ArticleBMC genomics2013
Growth rate-coordinated transcriptome reorganization in bacteria.
Article in BMC genomics, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed, 49 citations in OpenAlex.
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- Laboratory Evolution of Antimicrobial Resistance in Bacteria to Develop Rational Treatment Strategies.Antibiotics (Basel, Switzerland) · 2024Review
- Thermal acclimation of methanotrophs from the genus Methylobacter.The ISME journal · 2023Article
- Plasticity and Stereotypic Rewiring of the Transcriptome Upon Bacterial Evolution of Antibiotic Resistance.Molecular biology and evolution · 2023Article
- Growth rate-associated transcriptome reorganization in response to genomic, environmental, and evolutionary interruptions.Frontiers in microbiology · 2023Article
- Selection in a growing colony biases results of mutation accumulation experiments.Scientific reports · 2022Article
- 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
- Predicting the decision making chemicals used for bacterial growth.Scientific reports · 2019Article
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- Gene Expression Order Attributed to Genome Reduction and the Steady Cellular State inFrontiers in microbiology · 2018Article
- Adaptive Mutations in RNA Polymerase and the Transcriptional Terminator Rho Have Similar Effects on Escherichia coli Gene Expression.Molecular biology and evolution · 2017Article
- Precise, High-throughput Analysis of Bacterial Growth.Journal of visualized experiments : JoVE · 2017Article
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Corrections and comments
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Authors and funding
5 authors at 2 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
backgroundCell growth rate reflects an organism's physiological state and largely relies on the ability of gene expression to respond to the environment. The relationship between cellular growth rate and gene expression remains unknown.
resultsGrowth rate-coordinated changes in gene expression were discovered by analyzing exponentially growing Escherichia coli cells cultured under multiple defined environments, in which osmotic pressure, temperature and starvation status were varied. Gene expression analyses showed that all 3,740 genes in the genome could be simply divided into three clusters (C1, C2 and C3), which were accompanied by a generic trend in the growth rate that was coordinated with transcriptional changes. The direction of transcriptional change in C1 indicated environmental specificity, whereas those in C2 and C3 were correlated negatively and positively with growth rates, respectively. The three clusters exhibited differentiated gene functions and gene regulation task division.
conclusionsWe identified three gene clusters, exhibiting differential gene functions and distinct directions in their correlations with growth rates. Reverses in the direction of the growth rate correlated transcriptional changes and the distinguished duties of the three clusters indicated how transcriptome homeostasis is maintained to balance the total expression cost for sustaining life in new habitats.
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