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• A brief overview of synthetic biology research programs and roadmap studies in the United States

  Si, T. & Zhao, H., Dec 1 2016, In: Synthetic and Systems Biotechnology. 1, 4, p. 258-264 7 p.

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

  • Synthetic biology
  • Synthetic Biology
  • Government Agencies
  • Biological systems

• Accelerated genome engineering through multiplexing

  Bao, Z., Cobb, R. E. & Zhao, H., Jan 1 2016, In: Wiley Interdisciplinary Reviews: Systems Biology and Medicine. 8, 1, p. 5-21 17 p.

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

  • Multiplexing
  • Genes
  • Genome
  • Bioengineering
  • Gene Editing

• A comprehensive genome-scale model for Rhodosporidium toruloides IFO0880 accounting for functional genomics and phenotypic data

  Dinh, H. V., Suthers, P. F., Chan, S. H. J., Shen, Y., Xiao, T., Deewan, A., Jagtap, S. S., Zhao, H., Rao, C. V., Rabinowitz, J. D. & Maranas, C. D., Dec 2019, In: Metabolic Engineering Communications. 9, e00101.

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

  Open Access

  • Genomics
  • Genes
  • Yeasts
  • Basidiomycota
  • Genome

• A continuing career in biocatalysis: Frances H. Arnold

  Fasan, R., Jennifer Kan, S. B. & Zhao, H., Nov 1 2019, In: ACS Catalysis. 9, 11, p. 9775-9788 14 p.

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

  • Biocatalysis
  • Enzymes
  • Biocatalysts
  • Catalysis

• A coupled chlorinase-fluorinase system with a high efficiency of trans -halogenation and a shared substrate tolerance

  Sun, H., Zhao, H. & Ang, E. L., 2018, In: Chemical Communications. 54, 68, p. 9458-9461 4 p.

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

  • fluorinase
  • Halogenation
  • Substrates
  • Enzymes

• ACS Catalysis and the Scope of Papers Sought in Three Catalysis Subdisciplines: Biocatalysis and Enzymology, Molecular Catalysis for Organic Synthesis, and Heterogeneous Photocatalysis

  Chang, S., Fornasiero, P., Gunnoe, T. B., Jones, C. W., Linic, S., Ooi, T., Williams, R. M. & Zhao, H., Jul 1 2016, In: ACS Catalysis. 6, 7, p. 4782-4785 4 p.

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

• 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

• Activation of silent biosynthetic gene clusters using transcription factor decoys

  Wang, B., Guo, F., Dong, S. H. & Zhao, H., Feb 1 2019, In: Nature chemical biology. 15, 2, p. 111-114 4 p.

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

  • Multigene Family
  • Oxazoles
  • non-ribosomal peptide synthase
  • Polyketide Synthases
  • Transcription Factors

• Advancing Metabolic Engineering of Saccharomyces cerevisiae Using the CRISPR/Cas System

  Lian, J., HamediRad, M. & Zhao, H., Sep 2018, In: Biotechnology Journal. 13, 9, 1700601.

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

  • Metabolic Engineering
  • Clustered Regularly Interspaced Short Palindromic Repeats
  • Saccharomyces cerevisiae
  • Gene Knockout Techniques
  • Biotechnology

• A ferredoxin-dependent dihydropyrimidine dehydrogenase in Clostridium chromiireducens

  Wang, F., Wei, Y., Lu, Q., Ang, E. L., Zhao, H. & Zhang, Y., Jul 2020, In: Bioscience Reports. 40, 7, BSR20201642.

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

  Open Access

  • Clostridium
  • Ferredoxins
  • Dihydrouracil Dehydrogenase (NADP)
  • Uracil
  • pyrimidine

• A gene cluster for taurine sulfur assimilation in an anaerobic human gut bacterium

  Xing, M., Wei, Y., Hua, G., Li, M., Nanjaraj Urs, A. N., Wang, F., Hu, Y., Zhai, W., Liu, Y., Ang, E. L., Zhao, H. & Zhang, Y., Aug 15 2019, In: Biochemical Journal. 476, 15, p. 2271-2279 9 p.

