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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
• 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., 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

• Introduction

  Zhao, H., Aug 27 2013, In: Synthetic Biology.

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

• Investigating glucose and xylose metabolism in Saccharomyces cerevisiae and Scheffersomyces stipitis via ¹³C metabolic flux analysis

  Feng, X. & Zhao, H., Sep 1 2013, In: AIChE Journal. 59, 9, p. 3195-3202 8 p.

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

  • Metabolic Flux Analysis
  • xylose-glucose
  • Xylose
  • Metabolism
  • Yeast

• Investigating host dependence of xylose utilization in recombinant Saccharomyces cerevisiae strains using RNA-seq analysis

  Feng, X. & Zhao, H., 2013, In: Biotechnology for Biofuels. 6, 1, 96.

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

  • Xylose
  • RNA
  • Yeast
  • Saccharomyces cerevisiae
  • regulation

• Investigating xylose metabolism in recombinant Saccharomyces cerevisiae via ¹³C metabolic flux analysis

  Feng, X. & Zhao, H., Nov 18 2013, In: Microbial cell factories. 12, 1, 114.

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

  • Metabolic Flux Analysis
  • Xylose
  • Metabolism
  • Yeast
  • Saccharomyces cerevisiae

• Investigation of the functional role of aldose 1-epimerase in engineered cellobiose utilization

  Li, S., Ha, S. J., Kim, H. J., Galazka, J. M., Cate, J. H. D., Jin, Y. S. & Zhao, H., Oct 10 2013, In: Journal of Biotechnology. 168, 1, p. 1-6 6 p.

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

  • aldose 1-epimerase
  • Cellobiose
  • Cell growth
  • Yeast
  • Glucose

• Modular assembly of designer Puf proteins for specific post-transcriptional regulation of endogenous RNA

  Abil, Z. & 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

• Multistep one-pot reactions combining biocatalysts and chemical catalysts for asymmetric synthesis

  Denard, C. A., Hartwig, J. F. & Zhao, H., Dec 6 2013, In: ACS Catalysis. 3, 12, p. 2856-2864 9 p.

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

  • Biocatalysts
  • Catalysts
  • Stereoselectivity
  • Regioselectivity
  • Biosynthetic Pathways

• Orthogonal control of endogenous gene expression in mammalian cells using synthetic ligands

  Liang, J., Mclachlan, M. J. & Zhao, H., May 1 2013, In: Biotechnology and bioengineering. 110, 5, p. 1419-1429 11 p.

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

  • Switch Genes
  • Artificial Cells
  • Ligands
  • Gene expression
  • Cells

• Pathway engineering as an enabling synthetic biology tool

  Eriksen, D. T., Li, S. & Zhao, H., 2013, Synthetic Biology. Elsevier Inc., p. 43-61 19 p.

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

  • Synthetic biology
  • Synthetic Biology
  • Metabolic Networks and Pathways
  • 1,4-butanediol
  • Glucaric Acid

• Refactoring the silent spectinabilin gene cluster using a plug-and-play scaffold

  Shao, Z., Rao, G., Li, C., Abil, Z., Luo, Y. & Zhao, H., Nov 15 2013, In: ACS synthetic biology. 2, 11, p. 662-669 8 p.

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

  • spectinabilin
  • Biosynthetic Pathways
  • Synthetic biology
  • Metabolites
  • Bioactivity

• Synthetic Biology

  Zhao, H., Jan 1 2013, Elsevier Inc.

  Research output: Book/Report/Conference proceeding › Book

  • Synthetic biology
  • Synthetic Biology
  • Artificial photosynthesis
  • Biological systems
  • Photosynthesis

• Transcription activator-like effector nucleases (TALENs): a highly efficient and versatile tool for genome editing.

  Sun, N. & Zhao, H., Jul 2013, In: Biotechnology and bioengineering. 110, 7, p. 1811-1821 11 p.

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

  • Transcription Activator-Like Effector Nucleases
  • Gene Editing
  • Transcription
  • Genes
  • Transcription Activator-Like Effectors
• 2014

  Aryl-aldehyde formation in fungal polyketides: Discovery and characterization of a distinct biosynthetic mechanism

  Wang, M., Beissner, M. & Zhao, H., Feb 20 2014, In: Chemistry and Biology. 21, 2, p. 257-263 7 p.

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

  • Polyketide Synthases
  • Polyketides
  • Aldehydes
  • non-ribosomal peptide synthase
  • Aspergillus

• A single-chain TALEN architecture for genome engineering

  Sun, N. & Zhao, H., Mar 1 2014, In: Molecular BioSystems. 10, 3, p. 446-453 8 p.

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

  • Transcription Activator-Like Effector Nucleases
  • Genome
  • DNA Cleavage
  • Peptides
  • Deoxyribonuclease I

• A synthetic device for intracellular mRNA transport and local protein translation in eukaryotes

  Abil, Z., Hoogenraad, C. & Zhao, H., 2014, Food, Pharmaceutical and Bioengineering Division 2014 - Core Programming Area at the 2014 AIChE Annual Meeting. AIChE, Vol. 1. p. 104-113 10 p.

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

  • Carrier Proteins
  • RNA transport
  • Messenger RNA
  • Protein Biosynthesis
  • transport proteins

• A two-plasmid bacterial selection system for characterization and engineering of homing endonucleases

  Sun, N. & Zhao, H., 2014, Homing Endonucleases: Methods and Protocols. Humana Press Inc., p. 87-96 10 p. (Methods in Molecular Biology; vol. 1123).

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

  • Endonucleases
  • Plasmids
  • DNA Cleavage
  • Double-Stranded DNA Breaks
  • Cell Survival

• Characterization and engineering of the adenylation domain of a NRPS-like protein: A potential biocatalyst for aldehyde generation

  Wang, M. & Zhao, H., Apr 4 2014, In: ACS Catalysis. 4, 4, p. 1219-1225 7 p.

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

  • non-ribosomal peptide synthase
  • Biocatalysts
  • Aldehydes
  • Peptides
  • Staphylococcal Protein A

• Characterization of the N-oxygenase AurF from Streptomyces thioletus

  Chanco, E., Choi, Y. S., Sun, N., Vu, M. & Zhao, H., Oct 15 2014, In: Bioorganic and Medicinal Chemistry. 22, 20, p. 5569-5577 9 p.

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

  • 4-nitrobenzoic acid
  • Methylphenazonium Methosulfate
  • Oxygenases
  • Streptomyces
  • aureothin

• Cloning and characterization of a galactitol 2-dehydrogenase from Rhizobium legumenosarum and its application in d-tagatose production

  Jagtap, S. S., Singh, R., Kang, Y. C., Zhao, H. & Lee, J. K., May 10 2014, In: Enzyme and Microbial Technology. 58-59, p. 44-51 8 p.

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

  • galactitol 2-dehydrogenase
  • tagatose
  • Rhizobium
  • Oxidoreductases
  • Cloning

• Comparative biochemical characterization of three exolytic oligoalginate lyases from Vibrio splendidus reveals complementary substrate scope, temperature, and pH adaptations

  Jagtap, S. S., Hehemann, J. H., Polz, M. F., Lee, J. K. & Zhao, H., 2014, In: Applied and environmental microbiology. 80, 14, p. 4207-4214 8 p.

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

  • poly(beta-D-mannuronate) lyase
  • Vibrio splendidus
  • alginate lyase
  • Vibrio
  • alginate