Epigenetic drift of H3K27me3 in aging links glycolysis to healthy longevity in Drosophila

  1. Zaijun Ma
  2. Hui Wang
  3. Yuping Cai
  4. Han Wang
  5. Kongyan Niu
  6. Xiaofen Wu
  7. Huanhuan Ma
  8. Yun Yang
  9. Wenhua Tong
  10. Feng Liu
  11. Zhandong Liu
  12. Yaoyang Zhang
  13. Rui Liu
  14. Zheng-Jiang Zhu  Is a corresponding author
  15. Nan Liu  Is a corresponding author
  1. Chinese Academy of Sciences, China
  2. Shanghai Jiao Tong University School of Medicine, China
  3. Texas Children's Hospital, United States
  4. Singlera Genomics, China

Abstract

Epigenetic alteration has been implicated in aging. However, the mechanism by which epigenetic change impacts aging remains to be understood. H3K27me3, a highly conserved histone modification signifying transcriptional repression, is marked and maintained by Polycomb Repressive Complexes (PRCs). Here, we explore the mechanism by which age-modulated increase of H3K27me3 impacts adult lifespan. Using Drosophila, we reveal that aging leads to loss of fidelity in epigenetic marking and drift of H3K27me3 and consequential reduction in the expression of glycolytic genes with negative effects on energy production and redox state. We show that a reduction of H3K27me3 by PRCs-deficiency promotes glycolysis and healthy lifespan. While perturbing glycolysis diminishes the pro-lifespan benefits mediated by PRCs-deficiency, transgenic increase of glycolytic genes in wild-type animals extends longevity. Together, we propose that epigenetic drift of H3K27me3 is one of the molecular mechanisms that contribute to aging and that stimulation of glycolysis promotes metabolic health and longevity.

Data availability

The raw data files of sequencing experiments have been deposited in the NCBI Gene Expression Omnibus, as well as the normalized read density profiles of ChIP-seq and differential expression results from DESeq of RNA-seq reported in this paper. The accession number is GEO: GSE96654.

The following data sets were generated

Article and author information

Author details

  1. Zaijun Ma

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    Competing interests
    No competing interests declared.
  2. Hui Wang

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    Competing interests
    No competing interests declared.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0002-3522-0164
  3. Yuping Cai

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    Competing interests
    No competing interests declared.
  4. Han Wang

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    Competing interests
    No competing interests declared.
  5. Kongyan Niu

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    Competing interests
    No competing interests declared.
  6. Xiaofen Wu

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    Competing interests
    No competing interests declared.
  7. Huanhuan Ma

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    Competing interests
    No competing interests declared.
  8. Yun Yang

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    Competing interests
    No competing interests declared.
  9. Wenhua Tong

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    Competing interests
    No competing interests declared.
  10. Feng Liu

    State Key Laboratory of Medical Genomics, Shanghai Jiao Tong University School of Medicine, Shanghai, China
    Competing interests
    No competing interests declared.
  11. Zhandong Liu

    Jan and Dan Duncan Neurological Research Institute, Texas Children's Hospital, Houston, United States
    Competing interests
    No competing interests declared.
  12. Yaoyang Zhang

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    Competing interests
    No competing interests declared.
  13. Rui Liu

    Singlera Genomics, Shanghai, China
    Competing interests
    Rui Liu, is affiliated with Singlera Genomics, a company providing customized next generation sequencing services. The author has no financial interests to declare.
  14. Zheng-Jiang Zhu

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    For correspondence
    jiangzhu@sioc.ac.cn
    Competing interests
    No competing interests declared.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0002-3272-3567
  15. Nan Liu

    Interdisciplinary Research Center on Biology and Chemistry, Chinese Academy of Sciences, Shanghai, China
    For correspondence
    liunan@sioc.ac.cn
    Competing interests
    No competing interests declared.
    ORCID icon "This ORCID iD identifies the author of this article:" 0000-0002-7384-0794

Funding

National Program on Key Research Projects of China (2016YFA0501900)

  • Nan Liu

National Science Foundation of China (31371326)

  • Nan Liu

National Science Foundation of China (31671428)

  • Yaoyang Zhang

National Science Foundation of China (31500665)

  • Yaoyang Zhang

National Science Foundation of China (31530041)

  • Yaoyang Zhang

National Science Foundation of China (81770143)

  • Feng Liu

National Institutes of Health (GM120033)

  • Zhandong Liu

National Science Foundation (DMS-1263932)

  • Zhandong Liu

Cancer Prevention and Research Institute of Texas (RP170387)

  • Zhandong Liu

The funders had no role in study design, data collection and interpretation, or the decision to submit the work for publication.

