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2020
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 -
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
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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
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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
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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
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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
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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 -
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
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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
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Computational Tools for Discovering and Engineering Natural Product Biosynthetic Pathways
Ren, H., Shi, C. & Zhao, H., Jan 24 2020, In: iScience. 23, 1, 100795.Research output: Contribution to journal › Review article › peer-review
Open Access -
Discovery and Characterization of a Class IV Lanthipeptide with a Nonoverlapping Ring Pattern
Ren, H., Shi, C., Bothwell, I. R., Van Der Donk, W. A., Van Der Donk, W. A., Van Der Donk, W. A., Zhao, H., Zhao, H., Zhao, H., Zhao, H. & Zhao, H., Jun 19 2020, In: ACS chemical biology. 15, 6, p. 1642-1649 8 p.Research output: Contribution to journal › Article › peer-review
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Divalent cations promote TALE DNA-binding specificity
Cuculis, L., Zhao, C., Abil, Z., Zhao, H., Shukla, D. & Schroeder, C. M., Feb 20 2020, In: Nucleic acids research. 48, 3, p. 1406-1422 17 p.Research output: Contribution to journal › Article › peer-review
Open Access -
DNA punch cards for storing data on native DNA sequences via enzymatic nicking
Tabatabaei, S. K., Wang, B., Athreya, N. B. M., Enghiad, B., Hernandez, A. G., Fields, C. J., Leburton, J. P., Soloveichik, D., Zhao, H. & Milenkovic, O., Dec 1 2020, In: Nature communications. 11, 1, 1742.Research output: Contribution to journal › Article › peer-review
Open Access -
Emerging molecular biology tools and strategies for engineering natural product biosynthesis
Xu, W., Klumbys, E., Ang, E. L. & Zhao, H., Jun 2020, In: Metabolic Engineering Communications. 10, e00108.Research output: Contribution to journal › Review article › peer-review
Open Access -
Evolutionary context-integrated deep sequence modeling for protein engineering
Luo, Y., Vo, L., Ding, H., Su, Y., Liu, Y., Qian, W. W., Zhao, H. & Peng, J., 2020, Research in Computational Molecular Biology - 24th Annual International Conference, RECOMB 2020, Proceedings. Schwartz, R. (ed.). Springer, p. 261-263 3 p. (Lecture Notes in Computer Science (including subseries Lecture Notes in Artificial Intelligence and Lecture Notes in Bioinformatics); vol. 12074 LNBI).Research output: Chapter in Book/Report/Conference proceeding › Conference contribution
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Fine-tuning the regulation of Cas9 expression levels for efficient CRISPR-Cas9 mediated recombination in Streptomyces
Ye, S., Enghiad, B., Zhao, H. & Takano, E., May 1 2020, In: Journal of Industrial Microbiology and Biotechnology. 47, 4-5, p. 413-423 11 p.Research output: Contribution to journal › Article › peer-review
Open Access -
Genome-scale metabolic reconstruction of the non-model yeast Issatchenkia orientalis SD108 and its application to organic acids production
Suthers, P. F., Dinh, H. V., Fatma, Z., Shen, Y., Chan, S. H. J., Rabinowitz, J. D., Zhao, H. & Maranas, C. D., Dec 2020, In: Metabolic Engineering Communications. 11, p. e00148Research output: Contribution to journal › Article › peer-review
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Identification and Characterization of Citrus Peel Uronic Acid Oxidase
Wei, Y., Tan, Y. L., Ang, E. L. & Zhao, H., Mar 16 2020, In: ChemBioChem. 21, 6, p. 797-800 4 p.Research output: Contribution to journal › Article › peer-review
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Integrating biocatalysis with chemocatalysis for selective transformations
