ArticleMolecular systems biology2017
Genomewide landscape of gene-metabolome associations in Escherichia coli.
Article in Molecular systems biology, 2017. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 65 papers, 1 of them a synthesis that pooled it.
What it found
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The abstract states no effect estimate the extractor could read, or names no intervention and outcome on the map, so this paper lights no cell and moves no belief. It is still indexed, cited and linked below.
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Who cites it
65 citing papers in PubMed, 1 synthesis or guideline pooled it, 124 citations in OpenAlex.
- A multimodal atlas of tumour metabolism reveals the architecture of gene-metabolite covariation.Nature metabolism · 2023Pooled it
- A Robust Isotope Ratio LC-MS/MS Workflow for High-Throughput Metabolic Profiling of Bacteria.Analytical chemistry · 2026Article
- Fluoroquinolone-Induced Metabolic Dysregulation and Oxidative Stress Orchestrate Bacterial Demise.Microorganisms · 2026Article
- A comprehensive review of cluster methods for drug-drug interaction network.Quantitative biology (Beijing, China) · 2026Review
- Microbial genetic composition regulates host social behavior.Gut microbes · 2025Article
- Computational approaches to enzymatic reaction assignment: a review of methods, validations, and future directions.Briefings in bioinformatics · 2025Review
- Patient-derived cornea organoid model to study metabolomic characterization of rare disease: aniridia-associated keratopathy.BMC ophthalmology · 2025Article
- AI-empowered perturbation proteomics for complex biological systems.Cell genomics · 2024Article
- The Y-ome Conundrum: Insights into Uncharacterized Genes and Approaches for Functional Annotation.Molecular and cellular biochemistry · 2024Review
- The metabolic domestication syndrome of budding yeast.Proceedings of the National Academy of Sciences of the United States of America · 2024Article
- SAND: Automated Time-Domain Modeling of NMR Spectra Applied to Metabolite Quantification.Analytical chemistry · 2024Article
- Gene-metabolite annotation with shortest reactional distance enhances metabolite genome-wide association studies results.iScience · 2023Article
- Trace impurities in sodium phosphate influences the physiological activity of Escherichia coli in M9 minimal medium.Scientific reports · 2023Article
- Mapping temperature-sensitive mutations at a genome scale to engineer growth switches in Escherichia coli.Molecular systems biology · 2023Article
- Local flux coordination and global gene expression regulation in metabolic modeling.Nature communications · 2023Article
- High-throughput functional genomics: A (myco)bacterial perspective.Molecular microbiology · 2023Review
- Optimal density of bacterial cells.PLoS computational biology · 2023Article
- Plant and microbial sciences as key drivers in the development of metabolomics research.Proceedings of the National Academy of Sciences of the United States of America · 2023Review
- Systematic analysis of in-source modifications of primary metabolites during flow-injection time-of-flight mass spectrometry.Analytical biochemistry · 2023Article
- Disrupting the ArcA Regulatory Network Amplifies the Fitness Cost of Tetracycline Resistance in Escherichia coli.mSystems · 2023Article
5 more citing papers are in PubMed but not listed here.
Corrections and comments
PubMed lists nothing against this paper. Absence here is not a guarantee, only a check that was made.
Authors and funding
5 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Metabolism is one of the best-understood cellular processes whose network topology of enzymatic reactions is determined by an organism's genome. The influence of genes on metabolite levels, however, remains largely unknown, particularly for the many genes encoding non-enzymatic proteins. Serendipitously, genomewide association studies explore the relationship between genetic variants and metabolite levels, but a comprehensive interaction network has remained elusive even for the simplest single-celled organisms. Here, we systematically mapped the association between > 3,800 single-gene deletions in the bacterium Escherichia coli and relative concentrations of > 7,000 intracellular metabolite ions. Beyond expected metabolic changes in the proximity to abolished enzyme activities, the association map reveals a largely unknown landscape of gene-metabolite interactions that are not represented in metabolic models. Therefore, the map provides a unique resource for assessing the genetic basis of metabolic changes and conversely hypothesizing metabolic consequences of genetic alterations. We illustrate this by predicting metabolism-related functions of 72 so far not annotated genes and by identifying key genes mediating the cellular response to environmental perturbations.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.