ArticlePLoS computational biology2012
Interplay of gene expression noise and ultrasensitive dynamics affects bacterial operon organization.
Article in PLoS computational biology, 2012. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 15 papers.
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Who cites it
15 citing papers in PubMed, 31 citations in OpenAlex.
- Functional insights into the photoactive yellow protein family from homologs, multidomain proteins, and inferredJournal of bacteriology · 2026Review
- A new selective force driving metabolic gene clustering.mSystems · 2024Article
- Cross-evaluation of E. coli's operon structures via a whole-cell model suggests alternative cellular benefits for low- versus high-expressing operons.Cell systems · 2024Article
- The σB alternative sigma factor circuit modulates noise to generate different types of pulsing dynamics.PLoS computational biology · 2023Article
- A synthetic circuit for buffering gene dosage variation between individual mammalian cells.Nature communications · 2021Article
- Maximization of information transmission influences selection of native phosphorelay architectures.PeerJ · 2021Article
- Article
- Dynamical predictors of an imminent phenotypic switch in bacteria.Physical biology · 2017Article
- A plasmid-based Escherichia coli gene expression system with cell-to-cell variation below the extrinsic noise limit.PloS one · 2017Article
- To grow is not enough: impact of noise on cell environmental response and fitness.Integrative biology : quantitative biosciences from nano to macro · 2016Article
- Cellular Growth Arrest and Persistence from Enzyme Saturation.PLoS computational biology · 2016Article
- Coevolution of the Organization and Structure of Prokaryotic Genomes.Cold Spring Harbor perspectives in biology · 2016Review
- Article
- Impact of upstream and downstream constraints on a signaling module's ultrasensitivity.Physical biology · 2014Article
- Natural selection for operons depends on genome size.Genome biology and evolution · 2013Article
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Authors and funding
2 authors at 1 institution in 1 country.
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Abstract
Bacterial chromosomes are organized into polycistronic cotranscribed operons, but the evolutionary pressures maintaining them are unclear. We hypothesized that operons alter gene expression noise characteristics, resulting in selection for or against maintaining operons depending on network architecture. Mathematical models for 6 functional classes of network modules showed that three classes exhibited decreased noise and 3 exhibited increased noise with same-operon cotranscription of interacting proteins. Noise reduction was often associated with a decreased chance of reaching an ultrasensitive threshold. Stochastic simulations of the lac operon demonstrated that the predicted effects of transcriptional coupling hold for a complex network module. We employed bioinformatic analysis to find overrepresentation of noise-minimizing operon organization compared with randomized controls. Among constitutively expressed physically interacting protein pairs, higher coupling frequencies appeared at lower expression levels, where noise effects are expected to be dominant. Our results thereby suggest an important role for gene expression noise, in many cases interacting with an ultrasensitive switch, in maintaining or selecting for operons in bacterial chromosomes.
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