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

  • Taurine
  • Sulfur
  • Bacteria
  • Multigene Family
  • Genes

• A genetic toolbox for metabolic engineering of Issatchenkia orientalis

  Cao, M., Fatma, Z., Song, X., Hsieh, P. H., Tran, V. G., Lyon, W. L., Sayadi, M., Shao, Z., Yoshikuni, Y. & Zhao, H., May 2020, In: Metabolic Engineering. 59, p. 87-97 11 p.

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

  • Metabolic engineering
  • Metabolic Engineering
  • Plasmids
  • Yeast
  • DNA

• A highly efficient single-step, markerless strategy for multi-copy chromosomal integration of large biochemical pathways in Saccharomyces cerevisiae

  Shi, S., Liang, Y., Zhang, M. M., Ang, E. L. & Zhao, H., Jan 1 2016, In: Metabolic Engineering. 33, p. 19-27 9 p.

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

  • Clustered Regularly Interspaced Short Palindromic Repeats
  • Yeast
  • Saccharomyces cerevisiae
  • 2,3-butylene glycol
  • Xylose

• Alginate lyases from alginate-degrading Vibrio splendidus 12B01 are endolytic

  Badur, A. H., Jagtap, S. S., Yalamanchili, G., Lee, J. K., Zhao, H. & Rao, C. V., Jan 1 2015, In: Applied and environmental microbiology. 81, 5, p. 1865-1873 9 p.

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

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

• 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 mass spectrometry-based high-throughput screening method for engineering fatty acid synthases with improved production of medium-chain fatty acids

  Xue, P., Si, T., Mishra, S., Zhang, L., Choe, K., Sweedler, J. V. & Zhao, H., Jul 1 2020, In: Biotechnology and bioengineering. 117, 7, p. 2131-2138 8 p.

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

  • High-Throughput Screening Assays
  • Fatty Acid Synthases
  • Mass spectrometry
  • Fatty acids
  • Screening

• An efficient gene knock-in strategy using 5′-modified double-stranded DNA donors with short homology arms

  Yu, Y., Guo, Y., Tian, Q., Lan, Y., Yeh, H., Zhang, M., Tasan, I., Jain, S. & Zhao, H., Dec 23 2019, (Accepted/In press) In: Nature chemical biology. 16, 4, p. 387-390 4 p.

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

  • Gene Knock-In Techniques
  • Ribonucleoproteins
  • DNA
  • HEK293 Cells
  • Neoplastic Stem Cells

• A New Biosensor for Stilbenes and a Cannabinoid Enabled by Genome Mining of a Transcriptional Regulator

  Sun, H., Zhao, H. & Ang, E. L., Apr 17 2020, In: ACS synthetic biology. 9, 4, p. 698-705 8 p.

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

  • Cannabinoids
  • Stilbenes
  • Biosensing Techniques
  • Biosensors
  • Genes

• A New Era of Genome Integration - Simply Cut and Paste!

  Liu, Z., Liang, Y., Ang, E. L. & Zhao, H., Apr 21 2017, In: ACS synthetic biology. 6, 4, p. 601-609 9 p.

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

  • Ointments
  • Genes
  • Homologous Recombination
  • Genome
  • Synthetic Biology

• 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

• An extended bacterial reductive pyrimidine degradation pathway that enables nitrogen release from β-alanine

  Yin, J., Wei, Y., Liu, D., Hu, Y., Lu, Q., Lui Ang, E., Zhao, H. & Zhang, Y., Oct 25 2019, In: Journal of Biological Chemistry. 294, 43, p. 15662-15671 10 p.

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

  • pyrimidine
  • Alanine
  • Nitrogen
  • Degradation
  • Bacteria

• A pathway for degradation of uracil to acetyl coenzyme a in bacillus megaterium

  Zhu, D., Wei, Y., Yin, J., Liu, D., Ang, E. L., Zhao, H. & Zhang, Y., Apr 1 2020, In: Applied and environmental microbiology. 86, 7, e02837.

