ArticleMolecular systems biology2023
Systems-level transcriptional regulation of Caenorhabditis elegans metabolism.
Article in Molecular systems biology, 2023. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed.
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- Worm Perturb-Seq: massively parallel whole-animal RNAi and RNA-seq.Nature communications · 2025Article
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- Worm Perturb-Seq: massively parallel whole-animal RNAi and RNA-seq.bioRxiv : the preprint server for biology · 2025Article
- Sweet pepper extract reduces fat storage inFood science & nutrition · 2024Article
- Robustness and variability inbioRxiv : the preprint server for biology · 2024Article
- Host-microbe interactions rewire metabolism in a C. elegans model of leucine breakdown deficiency.Nature metabolism · 2024Article
- Seasonal tissue-specific gene expression in wild crown-of-thorns starfish reveals reproductive and stress-related transcriptional systems.PLoS biology · 2024Article
- Enrichment on steps, not genes, improves inference of differentially expressed pathways.PLoS computational biology · 2024Article
- Spaceflight Induces Strength Decline inCells · 2023Article
- Transcriptional suppression of sphingolipid catabolism controls pathogen resistance in C. elegans.PLoS pathogens · 2023Article
- Integrated Analysis of Transcriptome and Metabolome Provides Insight intoInternational journal of molecular sciences · 2023Article
- Systems-level transcriptional regulation of Caenorhabditis elegans metabolism.Molecular systems biology · 2023Article
- A D-2-hydroxyglutarate dehydrogenase mutant reveals a critical role for ketone body metabolism in Caenorhabditis elegans development.PLoS biology · 2023Article
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Authors and funding
6 authors.
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Abstract
Metabolism is controlled to ensure organismal development and homeostasis. Several mechanisms regulate metabolism, including allosteric control and transcriptional regulation of metabolic enzymes and transporters. So far, metabolism regulation has mostly been described for individual genes and pathways, and the extent of transcriptional regulation of the entire metabolic network remains largely unknown. Here, we find that three-quarters of all metabolic genes are transcriptionally regulated in the nematode Caenorhabditis elegans. We find that many annotated metabolic pathways are coexpressed, and we use gene expression data and the iCEL1314 metabolic network model to define coregulated subpathways in an unbiased manner. Using a large gene expression compendium, we determine the conditions where subpathways exhibit strong coexpression. Finally, we develop "WormClust," a web application that enables a gene-by-gene query of genes to view their association with metabolic (sub)-pathways. Overall, this study sheds light on the ubiquity of transcriptional regulation of metabolism and provides a blueprint for similar studies in other organisms, including humans.
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