ArticleBMC genomics2015
Bacterial transcriptome reorganization in thermal adaptive evolution.
Article in BMC genomics, 2015. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 22 papers.
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Who cites it
22 citing papers in PubMed.
- Toward a systems metabolic engineering approach to improve thermotolerance of Escherichia coli.Microbial cell factories · 2026Review
- Enhancing the heat tolerance of homolactic Escherichia coli through reverse metabolic engineering.Applied microbiology and biotechnology · 2026Article
- Acquired Radioresistance Through Adaptive Evolution with Gamma Radiation as Selection Pressure: Increased Expression and Induction of Anti-Stress Genes.International journal of molecular sciences · 2025Article
- Thermally adapted Escherichia coli keeps transcriptomic response during temperature upshift exposure.Applied microbiology and biotechnology · 2025Article
- Development of specialized devices for microbial experimental evolution.Development, growth & differentiation · 2024Review
- Experimental Evolution in a Warming World: The Omics Era.Molecular biology and evolution · 2024Review
- Response and adaptation of the transcriptional heat shock response to pressure.Frontiers in microbiology · 2024Article
- Growth rate-associated transcriptome reorganization in response to genomic, environmental, and evolutionary interruptions.Frontiers in microbiology · 2023Article
- Machine learning-assisted medium optimization revealed the discriminated strategies for improved production of the foreign and native metabolites.Computational and structural biotechnology journal · 2023Article
- Evidence for evolutionary adaptation of mixotrophic nanoflagellates to warmer temperatures.Global change biology · 2022Article
- Nutritional and Volatile Characterisation of Milk Inoculated with Thermo-TolerantFoods (Basel, Switzerland) · 2021Article
- Elucidation of the Pathogenicity-Associated Regulatory Network in Xanthomonas oryzae pv. oryzae.mSystems · 2021Article
- The Transcriptomic and Bioinformatic Characterizations of Iron Acquisition and Heme Utilization inFrontiers in microbiology · 2021Article
- Correlated chromosomal periodicities according to the growth rate and gene expression.Scientific reports · 2020Article
- The highly conserved chromosomal periodicity of transcriptomes and the correlation of its amplitude with the growth rate in Escherichia coli.DNA research : an international journal for rapid publication of reports on genes and genomes · 2020Article
- Understanding metabolic adaptation by using bacterial laboratory evolution and trans-omics analysis.Biophysical reviews · 2020Review
- Regeneration ofLife (Basel, Switzerland) · 2019Article
- Adaptive laboratory evolution of a genome-reduced Escherichia coli.Nature communications · 2019Article
- Gene Expression Order Attributed to Genome Reduction and the Steady Cellular State inFrontiers in microbiology · 2018Article
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Authors and funding
8 authors.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundEvolution optimizes a living system at both the genome and transcriptome levels. Few studies have investigated transcriptome evolution, whereas many studies have explored genome evolution in experimentally evolved cells. However, a comprehensive understanding of evolutionary mechanisms requires knowledge of how evolution shapes gene expression. Here, we analyzed Escherichia coli strains acquired during long-term thermal adaptive evolution.
resultsEvolved and ancestor Escherichia coli cells were exponentially grown under normal and high temperatures for subsequent transcriptome analysis. We found that both the ancestor and evolved cells had comparable magnitudes of transcriptional change in response to heat shock, although the evolutionary progression of their expression patterns during exponential growth was different at either normal or high temperatures. We also identified inverse transcriptional changes that were mediated by differences in growth temperatures and genotypes, as well as negative epistasis between genotype-and heat shock-induced transcriptional changes. Principal component analysis revealed that transcriptome evolution neither approached the responsive state at the high temperature nor returned to the steady state at the regular temperature. We propose that the molecular mechanisms of thermal adaptive evolution involve the optimization of steady-state transcriptomes at high temperatures without disturbing the heat shock response.
conclusionsOur results suggest that transcriptome evolution works to maintain steady-state gene expression during constrained differentiation at various evolutionary stages, while also maintaining responsiveness to environmental stimuli and transcriptome homeostasis.
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