ArticleProceedings of the National Academy of Sciences of the United States of America2011
Dispensability of Escherichia coli's latent pathways.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2011. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 17 papers.
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Who cites it
17 citing papers in PubMed.
- Extreme Antagonism Arising from Gene-Environment Interactions.Biophysical journal · 2020Article
- Effects of ordered mutations on dynamics in signaling networks.BMC medical genomics · 2020Article
- How adaptive evolution reshapes metabolism to improve fitness: recent advances and future outlook.Current opinion in chemical engineering · 2018Article
- Antagonistic Phenomena in Network Dynamics.Annual review of condensed matter physics · 2018Article
- Experimental evolution of diverse Escherichia coli metabolic mutants identifies genetic loci for convergent adaptation of growth rate.PLoS genetics · 2018Article
- Dissecting the genetic and metabolic mechanisms of adaptation to the knockout of a major metabolic enzyme inProceedings of the National Academy of Sciences of the United States of America · 2018Article
- redGEM: Systematic reduction and analysis of genome-scale metabolic reconstructions for development of consistent core metabolic models.PLoS computational biology · 2017Article
- A simple strategy guides the complex metabolic regulation in Escherichia coli.Scientific reports · 2016Article
- Metabolic Adaptation Processes That Converge to Optimal Biomass Flux Distributions.PLoS computational biology · 2015Article
- Sub-optimal phenotypes of double-knockout mutants of Escherichia coli depend on the order of gene deletions.Integrative biology : quantitative biosciences from nano to macro · 2015Article
- Navigable networks as Nash equilibria of navigation games.Nature communications · 2015Article
- Patterns of metabolite changes identified from large-scale gene perturbations in Arabidopsis using a genome-scale metabolic network.Plant physiology · 2015Article
- Metabolic flux analysis of Escherichia coli knockouts: lessons from the Keio collection and future outlook.Current opinion in biotechnology · 2014Review
- Partial inhibition and bilevel optimization in flux balance analysis.BMC bioinformatics · 2013Article
- Realistic control of network dynamics.Nature communications · 2013Article
- An in silico platform for the design of heterologous pathways in nonnative metabolite production.BMC bioinformatics · 2012Article
- Parts plus pipes: synthetic biology approaches to metabolic engineering.Metabolic engineering · 2012Review
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3 authors.
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Abstract
Gene-knockout experiments on single-cell organisms have established that expression of a substantial fraction of genes is not needed for optimal growth. This problem acquired a new dimension with the recent discovery that environmental and genetic perturbations of the bacterium Escherichia coli are followed by the temporary activation of a large number of latent metabolic pathways, which suggests the hypothesis that temporarily activated reactions impact growth and hence facilitate adaptation in the presence of perturbations. Here, we test this hypothesis computationally and find, surprisingly, that the availability of latent pathways consistently offers no growth advantage and tends, in fact, to inhibit growth after genetic perturbations. This is shown to be true even for latent pathways with a known function in alternate conditions, thus extending the significance of this adverse effect beyond apparently nonessential genes. These findings raise the possibility that latent pathway activation is in fact derivative of another, potentially suboptimal, adaptive response.
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