Huang, X., Cao, M. & Zhao, H., Apr 2020, In: Current Opinion in Chemical Biology. 55, p. 161-170 10 p.Research output: Contribution to journal › Review article › peer-review
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Optically guided mass spectrometry to screen microbial colonies for directed enzyme evolution
Xue, P., Si, T. & Zhao, H., 2020, Methods in Enzymology. Tawfik, D. S. (ed.). Academic Press Inc., p. 255-273 19 p. (Methods in Enzymology; vol. 644).Research output: Chapter in Book/Report/Conference proceeding › Chapter
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Photoenzymatic enantioselective intermolecular radical hydroalkylation
Huang, X., Wang, B., Wang, Y., Jiang, G., Feng, J. & Zhao, H., Aug 6 2020, In: Nature. 584, 7819, p. 69-74 6 p.Research output: Contribution to journal › Article › peer-review
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Recent advances in domesticating non-model microorganisms
Fatma, Z., Schultz, J. C. & Zhao, H., Sep 1 2020, In: Biotechnology Progress. 36, 5, e3008.Research output: Contribution to journal › Review article › peer-review
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Reconstruction of Lead Acid Battery Negative Electrodes after Hard Sulfation Using Controlled Chelation Chemistry
Gossage, Z. T., Guo, F., Hatfield, K. O., Martin, T. A., Tian, Q., Gao, E. J., Kumar, A., Rodríguez-López, J. & Zhao, H., Jan 9 2020, In: Journal of the Electrochemical Society. 167, 12, 120537.Research output: Contribution to journal › Article › peer-review
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Stereoconvergent Reduction of Activated Alkenes by a Nicotinamide Free Synergistic Photobiocatalytic System
Wang, Y., Huang, X., Hui, J., Vo, L. T. & Zhao, H., Aug 21 2020, In: ACS Catalysis. 10, 16, p. 9431-9437 7 p.Research output: Contribution to journal › Article › peer-review
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Towards oilcane: Engineering hyperaccumulation of triacylglycerol into sugarcane stems
Parajuli, S., Kannan, B., Karan, R., Sanahuja, G., Liu, H., Garcia-Ruiz, E., Kumar, D., Singh, V., Zhao, H., Long, S., Shanklin, J. & Altpeter, F., Jul 1 2020, In: GCB Bioenergy. 12, 7, p. 476-490 15 p.Research output: Contribution to journal › Article › peer-review
Open Access -
Two-Color Imaging of Nonrepetitive Endogenous Loci in Human Cells
Tasan, I., Su, C. J., Enghiad, B., Zhang, M., Mishra, S. & Zhao, H., Sep 18 2020, In: ACS synthetic biology. 9, 9, p. 2502-2514 13 p.Research output: Contribution to journal › Article › peer-review
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Two radical-dependent mechanisms for anaerobic degradation of the globally abundant organosulfur compound dihydroxypropanesulfonate
Liu, J., Wei, Y., Lin, L., Teng, L., Yin, J., Lu, Q., Chen, J., Zheng, Y., Li, Y., Xu, R., Zhai, W., Liu, Y., Liu, Y., Cao, P., Ang, E. L., Zhao, H., Yuchi, Z. & Zhang, Y., Jul 7 2020, In: Proceedings of the National Academy of Sciences of the United States of America. 117, 27, p. 15599-155608 140010 p.Research output: Contribution to journal › Article › peer-review
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Unleashing the power of energy storage: Engineering β-oxidation pathways for polyketide production
Wang, B. & Zhao, H., Mar 2020, In: Synthetic and Systems Biotechnology. 5, 1, p. 21-22 2 p.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Unlocking nature's biosynthetic potential by directed genome evolution
Cao, M., Tran, V. G. & Zhao, H., Dec 2020, In: Current Opinion in Biotechnology. 66, p. 95-104 10 p.Research output: Contribution to journal › Review article › peer-review
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Unraveling the iterative type I polyketide synthases hidden in Streptomyces
Wang, B., Guo, F., Huang, C. & Zhao, H., Apr 14 2020, In: Proceedings of the National Academy of Sciences of the United States of America. 117, 15, p. 8449-8454 6 p.Research output: Contribution to journal › Article › peer-review
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2019
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 -
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
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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
