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• 2011

  Altering Enzyme Substrate and Cofactor Specificity via Protein Engineering

  Desieno, M., Du, J. & Zhao, H., Mar 9 2011, Protein Engineering Handbook, Volume 1 & Volume 2. Wiley-VCH, Vol. 2. p. 777-796 20 p.

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

• A new fluorescence complementation biosensor for detection of estrogenic compounds

  Mclachlan, M. J., Katzenellenbogen, J. A. & Zhao, H., Dec 2011, In: Biotechnology and bioengineering. 108, 12, p. 2794-2803 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Estrogens
  • Biosensing Techniques
  • Biosensors
  • Fluorescence
  • Ligands

• Cell surface display of functional human MHC class II proteins: Yeast display versus insect cell display

  Wen, F., Sethi, D. K., Wucherpfennig, K. W. & Zhao, H., Sep 2011, In: Protein Engineering, Design and Selection. 24, 9, p. 701-709 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Fungal Proteins
  • Peptides
  • Yeast
  • Histocompatibility Antigens Class II
  • Insecta

• Characterization and application of the Fe(ii) and α-ketoglutarate dependent hydroxylase FrbJ

  Desieno, M. A., Van Der Donk, W. A. & Zhao, H., Sep 28 2011, In: Chemical Communications. 47, 36, p. 10025-10027 3 p.

  Research output: Contribution to journal › Article › peer-review

  • Bioassay
  • FR 33289
  • Mixed Function Oxygenases
  • Antimalarials
  • 3-(N-acetyl-N-hydroxy)aminopropylphosphonic acid

• Cloning and characterization of a type III polyketide synthase from Aspergillus niger

  Li, J., Luo, Y., Lee, J. K. & Zhao, H., Oct 15 2011, In: Bioorganic and Medicinal Chemistry Letters. 21, 20, p. 6085-6089 5 p.

  Research output: Contribution to journal › Article › peer-review

  • flavanone synthetase
  • Aspergillus
  • Aspergillus niger
  • Cloning
  • benzoyl-coenzyme A

• Combinatorial optimization of a highly efficient xylose utilization pathway in saccharomyces cerevisiae

  Du, J., Kim, B. & Zhao, H., Dec 1 2011, 11AIChE - 2011 AIChE Annual Meeting, Conference Proceedings. (11AIChE - 2011 AIChE Annual Meeting, Conference Proceedings).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Xylose
  • Yeast
  • Combinatorial optimization
  • Pentoses
  • Enzymes

• Directed evolution of the nonribosomal peptide synthetase AdmK generates new andrimid derivatives in vivo

  Evans, B. S., Chen, Y., Metcalf, W. W., Zhao, H. & Kelleher, N. L., May 27 2011, In: Chemistry and Biology. 18, 5, p. 601-607 7 p.

  Research output: Contribution to journal › Article › peer-review

  • andrimid
  • non-ribosomal peptide synthase
  • Reengineering
  • Derivatives
  • Secondary Metabolism

• Drug Discovery and Development by Combinatorial Biosynthesis

  Desieno, M. A., Denard, C. A. & Zhao, H., May 25 2011, Enzyme Technologies: Metagenomics, Evolution, Biocatalysis, and Biosynthesis. John Wiley and Sons, p. 251-283 33 p.

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

• Engineering microbial factories for synthesis of value-added products

  Du, J., Shao, Z. & Zhao, H., Aug 2011, In: Journal of Industrial Microbiology and Biotechnology. 38, 8, p. 873-890 18 p.

  Research output: Contribution to journal › Review article › peer-review

  • Biofuels
  • Industrial plants
  • Alkaloids
  • Flavonoids
  • lignocellulose

• Engineering saccharomyces cerevisiae for biofuel production from lignocellulosic biomass

  Du, J. & Zhao, H., Dec 1 2011, 11AIChE - 2011 AIChE Annual Meeting, Conference Proceedings. (11AIChE - 2011 AIChE Annual Meeting, Conference Proceedings).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution

  • Pentoses
  • Biofuels
  • Yeast
  • Biomass
  • Xylose

• Further biochemical studies on aminopyrrolnitrin oxygenase (PrnD)

  Tiwari, M. K., Lee, J. K., Moon, H. J. & Zhao, H., May 15 2011, In: Bioorganic and Medicinal Chemistry Letters. 21, 10, p. 2873-2876 4 p.