Copyright

© 2018, Ma et al.

This article is distributed under the terms of the Creative Commons Attribution License permitting unrestricted use and redistribution provided that the original author and source are credited.

Metrics

  • 8,611
    views
  • 1,186
    downloads
  • 101
    citations

Views, downloads and citations are aggregated across all versions of this paper published by eLife.

Download links

A two-part list of links to download the article, or parts of the article, in various formats.

Downloads (link to download the article as PDF)

Open citations (links to open the citations from this article in various online reference manager services)

Cite this article (links to download the citations from this article in formats compatible with various reference manager tools)

  1. Zaijun Ma
  2. Hui Wang
  3. Yuping Cai
  4. Han Wang
  5. Kongyan Niu
  6. Xiaofen Wu
  7. Huanhuan Ma
  8. Yun Yang
  9. Wenhua Tong
  10. Feng Liu
  11. Zhandong Liu
  12. Yaoyang Zhang
  13. Rui Liu
  14. Zheng-Jiang Zhu
  15. Nan Liu
(2018)
Epigenetic drift of H3K27me3 in aging links glycolysis to healthy longevity in Drosophila
eLife 7:e35368.
https://doi.org/10.7554/eLife.35368

Share this article

https://doi.org/10.7554/eLife.35368

Further reading

    1. Cell Biology
    Jessica E Schwarz, Antonijo Mrčela ... Amita Sehgal
    Short Report

    Aging is associated with a number of physiologic changes including perturbed circadian rhythms; however, mechanisms by which rhythms are altered remain unknown. To test the idea that circulating factors mediate age-dependent changes in peripheral rhythms, we compared the ability of human serum from young and old individuals to synchronize circadian rhythms in culture. We collected blood from apparently healthy young (age 25–30) and old (age 70–76) individuals at 14:00 and used the serum to synchronize cultured fibroblasts. We found that young and old sera are equally competent at initiating robust ~24 hr oscillations of a luciferase reporter driven by clock gene promoter. However, cyclic gene expression is affected, such that young and old sera promote cycling of different sets of genes. Genes that lose rhythmicity with old serum entrainment are associated with oxidative phosphorylation and Alzheimer’s Disease as identified by STRING and IPA analyses. Conversely, the expression of cycling genes associated with cholesterol biosynthesis increased in the cells entrained with old serum. Genes involved in the cell cycle and transcription/translation remain rhythmic in both conditions. We did not observe a global difference in the distribution of phase between groups, but found that peak expression of several clock-controlled genes (PER3, NR1D1, NR1D2, CRY1, CRY2, and TEF) lagged in the cells synchronized ex vivo with old serum. Taken together, these findings demonstrate that age-dependent blood-borne factors affect circadian rhythms in peripheral cells and have the potential to impact health and disease via maintaining or disrupting rhythms respectively.

    1. Cell Biology
    2. Genetics and Genomics
    Priyanka Das, Alejandro Aballay, Jogender Singh
    Research Article

    Calcineurin is a highly conserved calcium/calmodulin-dependent serine/threonine protein phosphatase with diverse functions. Inhibition of calcineurin is known to enhance the lifespan of Caenorhabditis elegans through multiple signaling pathways. Aiming to study the role of calcineurin in regulating innate immunity, we discover that calcineurin is required for the rhythmic defecation motor program (DMP) in C. elegans. Calcineurin inhibition leads to defects in the DMP, resulting in intestinal bloating, rapid colonization of the gut by bacteria, and increased susceptibility to bacterial infection. We demonstrate that intestinal bloating caused by calcineurin inhibition mimics the effects of calorie restriction, resulting in enhanced lifespan. The TFEB ortholog, HLH-30, is required for lifespan extension mediated by calcineurin inhibition. Finally, we show that the nuclear hormone receptor, NHR-8, is upregulated by calcineurin inhibition and is necessary for the increased lifespan. Our studies uncover a role for calcineurin in the C. elegans DMP and provide a new mechanism for calcineurin inhibition-mediated longevity extension.