ArticleMolecular systems biology2010
Metabolomic and transcriptomic stress response of Escherichia coli.
Article in Molecular systems biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 245 papers.
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Who cites it
245 citing papers in PubMed, 509 citations in OpenAlex.
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- The molecular basis of the synergistic toxicity of nickel and copper, common environmental co-contaminants.Applied and environmental microbiology · 2025Article
- Examining saliva proteomic dynamics in mitochondrial diseases from a perspective of intrinsic health.Scientific reports · 2025Article
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- Comparative transcriptomic analysis of perfluoroalkyl substances-induced responses of exponential and stationary phase Escherichia coli.BMC genomics · 2025Article
- Adjustments of plant primary metabolism in the face of climate change.Journal of experimental botany · 2025Review
- Sulfoquinovose Catabolism inInternational journal of molecular sciences · 2025Article
- Transcriptome Analysis and Its Application in Screening Genes Related to the Growth and Development ofJournal of fungi (Basel, Switzerland) · 2025Article
- Metabolic interplay drives population cycles in a cross-feeding microbial community.Nature communications · 2025Article
- RecA Inhibitor Mitigates Bacterial Antibiotic Resistance.Microorganisms · 2025Article
185 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
8 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Environmental fluctuations lead to a rapid adjustment of the physiology of Escherichia coli, necessitating changes on every level of the underlying cellular and molecular network. Thus far, the majority of global analyses of E. coli stress responses have been limited to just one level, gene expression. Here, we incorporate the metabolite composition together with gene expression data to provide a more comprehensive insight on system level stress adjustments by describing detailed time-resolved E. coli response to five different perturbations (cold, heat, oxidative stress, lactose diauxie, and stationary phase). The metabolite response is more specific as compared with the general response observed on the transcript level and is reflected by much higher specificity during the early stress adaptation phase and when comparing the stationary phase response to other perturbations. Despite these differences, the response on both levels still follows the same dynamics and general strategy of energy conservation as reflected by rapid decrease of central carbon metabolism intermediates coinciding with downregulation of genes related to cell growth. Application of co-clustering and canonical correlation analysis on combined metabolite and transcript data identified a number of significant condition-dependent associations between metabolites and transcripts. The results confirm and extend existing models about co-regulation between gene expression and metabolites demonstrating the power of integrated systems oriented analysis.
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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.