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

  • Bacillus megaterium
  • Uracil
  • Coenzymes
  • pyrimidine
  • uracil

• A pathway for isethionate dissimilation in Bacillus krulwichiae

  Tong, Y., Wei, Y., Hu, Y., Ang, E. L., Zhao, H. & Zhang, Y., 2019, In: Applied and environmental microbiology. 85, 15, e00793-19.

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

  • sulfoacetaldehyde
  • Bacillus (bacteria)
  • Bacillus
  • Bacteria
  • bacterium

• A plug-and-play pathway refactoring workflow for natural product research in Escherichia coli and Saccharomyces cerevisiae

  Ren, H., Hu, P. & Zhao, H., Aug 2017, In: Biotechnology and bioengineering. 114, 8, p. 1847-1854 8 p.

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

  • Escherichia coli
  • Yeast
  • Workflow
  • Biological Products
  • Saccharomyces cerevisiae

• Applying advanced dna assembly methods to generate pathway libraries

  Eriksen, D. T., Chao, R. & Zhao, H., Mar 15 2018, Synthetic Biology: Parts, Devices and Applications. Wiley-VCH Verlag, p. 331-347 17 p.

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

• A Rewritable, Random-Access DNA-Based Storage System

  Tabatabaei Yazdi, S. M. H., Yuan, Y., Ma, J., Zhao, H. & Milenkovic, O., Sep 18 2015, In: Scientific reports. 5, 14138.

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

  • DNA
  • Information Storage and Retrieval
  • Sensitivity and Specificity

• 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 Scalable Epitope Tagging Approach for High Throughput ChIP-Seq Analysis

  Xiong, X., Zhang, Y., Yan, J., Jain, S., Chee, S., Ren, B. & Zhao, H., Jun 16 2017, In: ACS synthetic biology. 6, 6, p. 1034-1042 9 p.

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

  • Epitopes
  • Chromatin Immunoprecipitation
  • Genes
  • Chromatin
  • Throughput

• 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 step through the looking glass

  Liang, Y., Ang, E. L. & Zhao, H., Sep 1 2016, In: Science China Life Sciences. 59, 9, p. 979-980 2 p.

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

• 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 transaldolase-dependent sulfoglycolysis pathway in Bacillus megaterium DSM 1804

  Liu, Y., Wei, Y., Zhou, Y., Ang, E. L., Zhao, H. & Zhang, Y., Dec 17 2020, In: Biochemical and Biophysical Research Communications. 533, 4, p. 1109-1114 6 p.

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

  • Transaldolase
  • Bacillus megaterium
  • Bacilli
  • Photosynthetic membranes
  • sulfoquinovose

• 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

• 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

• Auroramycin: A Potent Antibiotic from Streptomyces roseosporus by CRISPR-Cas9 Activation

  Lim, Y. H., Wong, F. T., Yeo, W. L., Ching, K. C., Lim, Y. W., Heng, E., Chen, S., Tsai, D. J., Lauderdale, T. L., Shia, K. S., Ho, Y. S., Hoon, S., Ang, E. L., Zhang, M. M. & Zhao, H., Aug 16 2018, In: ChemBioChem. 19, 16, p. 1716-1719 4 p.

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

  • Streptomyces
  • Clustered Regularly Interspaced Short Palindromic Repeats
  • Multigene Family
  • Genes
  • Chemical activation

• Automated multiplex genome-scale engineering in yeast

  Si, T., Chao, R., Min, Y., Wu, Y., Ren, W. & Zhao, H., 2017, In: Nature communications. 8, 15187.

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

  • genome
  • yeast
  • Yeast
  • Genes
  • Yeasts

• Biocatalysis for Drug Discovery and Development

  Liang, Y., Zhang, M. M., Ang, E. L. & Zhao, H., May 13 2016, Green Biocatalysis. Wiley, p. 421-455 35 p.

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

  • Biocatalysis
  • Drug Discovery
  • Drug products
  • Enzymes
  • Biocatalysts

• Biocatalysis for the synthesis of pharmaceuticals and pharmaceutical intermediates

  Sun, H., Zhang, H., Ang, E. L. & Zhao, H., Apr 1 2018, In: Bioorganic and Medicinal Chemistry. 26, 7, p. 1275-1284 10 p.

