ArticleThe Journal of biological chemistry2010
Metabolic and transcriptional response to cofactor perturbations in Escherichia coli.
Article in The Journal of biological chemistry, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 60 papers.
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Who cites it
60 citing papers in PubMed, 142 citations in OpenAlex.
- Revealing transcriptomic responses inmSystems · 2026Article
- IGM: Integrated Gene-expression Modeling for multi-condition flux-preserving genome-scale metabolic models.PloS one · 2026Article
- FScientific reports · 2025Article
- Bioenergetic stress potentiates antimicrobial resistance and persistence.Nature communications · 2025Article
- Engineering an Overflow-Responsive Regulation System for Balancing Cellular Redox and Optimizing Microbial Production.Biotechnology and bioengineering · 2025Article
- Controlled burn: interconnections between energy-spilling pathways and metabolic signaling in bacteria.Journal of bacteriology · 2025Review
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- DegS regulates the aerobic metabolism ofFrontiers in cellular and infection microbiology · 2024Article
- Artificial Small Molecules as Cofactors and Biomacromolecular Building Blocks in Synthetic Biology: Design, Synthesis, Applications, and Challenges.Molecules (Basel, Switzerland) · 2023Review
- Characterizing and utilizing oxygen-dependent promoters for efficient dynamic metabolic engineering.Metabolic engineering · 2023Article
- Predicting metabolic fluxes from omics data via machine learning: Moving from knowledge-driven towards data-driven approaches.Computational and structural biotechnology journal · 2023Article
- Intercellular interaction mechanisms promote diversity in intracellular ATP concentration in Escherichia coli populations.Scientific reports · 2022Article
- Impaired glucose metabolism by deleting the operon of hydrogenase 2 in Escherichia coli.Archives of microbiology · 2022Article
- Engineering nonphotosynthetic carbon fixation for production of bioplastics by methanogenic archaea.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Extracellular electron transfer increases fermentation in lactic acid bacteria via a hybrid metabolism.eLife · 2022Article
- Exploitation of Hetero- and Phototrophic Metabolic Modules for Redox-Intensive Whole-Cell Biocatalysis.Frontiers in bioengineering and biotechnology · 2022Review
- Minimal Pathway for the Regeneration of Redox Cofactors.JACS Au · 2021Article
- Deciphering the physiological response of Escherichia coli under high ATP demand.Molecular systems biology · 2021Article
- Arresting chromosome replication upon energy starvation in Escherichia coli.Current genetics · 2021Review
- Exploring the associations between transcript levels and fluxes in constraint-based models of metabolism.BMC bioinformatics · 2021Article
Corrections and comments
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Authors and funding
7 authors at 4 institutions in 3 countries.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Metabolic cofactors such as NADH and ATP play important roles in a large number of cellular reactions, and it is of great interest to dissect the role of these cofactors in different aspects of metabolism. Toward this goal, we overexpressed NADH oxidase and the soluble F1-ATPase in Escherichia coli to lower the level of NADH and ATP, respectively. We used a global interaction network, comprising of protein interactions, transcriptional regulation, and metabolic networks, to integrate data from transcription profiles, metabolic fluxes, and the metabolite levels. We identified high-scoring networks for the two strains. The results revealed a smaller, but denser network for perturbations of ATP level, compared with that of NADH level. The action of many global transcription factors such as ArcA, Fnr, CRP, and IHF commonly involved both NADH and ATP, whereas others responded to either ATP or NADH. Overexpressing NADH oxidase invokes response in widespread aspects of metabolism involving the redox cofactors (NADH and NADPH), whereas ATPase has a more focused response to restore ATP level by enhancing proton translocation mechanisms and repressing biosynthesis. Interestingly, NADPH played a key role in restoring redox homeostasis through the concerted activity of isocitrate dehydrogenase and UdhA transhydrogenase. We present a reconciled network of regulation that illustrates the overlapping and distinct aspects of metabolism controlled by NADH and ATP. Our study contributes to the general understanding of redox and energy metabolism and should help in developing metabolic engineering strategies in E. coli.
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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.