  Research output: Contribution to journal › Article › peer-review

  • Dimerization
  • Mutagenesis
  • Oxygenases
  • Escherichia coli
  • Catalyst activity

• Genome-scale consequences of cofactor balancing in engineered pentose utilization pathways in Saccharomyces cerevisiae

  Ghosh, A., Zhao, H. & Price, N. D., Nov 4 2011, In: PloS one. 6, 11, e27316.

  Research output: Contribution to journal › Article › peer-review

  • Pentoses
  • Xylose
  • Yeast
  • Arabinose
  • pentoses

• Highlights of biocatalysis and biomimetic catalysis

  Zhao, H., Sep 2 2011, In: ACS Catalysis. 1, 9, p. 1119-1120 2 p.

  Research output: Contribution to journal › Editorial › peer-review

• New N-acetyltransferase fold in the structure and mechanism of the phosphonate biosynthetic enzyme FrbF

  Bae, B., Cobb, R. E., DeSieno, M. A., Zhao, H. & Nair, S. K., Oct 14 2011, In: Journal of Biological Chemistry. 286, 41, p. 36132-36141 10 p.

  Research output: Contribution to journal › Article › peer-review

  • Organophosphonates
  • Acetyltransferases
  • 3-(N-acetyl-N-hydroxy)aminopropylphosphonic acid
  • Enzymes
  • Cytidine Monophosphate

• Rapid characterization and engineering of natural product biosynthetic pathways via DNA assembler

  Shao, Z., Luo, Y. & Zhao, H., Apr 1 2011, In: Molecular BioSystems. 7, 4, p. 1056-1059 4 p.

  Research output: Contribution to journal › Article › peer-review

  • Biosynthetic Pathways
  • Biological Products
  • Synthetic Biology
  • Homologous Recombination
  • DNA

• Synthetic biology: Putting synthesis into biology

  Liang, J., Luo, Y. & Zhao, H., Jan 2011, In: Wiley Interdisciplinary Reviews: Systems Biology and Medicine. 3, 1, p. 7-20 14 p.

  Research output: Contribution to journal › Review article › peer-review

  • Synthetic biology
  • Synthetic Biology
  • DNA
  • Molecules
  • Machinery
• 2012

  A type III polyketide synthase from Rhizobium etli condenses malonyl CoAs to a heptaketide pyrone with unusually high catalytic efficiency

  Jeya, M., Kim, T. S., Kumar Tiwari, M., Li, J., Zhao, H. & Lee, J. K., Dec 2012, In: Molecular BioSystems. 8, 12, p. 3103-3106 4 p.

  Research output: Contribution to journal › Article › peer-review

  • flavanone synthetase
  • Rhizobium etli
  • Pyrones
  • Malonyl Coenzyme A
  • Acetyl Coenzyme A

• Biocatalyst development by directed evolution

  Wang, M., Si, T. & Zhao, H., Jul 2012, In: Bioresource Technology. 115, p. 117-125 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Biocatalysts
  • Biocatalysis
  • organic solvent
  • Enzymes
  • mutant

• Cloning and characterization of a panel of constitutive promoters for applications in pathway engineering in Saccharomyces cerevisiae

  Sun, J., Shao, Z., Zhao, H., Nair, N., Wen, F., Xu, J. H. & Zhao, H., Aug 2012, In: Biotechnology and bioengineering. 109, 8, p. 2082-2092 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Cloning
  • Yeast
  • Saccharomyces cerevisiae
  • Organism Cloning
  • Xylans

• CmlI is an N-oxygenase in the biosynthesis of chloramphenicol

  Lu, H., Chanco, E. & Zhao, H., Sep 16 2012, In: Tetrahedron. 68, 37, p. 7651-7654 4 p.

  Research output: Contribution to journal › Article › peer-review

  • Biosynthesis
  • Oxygenases
  • Chloramphenicol
  • Enzymes
  • Ferrozine

• Crystal structures of phosphite dehydrogenase provide insights into nicotinamide cofactor regeneration

  Zou, Y., Zhang, H., Brunzelle, J. S., Johannes, T. W., Woodyer, R., Hung, J. E., Nair, N., Van Der Donk, W. A., Zhao, H. & Nair, S. K., May 29 2012, In: Biochemistry. 51, 21, p. 4263-4270 8 p.

