Metabolism as a signal generator across trans-omic networks at distinct time scales. Issue 8 (April 2018)

• Record Type: Journal Article
• Authors: Yugi, Katsuyuki; Kuroda, Shinya
• Is Part Of: Current opinion in systems biology. Issue 8(2018)
• Page Start: 59
• Page End: 66
• Publication Date: 2018-04
• Subjects: Trans-omics -- Metabolite–protein interaction -- Time scale; Systems biology -- Periodicals; 570
• DOI: 10.1016/j.coisb.2017.12.002
• Languages: English
• ISSNs: 2452-3100

Abstract

Abstract: Metabolism not only involves outcomes of signal transduction, gene expression, and chromatin/DNA modification but also serves as a signal generator across omic layers. Metabolic signals emerge from interplay of biochemical interactions across different omic layers denoted the trans-omic network. Importantly, metabolic signals selectively use distinct time scales inherent to each omic layer and coordinately control cellular homeostasis. Recent advances in comprehensive measurement technologies allow identification of metabolism-centric trans-omic networks. Here we review the roles of metabolism as a generator of signals that circulates trans-omic network in distinct time scales, thereby maintaining cellular homeostasis in higher organisms. Graphical abstract: A circular trans-omic network with distinct time scales. Recent advances in the knowledge of metabolism have shown that the metabolic system is not only a downstream workhorse but also a signal generator in trans-omic networks. We coordinated trans-omic networks in a circular manner to equally present multiple signal-generating layers that orchestrate other omic layers working in their own time scales. Node colors represent the time scale of each omic layer (see color bar). Highlights: Metabolites work as signal generators across various omic layers such as signaling, transcription, and epigenome. Mechanistic connections of metabolites and other omic layers are revealed in large scales. The homeostasis of metabolism is realized by 'trans-omic' coordination of omic layers. One of the next goals of trans-omics is to reveal how omic layers are engaged across time scales.