Publications

33. Schmitz AC, Hartline CJ, Zhang F, Engineering Microbial Metabolite Dynamics and Hetergeneity. Biotech J . ASAP, (2017).

BiotechJ

32. Mannan AA, Liu D, Zhang F, Oyarzún DA., Fundamental Design Principles for Transcription-Factor-Based Metabolite Biosensors.ACS Syn Biol. ASAP, (2017).

 

31. Xiao Y, Jiang W, Zhang F., Developing a Genetically Encoded, Cross-Species Biosensor for Detecting Ammonium and Regulating Biosynthesis of Cyanophycin. ACS Syn Biol. ASAP, (2017).

 

30. Liu D., Wan N., Zhang F., Tang Y.J., Wu S.G., Enhancing fatty acid production in Escherichia coli by Vitreoscilla hemoglobin overexpression. Biotechnol Bioeng. 114, 463, (2017).

 

29. Bentley G.J., Jiang W., Guamán L.P., Xiao Y., Zhang F., Engineering Escherichia coli to produce branched-chain fatty acids in high percentages. Metab Eng. 38, 148, (2016).

28. Saha R., Liu D., Hoynes-O’Connor A.G., Liberton M., Yu J., Bhattacharyya M., Balassy A., Zhang F., Moon T., Maranas C.D., Pakrasi H.B., Synechocystis sp. PCC 6803: light plus endogenous regulation governing gene expression patterns in the diurnal cycle.mBio, 7(3), (2016).

 

27. Xiao Y., Bowen C., Liu D., Zhang F., Exploiting nongenetic cell-to-cell variation for enhanced biosynthesis. Nat Chem Biol. 12, 339, (2016).

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26. Bowen C., Bonin J., Kogler A., Barba-Ostria C., Zhang F., Engineering Escherichia coli for conversion of glucose to medium-chain ω-hydroxy fatty acids and α,ω-dicarboxylic acids. ACS Syn Biol. 5, 200, (2016).

 

25. Liu D., Evans T., Zhang F., Applications and advances of metabolite biosensors for metabolic engineering. Metab Eng. 31, 35, (2015).

 

24. Jiang Y., Wang. WN, Liu D., Nie Y., Li W., Wu J., Zhang F., Biswas P., Fortner JD.,Engineered crumpled graphene oxide nanocomposite membrane assemblies for advanced water treatment processes. Environ Sci Technol. 49, 6846, (2015).

 

23. Jiang W., Jiang Y., Bentley G.J., Liu D., Xiao Y., Zhang F., Enhanced production of branched-chain fatty acids by replacing β-ketoacyl-(acyl-carrier-protein) synthase III (FabH). Biotechnol Bioeng. 112, 1613, (2015).

 

22. Zhang, F., Editorial: Special Issue on Circuits in Metabolic Engineering. ACS Synth Biol. 4, 93, (2015).

Cover image

 

21. Liu, D., Xiao, Y., Evans, B., Zhang, F., Negative feedback regulation of fatty acid production based on a malonyl-CoA sensor-actuator. ACS Synth Biol. 4, 132, (2015).

ACS Syn Biol

20. He L, Xiao Y, Gebreselassie N, Zhang F, Antoniewicz MR, Tang YJ, Peng L. Central metabolic responses to the overproduction of fatty acids in Escherichia coli based on 13 C-metabolic flux analysis. Biotechnol Bioeng. 111, 575, (2014).

 

19. Dahl RH, Zhang F, Alonso-Gutierrez J, Baidoo E, Batth TS, Redding-Johanson AM, Petzold CJ, Mukhopadhyay A, Lee TS, Adams PD, Keasling JD. Engineering dynamic pathway regulation using stress-response promoters. Nat Biotechnol. 31, 1039, (2013).

NBT_2013

 

18. Yu, Y., You, L., Liu, D., Hollinshead, W., Tang, Y., Zhang, F., Development of Synechocystis sp. PCC 6803 as a Phototrophic Cell Factory. Mar Drugs. 11, 2894, (2013).

 

17. Liu, D., Hoynes-O’Connor, A., Zhang, F., Bridging the gap between systems biology and synthetic biology. Front. Microbiol. 4, 211, (2013).