  Research output: Contribution to journal › Article › peer-review

  • NAD phosphite oxidoreductase
  • Crystal structure
  • Niacinamide
  • Regeneration
  • NAD

• Customized optimization of metabolic pathways by combinatorial transcriptional engineering

  Du, J., Yuan, Y., Si, T., Lian, J. & Zhao, H., Oct 2012, In: Nucleic acids research. 40, 18, p. e142

  Research output: Contribution to journal › Article › peer-review

  • Metabolic Networks and Pathways
  • Cellobiose
  • Xylose
  • Synthetic Biology
  • Metabolic Engineering

• Direct cloning of large genomic sequences

  Cobb, R. E. & Zhao, H., May 1 2012, In: Nature Biotechnology. 30, 5, p. 405-406 2 p.

  Research output: Contribution to journal › Short survey › peer-review

• Direct conversion of xylan to ethanol by recombinant Saccharomyces cerevisiae strains displaying an engineered minihemicellulosome

  Sun, J., Wen, F., Si, T., Xu, J. H. & Zhao, H., Jun 2012, In: Applied and environmental microbiology. 78, 11, p. 3837-3845 9 p.

  Research output: Contribution to journal › Article › peer-review

  • hemicellulase
  • arabinoxylan
  • Xylans
  • cohesins
  • Xylose

• Directed evolution: An evolving and enabling synthetic biology tool

  Cobb, R. E., Si, T. & Zhao, H., Aug 1 2012, In: Current Opinion in Chemical Biology. 16, 3-4, p. 285-291 7 p.

  Research output: Contribution to journal › Review article › peer-review

  • Synthetic biology
  • Synthetic Biology
  • Biological systems
  • Genes
  • Genome

• DNA assembler: A synthetic biology tool for characterizing and engineering natural product gene clusters

  Shao, Z. & Zhao, H., 2012, Natural Product Biosynthesis by Microorganisms and Plants, Part C. Academic Press Inc., p. 203-224 22 p. (Methods in Enzymology; vol. 517).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • Biosynthetic Pathways
  • Synthetic biology
  • Synthetic Biology
  • Multigene Family
  • Biological Products

• DNA assembler method for construction of zeaxanthin-producing strains of saccharomyces cerevisiae

  Shao, Z., Luo, Y. & Zhao, H., 2012, Microbial Carotenoids From Fungi: Methods and Protocols. Jose-Luis, B. (ed.). p. 251-262 12 p. (Methods in Molecular Biology; vol. 898).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • Zeaxanthins
  • Saccharomyces cerevisiae
  • Synthetic Biology
  • Metabolic Engineering
  • Biosynthetic Pathways

• Improving the thermostability of lipase Lip2 from Yarrowia lipolytica

  Wen, S., Tan, T. & Zhao, H., Dec 5 2012, In: Journal of Biotechnology. 164, 2, p. 248-253 6 p.

  Research output: Contribution to journal › Article › peer-review

  • Yarrowia
  • Lipases
  • Lipase
  • Enzymes
  • Half-Life

• Investigation of the role of Arg301 identified in the X-ray structure of phosphite dehydrogenase

  Hung, J. E., Fogle, E. J., Christman, H. D., Johannes, T. W., Zhao, H., Metcalf, W. W. & Van Der Donk, W. A., May 29 2012, In: Biochemistry. 51, 21, p. 4254-4262 9 p.

  Research output: Contribution to journal › Article › peer-review

  • NAD phosphite oxidoreductase
  • Phosphites
  • X rays
  • Hydroxy Acids
  • X-Rays

• Mechanistic studies on the flavin:NADH reductase (PrnF) from Pseudomonas fluorescens involved in arylamine oxygenation

  Tiwari, M. K., Singh, R. K., Lee, J. K. & Zhao, H., Feb 1 2012, In: Bioorganic and Medicinal Chemistry Letters. 22, 3, p. 1344-1347 4 p.