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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
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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
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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
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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
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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
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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
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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, , Dec 1 2019, In: Nature communications. 10, 1, 2040.Research output: Contribution to journal › Comment/debate › peer-review
Open Access -
Characterization of Cas proteins for CRISPR-Cas editing in streptomycetes
Yeo, W. L., Heng, E., Tan, L. L., Lim, Y. W., Lim, Y. H., Hoon, S., Zhao, H., Zhang, M. M. & Wong, F. T., Sep 2019, In: Biotechnology and bioengineering. 116, 9, p. 2330-2338 9 p.Research output: Contribution to journal › Article › peer-review
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Characterization of the flavin monooxygenase involved in biosynthesis of the antimalarial FR-900098
Nguyen, K., DeSieno, M. A., Bae, B., Johannes, T. W., Cobb, R. E., Zhao, H. & Nair, S. K., 2019, In: Organic and Biomolecular Chemistry. 17, 6, p. 1506-1518 13 p.Research output: Contribution to journal › Article › peer-review
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Construction and Screening of an Antigen-Derived Peptide Library Displayed on Yeast Cell Surface for CD4+ T Cell Epitope Identification
Wen, F., Smith, M. R. & Zhao, H., Jan 1 2019, Methods in Molecular Biology. Humana Press Inc., p. 213-234 22 p. (Methods in Molecular Biology; vol. 2024).Research output: Chapter in Book/Report/Conference proceeding › Chapter
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Delta integration CRISPR-Cas (Di-CRISPR) in saccharomyces cerevisiae
Shi, S., Liang, Y., Ang, E. L. & Zhao, H., Jan 1 2019, Methods in Molecular Biology. Humana Press Inc., p. 73-91 19 p. (Methods in Molecular Biology; vol. 1927).Research output: Chapter in Book/Report/Conference proceeding › Chapter
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Development of a CRISPR/Cas9-based tool for gene deletion in Issatchenkia orientalis
Tran, V. G., Cao, M., Fatma, Z., Song, X. & Zhao, H., May 1 2019, In: mSphere. 4, 3, e00345-19.Research output: Contribution to journal › Article › peer-review
Open Access -
Development of a CRISPR/Cas9 system for high efficiency multiplexed gene deletion in Rhodosporidium toruloides
Schultz, J. C., Cao, M. & Zhao, H., Aug 2019, In: Biotechnology and bioengineering. 116, 8, p. 2103-2109 7 p.Research output: Contribution to journal › Article › peer-review
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Highly Efficient Single-Pot Scarless Golden Gate Assembly
Hamedirad, M., Weisberg, S., Chao, R., Lian, J. & Zhao, H., May 17 2019, In: ACS synthetic biology. 8, 5, p. 1047-1054 8 p.Research output: Contribution to journal › Article › peer-review
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Identification and characterization of a new sulfoacetaldehyde reductase from the human gut bacterium Bifidobacterium kashiwanohense
Zhou, Y., Wei, Y., Nanjaraj Urs, A. N., Lin, L., Xu, T., Hu, Y., Ang, E. L., Zhao, H., Yuchi, Z. & Zhang, Y., 2019, In: Bioscience Reports. 39, 6, Y.Research output: Contribution to journal › Article › peer-review
Open Access -
Multi-functional genome-wide CRISPR system for high throughput genotype–phenotype mapping
Lian, J., Schultz, C., Cao, M., HamediRad, M. & Zhao, H., Dec 1 2019, In: Nature communications. 10, 1, 5794.Research output: Contribution to journal › Article › peer-review
Open Access -
Radical-mediated C-S bond cleavage in C2 sulfonate degradation by anaerobic bacteria
Xing, M., Wei, Y., Zhou, Y., Zhang, J., Lin, L., Hu, Y., Hua, G., N. Nanjaraj Urs, A., Liu, D., Wang, F., Guo, C., Tong, Y., Li, M., Liu, Y., Ang, E. L., Zhao, H., Yuchi, Z. & Zhang, Y., Dec 1 2019, In: Nature communications. 10, 1, 1609.Research output: Contribution to journal › Article › peer-review
Open Access