 

16. Zhang, F., Ouellet, M., Batth, T.S. Adams, P.D., Petzold, C.J., Mukhopadhyay, A., Keasling, J.D Enhancing fatty acid production by the expression of the regulatory transcription factor FadR. Metab Eng, 14, 653-660 (2012).

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15. Peralta-Yahya, P.P.*, Zhang, F.*, del Cardayre, S.B.., Keasling, J.D., Microbial engineering for the production of advanced biofuels. Nature, 488, 74110, 320-328 (2012), *These authors contributed equally.

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14. Zhang, F., Carothers, J.M., Keasling, J.D., Design of a dynamic sensor-regulator system for production of chemicals and fuels derived from fatty acids. Nat Biotechnol, Epub Mar 25, 2012

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13. Zhang, F., Woolley, G.A., Muller, K.M., Arndt, K.M., Light-controlled gene switches in mammalian cells. Methods Mol Biol, 813, 195-210 (2012)

 

12. Lee, T.S., Krupa, R.A., Zhang, F., Hajimorad, M., Prasad, N., Lee, S.K., Keasling, J.D., Biobrick vectors and datasheets; a synthetic biology platform for metabolic engineering. J Biol Eng, 5, (1), 12 (2011)

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11. Zhang, F., K easling, J.D., Biosensors and their applications in microbial metabolic engineering. Trends in Microbiol. 19, (7), 323-329 (2011)

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10. Zhang, F., Rodriguez, S., Keasling, J.D., Metabolic engineering of microbial pathways for advanced biofuels production. Curr Opin Biotechnol, 22, (6), 775-783 (2011)

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9. Zhang, F., Timm, K.A., Arndt, K.M., Woolley, G.A., Photocontrol of coiled-coil proteins in living cells. Angew Chem Int Ed Engl. 49, (23), 3943-3946 (2010). Highlighted in Science Daily (May. 3, 2010).

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8. Jackson, S.G., Zhang, F., Chindemi, P., Junop, M.S., Berti, P.J., Evidence of kinetic control of ligand binding and staged product release in MurA (enolpyruvyl UDP-GlcNAc synthase)-catalyzed reactions. Biochemistry. 48, (49), 11715-11723 (2009).

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7. Zhang, F., Zarrine-Afsar, A., Al-Abdul-Wahid, S., Prosser, R.S., Davidson, A.R., Woolley, G.A., A structure-based approach to the photo-control of protein folding. J Am Chem Soc., 131, (6), 2283-2289 (2009). Highlighted in ACS Chem. Biol., 4, (3), 149-150, (2009).

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6. Sadovski, O., Beharry, A.A., Zhang, F., Woolley, G.A., Spectral tuning of azobenzene photo-switches for biological applications. Angew Chem Int Ed Engl. 48, (8), 1484-1486 (2009).

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5. Zhang, F., Sadovski, O., Woolley, G.A., Synthesis and Characterization of a Long, Rigid Photoswitchable Cross-Linker for Promoting Peptide and Protein Conformational Change. ChemBioChem, 27, 9(13), 2147-2154 (2008).

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4. Zhang, F., Sadovski, O., Xin, S.J., Woolley, G.A., Stabilization of Folded Peptide and Protein Structures via Distance Matching with a Long, Rigid Cross-linker, J Am Chem Soc, 129, (46), 14154-14155 (2007).

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3. Burns, D.C., Zhang, F., Woolley, G.A., Synthesis of 3,3'-bis(sulfonate)-4,4'-bis(chloroacetamido) azobenzene and cysteine cross-linking for photo-control of protein conformation and activity, Nature Protocols, 2, 251-258 (2007).

 

2. Woolley, G.A., Lee, E., Zhang, F., sGal: a computational method for finding surface exposed sites in proteins suitable for Cys-mediated cross-linking, Bioinformatics, 24, 3101-3102 (2006).

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1. Zhang, F., Berti, P. J., Phosphate Analogues as Probes of the Catalytic Mechanisms of MurA and AroA, The Carboxyvinyl Transferases, Biochemistry, 45, 6027-6037 (2006).

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Patents

Zhang, F., Steen, E.J., Keasling, J.D., Host Cells and Methods for Producing Fatty Acid. US 20130059295 A1