  Research output: Contribution to journal › Article › peer-review

  • Pseudomonas fluorescens
  • Oxygenation
  • 4,6-dinitro-o-cresol
  • Flavin-Adenine Dinucleotide
  • NAD

• Mutagenic inverted repeats assisted genome engineering (MIRAGE) in saccharomyces cerevisiae: Deletion of gal7

  Nair, N. U. & Zhao, H., Jan 20 2012, Microbial Metabolic Engineering: Methods and Protocols. Cheng, Q. (ed.). p. 63-73 11 p. (Methods in Molecular Biology; vol. 834).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • Synthetic Biology
  • Metabolic Engineering
  • Gene Editing
  • Systems Biology
  • Point Mutation

• Optimized TAL effector nucleases (TALENs) for use in treatment of sickle cell disease

  Sun, N., Liang, J., Abil, Z. & Zhao, H., Mar 1 2012, In: Molecular BioSystems. 8, 4, p. 1255-1263 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Transcription Activator-Like Effectors
  • Sickle Cell Anemia
  • Gene Editing
  • Targeted Gene Repair
  • Therapeutics

• Recent advances in targeted genome engineering in mammalian systems

  Sun, N., Abil, Z. & Zhao, H., Sep 2012, In: Biotechnology Journal. 7, 9, p. 1074-1087 14 p.

  Research output: Contribution to journal › Review article › peer-review

  • Genome
  • Homologous Recombination
  • Zinc Finger Nucleases
  • Transcription Activator-Like Effector Nucleases
  • Endonucleases

• Role of conserved glycine in zinc-dependent medium chain dehydrogenase/reductase superfamily

  Tiwari, M. K., Singh, R. K., Singh, R., Jeya, M., Zhao, H. & Lee, J. K., Jun 1 2012, In: Journal of Biological Chemistry. 287, 23, p. 19429-19439 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Glycine
  • Zinc
  • Oxidoreductases
  • Mutagenesis
  • Paramagnetic resonance

• Strain Improvement via Evolutionary Engineering

  Kim, B., Du, J. & Zhao, H., Oct 24 2012, Engineering Complex Phenotypes in Industrial Strains. John Wiley and Sons, p. 111-131 21 p.

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

• The Botrytis cinerea type III polyketide synthase shows unprecedented high catalytic efficiency toward long chain acyl-CoAs

  Jeya, M., Kim, T. S., Tiwari, M. K., Li, J., Zhao, H. & Lee, J. K., Nov 1 2012, In: Molecular BioSystems. 8, 11, p. 2864-2867 4 p.

  Research output: Contribution to journal › Article › peer-review

  • Resorcinols
  • benzoyl-coenzyme A
  • flavanone synthetase
  • Pyrones
  • Botrytis
• 2013

  Activation and characterization of a cryptic polycyclic tetramate macrolactam biosynthetic gene cluster

  Luo, Y., Huang, H., Liang, J., Wang, M., Lu, L., Shao, Z., Cobb, R. E. & Zhao, H., Dec 5 2013, In: Nature communications. 4, 2894.

  Research output: Contribution to journal › Article › peer-review

  • genes
  • Multigene Family
  • Genes
  • Chemical activation
  • activation

• Challenges and opportunities in synthetic biology for chemical engineers

  Luo, Y., Lee, J. K. & Zhao, H., Nov 5 2013, In: Chemical Engineering Science. 103, p. 115-119 5 p.

  Research output: Contribution to journal › Article › peer-review

  • Synthetic Biology
  • Synthetic biology
  • Engineers
  • Modularization
  • Biofuels

• Combinatorial design of a highly efficient xylose-utilizing pathway in Saccharomyces cerevisiae for the production of cellulosic biofuels

  Kim, B., Du, J., Eriksen, D. T. & Zhao, H., Feb 2013, In: Applied and environmental microbiology. 79, 3, p. 931-941 11 p.

  Research output: Contribution to journal › Article › peer-review

  • Biofuels
  • Xylose
  • biofuel
  • xylose
  • biofuels

• Construction and engineering of large biochemical pathways via DNA assembler

  Shao, Z. & Zhao, H., 2013, Synthetic Biology. Polizzi, K. & Kontoravdi, C. (eds.). p. 85-106 22 p. (Methods in Molecular Biology; vol. 1073).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • aureothin
  • Multigene Family
  • DNA
  • Zeaxanthins
  • Synthetic Biology

• Construction and screening of an antigen-derived peptide library displayed on yeast cell surface for CD4⁺ T cell epitope identification

  Wen, F. & Zhao, H., Sep 20 2013, Immunoproteomics: Methods and Protocols. Fulton, K. & Twine, S. (eds.). p. 245-264 20 p. (Methods in Molecular Biology; vol. 1061).

