ArticleMolecular systems biology2016
Translation elicits a growth rate-dependent, genome-wide, differential protein production in Bacillus subtilis.
Article in Molecular systems biology, 2016. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
What it found
Each row is one number read from the abstract, on the scale the paper reported it, with its interval. Left of the dashed line favours the treatment, right favours the comparator. Under each row is the sentence it came from. New to these charts? A ten-minute tutorial.
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.
The trial behind it
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.
Neither the registry nor the abstract names a trial number. If this is a trial report, that itself is worth knowing.
Who cites it
34 citing papers in PubMed.
- Valorization of tofu-processing wastewater for sustainable nattokinase production: insights from integrated multi-omics analysis.World journal of microbiology & biotechnology · 2026Article
- Resolving emergent transient oscillations in gene circuits with a growth-coupled model.Science advances · 2026Article
- A Multi-Omics, Machine Learning-Aware, Genome-Wide Metabolic Model of Bacillus Subtilis Refines the Gene Expression and Cell Growth Prediction.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2024Article
- Metabolic Profile of the Genome-ReducedACS synthetic biology · 2024Article
- Regulation of biofilm gene expression by DNA replication in Bacillus subtilis.Journal of cellular and molecular medicine · 2024Article
- Greedy reduction of Bacillus subtilis genome yields emergent phenotypes of high resistance to a DNA damaging agent and low evolvability.Nucleic acids research · 2023Article
- Growth rate is modulated by monitoring cell wall precursors in Bacillus subtilis.Nature microbiology · 2023Article
- Cis-Element Engineering Promotes the Expression ofInternational journal of molecular sciences · 2022Article
- Gene regulation by a protein translation factor at the single-cell level.PLoS computational biology · 2022Article
- Control of ribosome synthesis in bacteria: the important role of rRNA chain elongation rate.Science China. Life sciences · 2021Article
- Global coordination of metabolic pathways in Escherichia coli by active and passive regulation.Molecular systems biology · 2021Article
- Mismatch-CRISPRi Reveals the Co-varying Expression-Fitness Relationships of Essential Genes in Escherichia coli and Bacillus subtilis.Cell systems · 2020Article
- The protein translation machinery is expressed for maximal efficiency in Escherichia coli.Nature communications · 2020Article
- Extrinsic noise prevents the independent tuning of gene expression noise and protein mean abundance in bacteria.Science advances · 2020Article
- A bacterial size law revealed by a coarse-grained model of cell physiology.PLoS computational biology · 2020Article
- Assessment of transcriptomic constraint-based methods for central carbon flux inference.PloS one · 2020Article
- Limits to a classic paradigm: most transcription factors in E. coli regulate genes involved in multiple biological processes.Nucleic acids research · 2019Article
- Promoter engineering enables overproduction of foreign proteins from a single copy expression cassette in Bacillus subtilis.Microbial cell factories · 2019Article
- The Combined Effect of Cold and Copper Stresses on the Proliferation and Transcriptional Response ofFrontiers in microbiology · 2019Article
- Drug persistence - from antibiotics to cancer therapies.Current opinion in systems biology · 2018Article
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
No grant is acknowledged in the PubMed record.
Abstract
Complex regulatory programs control cell adaptation to environmental changes by setting condition-specific proteomes. In balanced growth, bacterial protein abundances depend on the dilution rate, transcript abundances and transcript-specific translation efficiencies. We revisited the current theory claiming the invariance of bacterial translation efficiency. By integrating genome-wide transcriptome datasets and datasets from a library of synthetic gfp-reporter fusions, we demonstrated that translation efficiencies in Bacillus subtilis decreased up to fourfold from slow to fast growth. The translation initiation regions elicited a growth rate-dependent, differential production of proteins without regulators, hence revealing a unique, hard-coded, growth rate-dependent mode of regulation. We combined model-based data analyses of transcript and protein abundances genome-wide and revealed that this global regulation is extensively used in B. subtilis We eventually developed a knowledge-based, three-step translation initiation model, experimentally challenged the model predictions and proposed that a growth rate-dependent drop in free ribosome abundance accounted for the differential protein production.
Indexed as
Identifiers
What OpenQuestion holds
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.