ArticlePLoS computational biology2010
Evolution of gene regulatory networks by fluctuating selection and intrinsic constraints.
Article in PLoS computational biology, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 13 papers.
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Who cites it
13 citing papers in PubMed, 36 citations in OpenAlex.
- Transcription Factor Promiscuity Drives Regulatory Rewiring and Evolvability in Gene Networks in Bacteria.Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2026Article
- Transcription factor expression levels and environmental signals constrain transcription factor innovation.Microbiology (Reading, England) · 2023Article
- Early effects of gene duplication on the robustness and phenotypic variability of gene regulatory networks.BMC bioinformatics · 2022Article
- Co-expression network analysis of environmental canalization in the ascidian Ciona.BMC ecology and evolution · 2022Article
- Differences in evolutionary accessibility determine which equally effective regulatory motif evolves to generate pulses.Genetics · 2021Article
- Variation in Pleiotropic Hub Gene Expression Is Associated with Interspecific Differences in Head Shape and Eye Size in Drosophila.Molecular biology and evolution · 2021Article
- Feed-forward regulation adaptively evolves via dynamics rather than topology when there is intrinsic noise.Nature communications · 2019Article
- Evolution of evolvability and phenotypic plasticity in virtual cells.BMC evolutionary biology · 2017Article
- Neutral forces acting on intragenomic variability shape the Escherichia coli regulatory network topology.Proceedings of the National Academy of Sciences of the United States of America · 2013Article
- Genetic and environmental factors affecting cryptic variations in gene regulatory networks.BMC evolutionary biology · 2013Article
- Habitat variability correlates with duplicate content of Drosophila genomes.Molecular biology and evolution · 2012Article
- ncDNA and drift drive binding site accumulation.BMC evolutionary biology · 2012Article
- Bistability in feedback circuits as a byproduct of evolution of evolvability.Molecular systems biology · 2012Article
Corrections and comments
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Authors and funding
2 authors at 1 institution in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Various characteristics of complex gene regulatory networks (GRNs) have been discovered during the last decade, e.g., redundancy, exponential indegree distributions, scale-free outdegree distributions, mutational robustness, and evolvability. Although progress has been made in this field, it is not well understood whether these characteristics are the direct products of selection or those of other evolutionary forces such as mutational biases and biophysical constraints. To elucidate the causal factors that promoted the evolution of complex GRNs, we examined the effect of fluctuating environmental selection and some intrinsic constraining factors on GRN evolution by using an individual-based model. We found that the evolution of complex GRNs is remarkably promoted by fixation of beneficial gene duplications under unpredictably fluctuating environmental conditions and that some internal factors inherent in organisms, such as mutational bias, gene expression costs, and constraints on expression dynamics, are also important for the evolution of GRNs. The results indicate that various biological properties observed in GRNs could evolve as a result of not only adaptation to unpredictable environmental changes but also non-adaptive processes owing to the properties of the organisms themselves. Our study emphasizes that evolutionary models considering such intrinsic constraining factors should be used as null models to analyze the effect of selection on GRN evolution.
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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.