ArticleCell systems2016
Multi-omics Quantification of Species Variation of Escherichia coli Links Molecular Features with Strain Phenotypes.
Article in Cell systems, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 82 papers.
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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Trials whose registry record cites this paper, or whose number appears in the abstract. A trial that started after this paper was published is citing it as background, not reporting it.
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Who cites it
82 citing papers in PubMed.
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- On the conditions for shifts in metabolic strategies.PLoS computational biology · 2026Review
- Enumeration of Autocatalytic Subsystems in Large Chemical Reaction Networks.Journal of chemical theory and computation · 2026Article
- Incorporation of Cryptic Plasmid Energetics Improves Genome-Scale Metabolic Predictions in Probiotic E. coli Nissle 1917.Microbial biotechnology · 2026Article
- Multiplexed CRISPR base editing enables pulse-activated irreversible biocontainment of engineered bacteria.Nucleic acids research · 2026Article
- Prevalence and activity of class II microcins inApplied and environmental microbiology · 2026Article
- Screening and Evaluation of Chassis Cells for Heterologous Biosynthesis of Gas Vesicles as Ultrasound Contrast Agents.Marine drugs · 2026Article
- Hybrid metabolic engineering enables xylose-driven co-production of polyhydroxybutyrate and violacein in Escherichia coli.Journal of biological engineering · 2026Article
- COBRA-k: A powerful framework bridging constraint-based and kinetic metabolic modeling.Science advances · 2026Article
- Host-dependent effects ofFrontiers in microbiology · 2026Article
- Multiobjective Design of Growth Media with Genome-Scale Metabolic Models and Bayesian Optimization.Computational and structural biotechnology journal · 2026Article
- Genome-scale Metabolic Modeling Guided Escherichia coli Engineering for De Novo Biosynthesis of Chrysanthemic Acid.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- From Single Organisms to Communities: Modeling Methanotrophs and Their Satellites.Microorganisms · 2025Review
- PMkbase (version 1.0): an interactive web-based tool for tracking bacterial metabolic traits using phenotype microarrays made interoperable with sequence information and visualizing/processing PM data.Microbiology spectrum · 2025Article
- Overflow metabolism in bacterial, yeast, and mammalian cells: different names, same game.Molecular systems biology · 2025Review
- How Klebsiella pneumoniae controls its virulence.PLoS pathogens · 2025Review
- Bacterial strain type and TEM-1 enzyme allele impact antibiotic susceptibility distribution in monoclonal populations: a single-cell droplet approach.Royal Society open science · 2025Article
- In Vivo Ribosome-Amplified MetaBOlism, RAMBO, Effect Observed by Real Time Pulse Chase, RTPC, NMR Spectroscopy.Biochemistry · 2025Article
22 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.
Funding
Abstract
Escherichia coli strains are widely used in academic research and biotechnology. New technologies for quantifying strain-specific differences and their underlying contributing factors promise greater understanding of how these differences significantly impact physiology, synthetic biology, metabolic engineering, and process design. Here, we quantified strain-specific differences in seven widely used strains of E. coli (BL21, C, Crooks, DH5a, K-12 MG1655, K-12 W3110, and W) using genomics, phenomics, transcriptomics, and genome-scale modeling. Metabolic physiology and gene expression varied widely with downstream implications for productivity, product yield, and titer. These differences could be linked to differential regulatory structure. Analyzing high-flux reactions and expression of encoding genes resulted in a correlated and quantitative link between these sets, with strain-specific caveats. Integrated modeling revealed that certain strains are better suited to produce given compounds or express desired constructs considering native expression states of pathways that enable high-production phenotypes. This study yields a framework for quantitatively comparing strains in a species with implications for strain selection.
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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.