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A metabolic regulatory network for the intestine

Bhattacharya, Sushila
Horowitz, Brent B
Zhang, Jingyan
Li, Xuhang
Zhang, Hefei
Giese, Gabrielle E
Holdorf, Amy D
Walhout, Albertha J M
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Abstract

Metabolic perturbations can affect gene expression, for instance to rewire metabolism. While numerous efforts have measured gene expression in response to individual metabolic perturbations, methods that determine all metabolic perturbations that affect the expression for a given gene or set of genes have not been available. Here, we use a gene-centered approach to derive a first-pass metabolic regulatory network for Caenorhabditis elegans by performing RNAi of more than 1,400 metabolic genes with a set of 19 promoter reporter strains that express a fluorescent protein in the animal's intestine. We find that metabolic perturbations generally increase promoter activity, which contrasts with transcription factor (TF) RNAi, which tends to repress promoter activity. We identify several TFs that modulate promoter activity in response to perturbations of the electron transport chain and explore complex genetic interactions among metabolic pathways. This work provides a blueprint for a systems-level understanding of how metabolism affects gene expression.

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Bhattacharya S, Horowitz BB, Zhang J, Li X, Zhang H, Giese GE, Holdorf AD, Walhout AJM. A metabolic regulatory network for the Caenorhabditis elegans intestine. iScience. 2022 Jun 30;25(8):104688. doi: 10.1016/j.isci.2022.104688. PMID: 35847555; PMCID: PMC9283940.

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DOI
10.1016/j.isci.2022.104688
PubMed ID
35847555
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Copyright 2022 The Author(s). This is an open access article under the CC BY-NC-ND license (http://creativecommons.org/licenses/by-nc-nd/4.0/).Attribution-NonCommercial-NoDerivatives 4.0 International