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

  • Biocatalysis
  • Enzymes
  • Pharmaceutical Preparations
  • Oxidoreductases
  • Isomerases

• 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

• Biochemical and structural investigation of sulfoacetaldehyde reductase from Klebsiella oxytoca

  Zhou, Y., Wei, Y., Lin, L., Xu, T., Ang, E. L., Zhao, H., Yuchi, Z. & Zhang, Y., 2019, In: Biochemical Journal. 476, 4, p. 733-746 14 p.

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

  • sulfoacetaldehyde
  • Short Chain Dehydrogenase-Reductases
  • Klebsiella oxytoca
  • Taurine
  • NADP

• Biochemical and structural investigation of taurine:2-oxoglutarate aminotransferase from Bifidobacterium kashiwanohense

  Li, M., Wei, Y., Yin, J., Lin, L., Zhou, Y., Hua, G., Cao, P., Ang, E. L., Zhao, H., Yuchi, Z. & Zhang, Y., Jan 1 2019, In: Biochemical Journal. 476, 11, p. 1605-1619 15 p.

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

  • Ketoglutaric Acids
  • Bifidobacterium
  • Pyridoxal
  • Taurine
  • Pyridoxal Phosphate

• Biosynthetic engineering of the antifungal, anti-MRSA auroramycin

  Yeo, W. L., Heng, E., Tan, L. L., Lim, Y. W., Ching, K. C., Tsai, D. J., Jhang, Y. W., Lauderdale, T. L., Shia, K. S., Zhao, H., Ang, E. L., Zhang, M. M., Lim, Y. H. & Wong, F. T., Jan 6 2020, In: Microbial cell factories. 19, 1, 3.

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

  Open Access

  • Polyenes
  • Methylation
  • Methicillin-Resistant Staphylococcus aureus
  • Bioactivity
  • incednine

• Biosystems design by directed evolution

  Wang, Y., Yu, X. & Zhao, H., Mar 1 2020, In: AIChE Journal. 66, 3, e16716.

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

  • Genome
  • Protein Engineering
  • Screening
  • Proteins
  • Genes

• Biosystems Design by Machine Learning

  Volk, M. J., Lourentzou, I., Mishra, S., Vo, L. T., Zhai, C. & Zhao, H., Jul 17 2020, In: ACS synthetic biology. 9, 7, p. 1514-1533 20 p.

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

  • Machine Learning
  • Machine learning
  • Nucleic acids
  • Nucleic Acids
  • Enzymes

• Breaking the silence: new strategies for discovering novel natural products

  Ren, H., Wang, B. & Zhao, H., Dec 1 2017, In: Current Opinion in Biotechnology. 48, p. 21-27 7 p.

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

  • Biological Products
  • Genes
  • Multigene Family
  • Throughput
  • Pharmaceutical Preparations

• Building a global alliance of biofoundries

  Hillson, N., Caddick, M., Cai, Y., Carrasco, J. A., Chang, M. W., Curach, N. C., Bell, D. J., Le Feuvre, R., Friedman, D. C., Fu, X., Gold, N. D., Herrgård, M. J., Holowko, M. B., Johnson, J. R., Johnson, R. A., Keasling, J. D., Kitney, R. I., Kondo, A., Liu, C., Martin, V. J. J. & 16 others, Menolascina, F., Ogino, C., Patron, N. J., Pavan, M., Poh, C. L., Pretorius, I. S., Rosser, S. J., Scrutton, N. S., Storch, M., Tekotte, H., Travnik, E., Vickers, C. E., Yew, W. S., Yuan, Y., Zhao, H. & Freemont, P. S., Dec 1 2019, In: Nature communications. 10, 1, 2040.

  Research output: Contribution to journal › Comment/debate › peer-review

  Open Access

  • biotechnology
  • Biotechnology
  • organisms
  • Testing

• Building biological foundries for next-generation synthetic biology

  Chao, R., Yuan, Y. B. & Zhao, H. M., Jul 24 2015, In: Science China Life Sciences. 58, 7, p. 658-665 8 p.

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

  • Synthetic biology
  • Synthetic Biology
  • synthetic biology
  • Foundries
  • Metabolites

• 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

• 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

• 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