, M. A. G. (2008). Characterization of dihydroflavonol 4-reductases for recombinant plant pigment biosynthesis applications. Biocatalysis and Biotransformation, 26(3), 243-251, doi:10.1080/10242420701685635.
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Leonard, E., Yan, Y., Fowler, Z. L., Li, Z., Lim, C.-G., Lim, K.-H. & Koffas, M. A. G. (2008). Strain improvement of recombinant Escherichia coli for efficient production of plant flavonoids. Molecular Pharmaceutics, 5(2), 257-265, doi:10.1021/mp7001472.
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Yan, Y., Li, Z. & Koffas, M. A. G. (2008). High-yield anthocyanin biosynthesis in engineered Escherichia coli. Biotechnology and Bioengineering, 100(1), 126-140, doi:10.1002/bit.21721.
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2007

Chemler, J. A., Lock, L. T., Koffas, M. A. G. & Tzanakakis, E. S. (2007). Standardized biosynthesis of flavan-3-ols with effects on pancreatic beta-cell insulin secretion. Applied Microbiology and Biotechnology, 77, 797-807, doi:10.1007/s00253-007-1227-y.
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Chemler, J. A., Yan, Y., Leonard, E. & Koffas, M. A. G. (2007). Combinatorial mutasynthesis of flavonoid analogues from acrylic acids in microorganisms. Organic Letters, 9(10), 1855-1858, doi:10.1021/ol0703736.
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Leonard, E., Fowler, Z. L. & Koffas, M. (2007). Metabolic engineering. Systems Biology, 301-359.
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Leonard, E. & Koffas, M. A. G. (2007). Engineering of artificial plant cytochrome p450 enzymes for synthesis of isoflavones by Escherichia coli. Applied and Environmental Microbiology, 73(22), 7246-7251, doi:10.1128/aem.01411-07.
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Leonard, E., Lim, K.-H., Saw, P.-N. & Koffas, M. A. G. (2007). Engineering central metabolic pathways for high-level flavonoid production in Escherichia coli. Applied and Environmental Microbiology, 73(12), 3877-3886, doi:10.1128/aem.00200-07.
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Yan, Y., Huang, L. & Koffas, M. A. G. (2007). Biosynthesis of 5-deoxyflavanones in microorganisms. Biotechnology Journal, 2, 1250-1262, doi:10.1002/biot.200700119.
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Earlier

Chemler, J. A., Yan, Y. & Koffas, M. A. G. (2006). Biosynthesis of isoprenoids, polyunsaturated fatty acids and flavonoids in Saccharomyces cerevisiae. Microbial Cell Factories, 5, doi:10.1186/1475-2859-5-20.
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Leonard, E., Chemler, J., Lim, K. H. & Koffas, M. A. G. (2006). Expression of a soluble flavone synthase allows the biosynthesis of phytoestrogen derivatives in Escherichia coli. Applied Microbiology and Biotechnology, 70, 85-91, doi:10.1007/s00253-005-0059-x.
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Leonard, E., Yan, Y. J. & Koffas, M. A. G. (2006). Functional expression of a P450 flavonoid hydroxylase for the biosynthesis of plant-specific hydroxylated flavonols in Escherichia coli. Metabolic Engineering, 8, 172-181, doi:10.1016/j.ymben.2005.11.001.
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Koffas, M. (2005). Evolutionary metabolic engineering. Metabolic Engineering, 7, 1-3, doi:10.1016/j.ymben.2005.01.001.
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Koffas, M. & Stephanopoulos, G. (2005). Strain improvement by metabolic engineering: lysine production as a case study for systems biology. Current Opinion in Biotechnology, 16, 361-366, doi:10.1016/j.copbio.2005.04.010.
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Leonard, E., Yan, Y. J., Lim, K. H. & Koffas, M. A. G. (2005). Investigation of two distinct flavone synthases for plant-specific flavone biosynthesis in Saccharomyces cerevisiae. Applied and Environmental Microbiology, 71, 8241-8248, doi:10.1128/aem.71.12.8241-8248.2005.
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Yan, Y. J., Chemler, J., Huang, L. X., Martens, S. & Koffas, M. A. G. (2005). Metabolic engineering of anthocyanin biosynthesis in Escherichia coli. Applied and Environmental Microbiology, 71, 3617-3623, doi:10.1128/aem.71.7.3617-3623.2005.
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Yan, Y. J., Kohli, A. & Koffas, M. A. G. (2005). Biosynthesis of natural flavanones in Saccharomyces cerevisiae. Applied and Environmental Microbiology, 71, 5610-5613, doi:10.1128/aem.71.9.5610-5613.2005.
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Koffas, M. A. G., Jung, G. Y. & Stephanopoulos, G. (2003). Engineering metabolism and product formation in Corynebacterium glutamicum by coordinated gene overexpression. Metabolic Engineering, 5, 32-41, doi:10.1016/s1096-7176(03)00002-8.
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Koffas, M. A. G., Jung, G. Y., Aon, J. C. & Stephanopoulos, G. (2002). Effect of pyruvate carboxylase overexpression on the physiology of Corynebacterium glutamicum. Applied and Environmental Microbiology, 68(11), 5422-5428, doi:10.1128/aem.68.11.5422-5428.2002.
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Koffas, M., Robervge, C., Lee, K. & Stephanopoulos, G. (1999). Metabolic engineering. Annual Review of Biomedical Engineering, 1, 535-557, doi:10.1146/annurev.bioeng.1.1.535.
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Koffas, M. A. G., Ramamoorthi, R., Pine, W. A., Sinskey, A. J. & Stephanopoulos, G. (1998). Sequence of the Corynebacterium glutamicum pyruvate carboxylase gene. Applied Microbiology and Biotechnology, 50, 346-352.
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