1
|
Wang R, Yin Y, Li J, Wang H, Lv W, Gao Y, Wang T, Zhong Y, Zhou Z, Cai Y, Su X, Liu N, Zhu ZJ. Global stable-isotope tracing metabolomics reveals system-wide metabolic alternations in aging Drosophila. Nat Commun 2022; 13:3518. [PMID: 35725845 PMCID: PMC9209425 DOI: 10.1038/s41467-022-31268-6] [Citation(s) in RCA: 14] [Impact Index Per Article: 7.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/22/2022] [Accepted: 06/09/2022] [Indexed: 11/21/2022] Open
Abstract
System-wide metabolic homeostasis is crucial for maintaining physiological functions of living organisms. Stable-isotope tracing metabolomics allows to unravel metabolic activity quantitatively by measuring the isotopically labeled metabolites, but has been largely restricted by coverage. Delineating system-wide metabolic homeostasis at the whole-organism level remains challenging. Here, we develop a global isotope tracing metabolomics technology to measure labeled metabolites with a metabolome-wide coverage. Using Drosophila as an aging model organism, we probe the in vivo tracing kinetics with quantitative information on labeling patterns, extents and rates on a metabolome-wide scale. We curate a system-wide metabolic network to characterize metabolic homeostasis and disclose a system-wide loss of metabolic coordinations that impacts both intra- and inter-tissue metabolic homeostasis significantly during Drosophila aging. Importantly, we reveal an unappreciated metabolic diversion from glycolysis to serine metabolism and purine metabolism as Drosophila aging. The developed technology facilitates a system-level understanding of metabolic regulation in living organisms.
Collapse
Affiliation(s)
- Ruohong Wang
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China
- University of Chinese Academy of Sciences, 100049, Beijing, People's Republic of China
| | - Yandong Yin
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China
| | - Jingshu Li
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China
- University of Chinese Academy of Sciences, 100049, Beijing, People's Republic of China
| | - Hongmiao Wang
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China
- University of Chinese Academy of Sciences, 100049, Beijing, People's Republic of China
| | - Wanting Lv
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China
- University of Chinese Academy of Sciences, 100049, Beijing, People's Republic of China
| | - Yang Gao
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China
- University of Chinese Academy of Sciences, 100049, Beijing, People's Republic of China
| | - Tangci Wang
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China
| | - Yedan Zhong
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China
| | - Zhiwei Zhou
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China
| | - Yuping Cai
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China
| | - Xiaoyang Su
- Metabolomics Shared Resource, Rutgers Cancer Institute of New Jersey, Rutgers University, New Brunswick, NJ, 08901, USA
- Division of Endocrinology, Department of Medicine, Robert Wood Johnson Medical School, Rutgers University, New Brunswick, NJ, 08901, USA
| | - Nan Liu
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China.
| | - Zheng-Jiang Zhu
- Interdisciplinary Research Center on Biology and Chemistry, Shanghai Institute of Organic Chemistry, Chinese Academy of Sciences, 200032, Shanghai, People's Republic of China.
| |
Collapse
|
2
|
Ma Z, Wang H, Cai Y, Wang H, Niu K, Wu X, Ma H, Yang Y, Tong W, Liu F, Liu Z, Zhang Y, Liu R, Zhu ZJ, Liu N. Epigenetic drift of H3K27me3 in aging links glycolysis to healthy longevity in Drosophila. eLife 2018; 7:e35368. [PMID: 29809154 PMCID: PMC5991832 DOI: 10.7554/elife.35368] [Citation(s) in RCA: 86] [Impact Index Per Article: 14.3] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2018] [Accepted: 04/23/2018] [Indexed: 12/17/2022] Open
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.
Collapse
Affiliation(s)
- Zaijun Ma
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
- University of Chinese Academy of SciencesBeijingChina
| | - Hui Wang
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
- University of Chinese Academy of SciencesBeijingChina
| | - Yuping Cai
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
- University of Chinese Academy of SciencesBeijingChina
| | - Han Wang
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
- University of Chinese Academy of SciencesBeijingChina
| | - Kongyan Niu
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
| | - Xiaofen Wu
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
- University of Chinese Academy of SciencesBeijingChina
| | - Huanhuan Ma
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
- University of Chinese Academy of SciencesBeijingChina
| | - Yun Yang
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
- University of Chinese Academy of SciencesBeijingChina
| | - Wenhua Tong
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
| | - Feng Liu
- National Research Center for Translational MedicineState Key Laboratory of Medical Genomics, Rui-Jin Hospital, Shanghai Jiao Tong University School of MedicineShanghaiChina
| | - Zhandong Liu
- Jan and Dan Duncan Neurological Research InstituteTexas Children’s HospitalTexasUnited States
- Department of PediatricsBaylor College of MedicineHoustonUnited States
- Computational and Integrative Biomedical Research CenterBaylor College of MedicineHoustonUnited States
| | - Yaoyang Zhang
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
| | - Rui Liu
- Singlera GenomicsPudong, ShanghaiChina
| | - Zheng-Jiang Zhu
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
| | - Nan Liu
- Interdisciplinary Research Center on Biology and ChemistryShanghai Institute of Organic ChemistryPudongChina
| |
Collapse
|