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • Peptide Library
  • T-Lymphocyte Epitopes
  • Yeasts
  • Major Histocompatibility Complex
  • Antigens

• Coordinated induction of multi-gene pathways in Saccharomyces cerevisiae

  Liang, J., Ning, J. C. & Zhao, H., Feb 2013, In: Nucleic acids research. 41, 4, p. e54

  Research output: Contribution to journal › Article › peer-review

  • Saccharomyces cerevisiae
  • Zeaxanthins
  • Genes
  • Switch Genes
  • Biosynthetic Pathways

• Customized optimization of metabolic pathways by combinatorial transcriptional engineering.

  Yuan, Y., Du, J. & Zhao, H., Aug 2 2013, In: Methods in molecular biology (Clifton, N.J.). 985, p. 177-209 33 p.

  Research output: Contribution to journal › Article › peer-review

  • Metabolic Networks and Pathways
  • Cellobiose
  • Synthetic Biology
  • Metabolic Engineering
  • Xylose

• Directed evolution: Past, present, and future

  Cobb, R. E., Chao, R. & Zhao, H., May 2013, In: AIChE Journal. 59, 5, p. 1432-1440 9 p.

  Research output: Contribution to journal › Article › peer-review

  • Screening
  • Proteins
  • Mutagenesis
  • Polymerase chain reaction
  • Biological Phenomena

• Directed evolution as a powerful synthetic biology tool

  Cobb, R. E., Sun, N. & Zhao, H., Mar 15 2013, In: Methods. 60, 1, p. 81-90 10 p.

  Research output: Contribution to journal › Review article › peer-review

  • Synthetic biology
  • Synthetic Biology
  • Biological systems
  • Biosynthetic Pathways
  • Bioremediation

• Directed evolution of a cellobiose utilization pathway in Saccharomyces cerevisiae by simultaneously engineering multiple proteins

  Eriksen, D. T., Hsieh, P. C. H., Lynn, P. & Zhao, H., Jun 26 2013, In: Microbial cell factories. 12, 1, 61.

  Research output: Contribution to journal › Article › peer-review

  • Cellobiose
  • Protein Engineering
  • Yeast
  • Ethanol
  • Saccharomyces cerevisiae

• Directed evolution of a highly efficient cellobiose utilizing pathway in an industrial saccharomyces cerevisiae strain

  Yuan, Y. & Zhao, H., Nov 2013, In: Biotechnology and bioengineering. 110, 11, p. 2874-2881 8 p.

  Research output: Contribution to journal › Article › peer-review

  • Cellobiose
  • Yeast
  • Saccharomyces cerevisiae
  • Genes
  • Productivity

• Directed evolution of phloroglucinol synthase PhlD with increased stability for phloroglucinol production

  Rao, G., Lee, J. K. & Zhao, H., Jul 1 2013, In: Applied Microbiology and Biotechnology. 97, 13, p. 5861-5867 7 p.

  Research output: Contribution to journal › Article › peer-review

  • Phloroglucinol
  • Malonyl Coenzyme A
  • flavanone synthetase
  • Escherichia coli
  • Protein Engineering

• Drug Discovery and Development via Synthetic Biology

  Cobb, R. E., Luo, Y., Freestone, T. & Zhao, H., Aug 27 2013, Synthetic Biology. Elsevier Inc., p. 183-206 24 p.

  Research output: Chapter in Book/Report/Conference proceeding › Chapter

  • Synthetic biology
  • Synthetic Biology
  • Drug Discovery
  • Multigene Family
  • Biological Products

• Engineering novel tandem catalytic reactions using organometallic catalysts and metalloenzymes

  Denard, C. A., Huang, H., Lu, L., Bartlett, M. J., Hartwig, J. F. & Zhao, H., Jan 1 2013, Food, Pharmaceutical and Bioengineering Division 2013 - Core Programming Area at the 2013 AIChE Annual Meeting: Global Challenges for Engineering a Sustainable Future. AIChE, 1 p. (Food, Pharmaceutical and Bioengineering Division 2013 - Core Programming Area at the 2013 AIChE Annual Meeting: Global Challenges for Engineering a Sustainable Future).

  Research output: Chapter in Book/Report/Conference proceeding › Conference contribution