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Small-sample learning reveals propionylation in determining global protein homeostasis

Author

Listed:
  • Ke Shui

    (Huazhong University of Science and Technology)

  • Chenwei Wang

    (Huazhong University of Science and Technology)

  • Xuedi Zhang

    (ShanghaiTech University)

  • Shanshan Ma

    (Huazhong University of Science and Technology)

  • Qinyu Li

    (Huazhong University of Science and Technology)

  • Wanshan Ning

    (Huazhong University of Science and Technology)

  • Weizhi Zhang

    (Huazhong University of Science and Technology)

  • Miaomiao Chen

    (Huazhong University of Science and Technology)

  • Di Peng

    (Huazhong University of Science and Technology)

  • Hui Hu

    (Huazhong University of Science and Technology)

  • Zheng Fang

    (Dalian Institute of Chemical Physics, Chinese Academy of Sciences)

  • Anyuan Guo

    (Huazhong University of Science and Technology)

  • Guanjun Gao

    (ShanghaiTech University)

  • Mingliang Ye

    (Dalian Institute of Chemical Physics, Chinese Academy of Sciences)

  • Luoying Zhang

    (Huazhong University of Science and Technology
    Hubei Province Key Laboratory of Oral and Maxillofacial Development and Regeneration)

  • Yu Xue

    (Huazhong University of Science and Technology
    Nanjing University Institute of Artificial Intelligence Biomedicine)

Abstract

Proteostasis is fundamental for maintaining organismal health. However, the mechanisms underlying its dynamic regulation and how its disruptions lead to diseases are largely unclear. Here, we conduct in-depth propionylomic profiling in Drosophila, and develop a small-sample learning framework to prioritize the propionylation at lysine 17 of H2B (H2BK17pr) to be functionally important. Mutating H2BK17 which eliminates propionylation leads to elevated total protein level in vivo. Further analyses reveal that H2BK17pr modulates the expression of 14.7–16.3% of genes in the proteostasis network, and determines global protein level by regulating the expression of genes involved in the ubiquitin-proteasome system. In addition, H2BK17pr exhibits daily oscillation, mediating the influences of feeding/fasting cycles to drive rhythmic expression of proteasomal genes. Our study not only reveals a role of lysine propionylation in regulating proteostasis, but also implements a generally applicable method which can be extended to other issues with little prior knowledge.

Suggested Citation

  • Ke Shui & Chenwei Wang & Xuedi Zhang & Shanshan Ma & Qinyu Li & Wanshan Ning & Weizhi Zhang & Miaomiao Chen & Di Peng & Hui Hu & Zheng Fang & Anyuan Guo & Guanjun Gao & Mingliang Ye & Luoying Zhang & , 2023. "Small-sample learning reveals propionylation in determining global protein homeostasis," Nature Communications, Nature, vol. 14(1), pages 1-23, December.
  • Handle: RePEc:nat:natcom:v:14:y:2023:i:1:d:10.1038_s41467-023-38414-8
    DOI: 10.1038/s41467-023-38414-8
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