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LU YUMING

 

Professor

Department of Plant Science

Email: luymin@sjtu.edu.cn

Office: Room Number 415B, Building B

Address: School of Agriculture and Biology, Shanghai Jiao Tong

University, 800 Dongchuan Road, Minhang, 200240, Shanghai, China

 

Research interests

Our group focuses on AI-driven protein design and biomanufacturing, targeting critical challenges in agriculture such as feed protein and biopharmaceuticals. By integrating interdisciplinary technologies including gene editing, synthetic biology, and artificial intelligence, we translate research into real-world impact, applying industrial-scale solutions to overcome critical bottlenecks in agriculture.

 

Key Research Areas:

  1. Developing novel protein design and evolution systems to obtain high-performance key proteins for diverse applications.
  2. Engineering biomanufacturing platforms using corn and fungi to produce feed proteins.

 

Employment

2022.03-present，Professor, School of Agriculture and Biology, Shanghai Jiao Tong University

2020.11-2022.02，Principal Investigator, Center for Excellence in Molecular Plant Sciences, CAS

2020.05-2020.10 ，Associate Researcher, Center for Excellence in Molecular Plant Sciences, CAS

2018.12-2020.04，Associate Researcher, Shanghai Center for Plant Stress Biology, CAS

2016.11-2018.11，Assistant Researcher, Shanghai Center for Plant Stress Biology, CAS

2013.10-2016.10，Postdoctoral Fellow, Shanghai Center for Plant Stress Biology, CAS

 

Education

2007.09-2013.07 Ph.D. in Developmental Biology, Wuhan University

2003.09-2007.07 B.S. in Applied Bioscience, Zhejiang University

 

Selected Publications (*co-first author)

