J Integr Plant Biol.

• Research Article •    

Methylation of isopentenyl pyrophosphate by C-methyltransferase and optimizing irregular β-elemene yield using UniKP, an enzyme kinetic parameter prediction tool

Tangli Li1,2, Ming Wang1, Huilin Ren1, Han Yu3,4,5,6,7, Xiaozhou Luo3, Lifei Lv1, Huanan Jin1,2, Xiaopu Yin1,2* and Rong Chen1,2*   

  1. 1. School of Pharmacy, School of Public Health and Nursing, Hangzhou Normal University, Hangzhou 311121, China

    2. Zhejiang Provincial Key Laboratory of Anti‐Cancer Chinese Medicines and Natural Medicines, Engineering Laboratory of Development and Application of Traditional Chinese Medicine from Zhejiang Province, Hangzhou Normal University, Hangzhou 311121, China

    3. Center for Synthetic Biochemistry, Shenzhen Institute of Synthetic Biology, Shenzhen Institute of Advanced Technology, Chinese Academy of Sciences, Shenzhen 518055, China

    4. Ministry of Education Key Laboratory of Bioinformatics, Tsinghua University, Beijing 100084, China

    5. Center for Synthetic and Systems Biology Tsinghua University, Beijing 100084, China

    6. Bioinformatics Division, Beijing National Research Center for Information Science and Technology, Tsinghua University, Beijing 100084, China

    7. Department of Automation, Tsinghua University, Beijing 100084, China

    *Correspondences: Xiaopu Yin (yinxp@hznu.edu.cn); Rong Chen (rongchen1984@hznu.edu.cn, Dr. Chen is fully responsible for the distribution of all materials associated with this article)

  • Received:2025-05-08 Accepted:2025-09-01 Online:2025-10-14
  • Supported by:
    This work was supported by the National Natural Science Foundation of China (82173919), the Natural Science Foundation of Zhejiang Province (LY24H280006). and inter-disciplinary research project of Hangzhou Normal University (2025JCXK02).

Abstract: Although terpenoids display chemical and structural diversities as well as important biological activities, they are biosynthesized through polymerization of C5 isoprene units according to the “biogenetic isoprene rule.” However, recent observations have identified irregular terpenes, such as C11, C12, C16, and C17, in some microbial species. These irregular terpenes have garnered research interest due to the “Magic Methyl Effect.” These compounds are biosynthesized from the methyl modification of terpene skeletons at a detectable level in Escherichia coli. To explore key factors in the biosynthesis of irregular terpenes, we conducted a screening of C-methyltransferases by UniKP, synthesized methyl-isopentenyl pyrophosphate as a precursor building unit, and polymerized it with C5 isoprene units to generate methyl β-elemene via farnesyl pyrophosphate synthase and germacrene A synthase. Finally, the yield of methyl β-elemene reached 6.98 mg/L, representing a 2.46-fold increase, with a ratio of methylated to native β-elemene increasing by 0.21 through the introduction S-adenosyl-L-homocysteine hydrolase and the optimization of germacrene A synthase. These findings not only expand the chemical diversity of terpenoids but also highlight the evolutionary plasticity of terpene synthases in generating structural novelty.

Key words: C‐methyltransferase, SAM cycle, UniKP, β‐elemene

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