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  • Huimin Zhao
Article

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 journalArticle

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 journalArticle

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 journalArticle

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 journalArticle

Open Access

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 journalArticle

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 journalArticle

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 journalArticle

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 journalArticle

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 journalArticle

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 journalArticle

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., Mar 18 2020, In : Applied and environmental microbiology. 86, 7

Research output: Contribution to journalArticle

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 journalArticle

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 journalArticle

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 journalArticle

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 journalArticle

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., Jan 1 2019, In : Biochemical Journal. 476, 4, p. 733-746 14 p.

Research output: Contribution to journalArticle

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 journalArticle

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 journalArticle

Open Access

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 journalArticle

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., 2019, In : Biotechnology and bioengineering. 116, 9, p. 2330-2338 9 p.

Research output: Contribution to journalArticle

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 journalArticle

Combinatorial metabolic engineering using an orthogonal tri-functional CRISPR system

Lian, J., Hamedirad, M., Hu, S. & Zhao, H., Dec 1 2017, In : Nature communications. 8, 1, 1688.

Research output: Contribution to journalArticle

Combining Rh-Catalyzed Diazocoupling and Enzymatic Reduction to Efficiently Synthesize Enantioenriched 2-Substituted Succinate Derivatives

Wang, Y., Bartlett, M. J., Denard, C. A., Hartwig, J. F. & Zhao, H., Apr 7 2017, In : ACS Catalysis. 7, 4, p. 2548-2552 5 p.

Research output: Contribution to journalArticle

CRISPR-Cas9 strategy for activation of silent Streptomyces biosynthetic gene clusters

Zhang, M. M., Wong, F. T., Wang, Y., Luo, S., Lim, Y. H., Heng, E., Yeo, W. L., Cobb, R. E., Enghiad, B., Ang, E. L. & Zhao, H., Jun 1 2017, In : Nature chemical biology. 13, 6, p. 607-609 3 p.

Research output: Contribution to journalArticle

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 journalArticle

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 journalArticle

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 journalArticle

Discovery and engineering of a 1-butanol biosensor in Saccharomyces cerevisiae

Shi, S., Choi, Y. W., Zhao, H., Tan, M. H. & Ang, E. L., Dec 2017, In : Bioresource Technology. 245, p. 1343-1351 9 p.

Research output: Contribution to journalArticle

Discovery of a Phosphonoacetic Acid Derived Natural Product by Pathway Refactoring

Freestone, T. S., Ju, K. S., Wang, B. & Zhao, H., Feb 17 2017, In : ACS synthetic biology. 6, 2, p. 217-223 7 p.

Research output: Contribution to journalArticle

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 journalArticle

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 journalArticle

Open Access

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 journalArticle

Open Access

Fully Automated One-Step Synthesis of Single-Transcript TALEN Pairs Using a Biological Foundry

Chao, R., Liang, J., Tasan, I., Si, T., Ju, L. & Zhao, H., Apr 21 2017, In : ACS synthetic biology. 6, 4, p. 678-685 8 p.

Research output: Contribution to journalArticle

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 journalArticle

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 journalArticle

Open Access

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 journalArticle

Inducible Control of mRNA Transport Using Reprogrammable RNA-Binding Proteins

Abil, Z., Gumy, L. F., Zhao, H. & Hoogenraad, C. C., Jun 16 2017, In : ACS synthetic biology. 6, 6, p. 950-956 7 p.

Research output: Contribution to journalArticle

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 journalArticle

Open Access

Orthogonal Genetic Regulation in Human Cells Using Chemically Induced CRISPR/Cas9 Activators

Bao, Z., Jain, S., Jaroenpuntaruk, V. & Zhao, H., Apr 21 2017, In : ACS synthetic biology. 6, 4, p. 686-693 8 p.

Research output: Contribution to journalArticle

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 journalArticle

Probing the molecular determinants of fluorinase specificity

Yeo, W. L., Chew, X., Smith, D. J., Chan, K. P., Sun, H., Zhao, H., Lim, Y. H. & Ang, E. L., Jan 1 2017, In : Chemical Communications. 53, 17, p. 2559-2562 4 p.

Research output: Contribution to journalArticle

Programmable DNA-Guided Artificial Restriction Enzymes

Enghiad, B. & Zhao, H., May 19 2017, In : ACS synthetic biology. 6, 5, p. 752-757 6 p.

Research output: Contribution to journalArticle

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 journalArticle

Open Access

SynV and SynX: A story more than DNA synthesis

Ren, H. & Zhao, H., May 1 2017, In : Science China Life Sciences. 60, 5, p. 558-560 3 p.

Research output: Contribution to journalArticle

Towards a fully automated algorithm driven platform for biosystems design

HamediRad, M., Chao, R., Weisberg, S., Lian, J., Sinha, S. & Zhao, H., Nov 13 2019, In : Nature communications. 10, 1, 5150.

Research output: Contribution to journalArticle

Open Access

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 journalArticle

Open Access

Twin-primer non-enzymatic DNA assembly: An efficient and accurate multi-part DNA assembly method

Liang, J., Liu, Z., Low, X. Z., Ang, E. L. & Zhao, H., Jun 1 2017, In : Nucleic acids research. 45, 11, p. e94

Research output: Contribution to journalArticle

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 journalArticle

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 journalArticle