  1. Wang, D., Tan, Z., Gao, J., Zhang, S., Shen, J., and Lu, Y. AI4Protein: transforming the future of protein design. Sci China Life Sci, https://doi.org/10.1007/s11427-024-2906-3
  2. Liu T., Shen J., Zhong D., Wang K., Yan J., Yao Q., Ye L., Li K., Deng Q., and Lu Y. (2025). Conditional
  3. knockdown of gene expression in plants via 30 UTR editing. Plant Comm. 6, 101291.
  4. Yao, Q., Shen, R., Shao, Y., Tian, Y., Han, P., Zhang, X., Zhu, J.K.*, & Lu, Y.* (2024). Efficient and multiplex gene upregulation in plants through CRISPR-Cas-mediated knockin of enhancers. Molecular Plant, 17(9), 1472-1483.
  5. Tian, Y., Zhong, D., Shen, R., Tan, X., Zhu, C., Li, K., Yao, Q., Li, X., Zhang, X., Cao, X., Wang, P., Zhu, J.K.*, & Lu, Y.* (2024). Rapid and dynamic detection of endogenous proteins through in locus tagging in rice. Plant Communications, 101040.
  6. Zhang, X., Song, M., Wang, Y., Yao, Q., Shen, R., Tian, Y.*, Lu, Y.*, & Zhu, J.K.* (2024). Programmable broad-spectrum resistance to bacterial blight using targeted insertion in rice. Cell Discovery, 10(1), 100.
  7. Shen R, Yao Q, Tan X, Ren W, Zhong D, Zhang X, Li X, Dong C, Cao X, Tian Y, Zhu JK*, Lu Y.* (2024) In-locus gene silencing in plants using genome editing. New Phytologist. 243(6):2501-2511.
  8. Zhong D, Pan H, Li K, Zhou Y, Zhao F, Ye L, Ruan S, Deng Q, Xu J, Lu Y.* (2024) Targeted A-to-T and A-to-C base replacement in maize using an optimized adenine base editor. Plant biotechnology journal, 22(3):541-543.
  9. Liu, T., Zhang, X., Li, K., Yao, Q., Zhong, D., Deng, Q., Lu, Y.* (2023) Large-scale genome editing in plants: approaches, applications, and future perspectives, Current Opinion in Biotechnology, 79:102875
  10. Shen, R., Yao, Q., Zhong, D., Zhang, X., Li, X., Cao, X., Dong, C., Tian, Y., Zhu, J-K and Lu, Y.* (2023) Targeted insertion of regulatory elements enables translational enhancement in rice. Frontiers in Plant Science, 14:1134209
  11. Tian, Y., Zhong, D., Li, X., Shen, R., Han, H., Dai, Y., Yao, Q., Zhang, X., Deng, Q., Cao, X., Zhu, J. K., and Lu, Y.* (2022). High-throughput genome editing in rice with a virus-based surrogate system. Journal of integrative plant biology, 10.1111/jipb.13381
  12. Tian, Y., Shen, R., Li, Z., Yao, Q., Zhang, X., Zhong, D., Tan, X., Song, M., Han, H., Zhu, J. K., and Lu, Y.* (2022). Efficient C-to-G editing in rice using an optimized base editor. Plant biotechnology journal, 20(7):1238–1240.
  13. Lu, Y.*, Ronald, P.C., Han, B., Li, J. and Zhu, J.K. (2020). Rice Protein Tagging Project: A Call for International Collaborations on Genome-wide In-Locus Tagging of Rice Proteins. Molecular Plant 13(12):1663-1665.
  14. Lu, Y.#, Tian, Y.#, Shen, R., Yao, Q., Wang, M., Chen, M., Dong, J., Zhang, T., Li, F., Lei, M. and Zhu, J.K.* (2020). Targeted, efficient sequence insertion and replacement in rice. Nature Biotechnology 38(12):1402-1407.
  15. Lu, Y.*#, Tian, Y.#, Shen, R., Yao, Q., Zhong, D., Zhang, X., and Zhu, J.K.* (2021). Precise genome modification in tomato using an improved prime editing system. Plant biotechnology journal 19(3):415-417.
  16. Lu, Y., Ye, X., Guo, R., Huang, J., Wang, W., Tang, J., Tan, L., Zhu, J.K., Chu, C., and Qian, Y.* (2017). Genome-wide Targeted Mutagenesis in Rice Using the CRISPR/Cas9 System. Molecular Plant 10:1242-1245.
  17. Lu, Y., and Zhu, J.K.* (2017). Precise Editing of a Target Base in the Rice Genome Using a Modified CRISPR/Cas9 System. Molecular Plant 10:523-525.
  18. Wang, M.#, Lu, Y.#, Botella, J.R., Mao, Y., Hua, K., and Zhu, J.K.* (2017). Gene Targeting by Homology-Directed Repair in Rice Using a Geminivirus-Based CRISPR/Cas9 System. Molecular Plant 10:1007-1010.
  19. Xiong, J.#, Lu, Y.#, Feng, J., Yuan, D., Tian, M., Chang, Y., Fu, C., Wang, G., Zeng, H., and Miao, W.* (2013). Tetrahymena functional genomics database (TetraFGD): an integrated resource for Tetrahymena functional genomics. Database (Oxford), bat008.
  20. Lu, Y., Chen, X., Wu, Y., Wang, Y., He, Y., and Wu, Y.* (2013). Directly transforming PCR-amplified DNA fragments into plant cells is a versatile system that facilitates the transient expression assay. PLoS One 8, e57171.
  21. Xiong, J.#, Lu, X.#, Lu, Y.#, Zeng, H., Yuan, D., Feng, L., Chang, Y., Bowen, J., Gorovsky, M., Fu, C., et al. (2011). Tetrahymena Gene Expression Database (TGED): a resource of microarray data and co-expression analyses for Tetrahymena. Science China Life Sciences 54, 65-67.
  22. Srivastava, AK., Lu, Y., Zinta, G., Lang, Z., and Zhu, J.K.* (2018). UTR-Dependent Control of Gene Expression in Plants. Trends in Plant Science 23:248-259.
  23. Zhan, X., Lu, Y., Zhu, J.K., and Botella, J.R. (2021). Genome editing for plant research and crop improvement. Journal of integrative plant biology 63, 3-33.
  24. Wang, M., Mao, Y., Lu, Y., Tao, X., and Zhu, J.K.* (2017). Multiplex Gene Editing in Rice Using the CRISPR-Cpf1 System. Molecular Plant 10:1011-1013.
  25. Wang M, Wang Z, Mao Y, Lu Y, Yang R, Tao X, Zhu JK*. (2019). Optimizing base editors for improved efficiency and expanded editing scope in rice. Plant biotechnology journal 17(9):1697-1699.
  26. Liu, H.J., Jian, L., Xu, J., Zhang, Q., Zhang, M., Jin, M., Peng, Y., Yan, J., Han, B., Liu, J., Lu, Y. et al. (2020). High-Throughput CRISPR/Cas9 Mutagenesis Streamlines Trait Gene Identification in Maize. The Plant Cell 32:1397-1413.
  27. Wang, M., Mao, Y., Lu, Y., Wang, Z., Tao, X., and Zhu, J.K.* (2018). Multiplex gene editing in rice with simplified CRISPR-Cpf1 and CRISPR-Cas9 systems. Journal of Integrative Plant Biology 60:626-631.
  28. Wang, Y., Li, L., Ye, T., Lu, Y., Chen, X., and Wu, Y.* (2013). The inhibitory effect of ABA on floral transition is mediated by ABI5 in Arabidopsis. Journal of Experimental Botany 64, 675-684.

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