ArticlePLoS computational biology2013
Constraint and contingency in multifunctional gene regulatory circuits.
Article in PLoS computational biology, 2013. 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.
- Article
- Frustration can Limit the Adaptation of Promiscuous Enzymes Through Gene Duplication and Specialisation.Journal of molecular evolution · 2024Article
- Maximum mutational robustness in genotype-phenotype maps follows a self-similar blancmange-like curve.Journal of the Royal Society, Interface · 2023Article
- Robustness and innovation in synthetic genotype networks.Nature communications · 2023Article
- On the evolution and development of morphological complexity: A view from gene regulatory networks.PLoS computational biology · 2021Article
- Emergence of co-expression in gene regulatory networks.PloS one · 2021Article
- Control for multifunctionality: bioinspired control based on feeding in Aplysia californica.Biological cybernetics · 2020Article
- Using small samples to estimate neutral component size and robustness in the genotype-phenotype map of RNA secondary structure.Journal of the Royal Society, Interface · 2020Article
- The architecture of an empirical genotype-phenotype map.Evolution; international journal of organic evolution · 2018Article
- Structural properties of genotype-phenotype maps.Journal of the Royal Society, Interface · 2017Review
- A spectrum of modularity in multi-functional gene circuits.Molecular systems biology · 2017Article
- Approaches to Macroevolution: 1. General Concepts and Origin of Variation.Evolutionary biology · 2017Article
- Noncommutative Biology: Sequential Regulation of Complex Networks.PLoS computational biology · 2016Article
- Genonets server-a web server for the construction, analysis and visualization of genotype networks.Nucleic acids research · 2016Article
- Boolean Models of Biological Processes Explain Cascade-Like Behavior.Scientific reports · 2016Article
- Genome-Wide Detection and Analysis of Multifunctional Genes.PLoS computational biology · 2015Article
- Function does not follow form in gene regulatory circuits.Scientific reports · 2015Article
- Article
- A Boolean gene regulatory model of heterosis and speciation.BMC evolutionary biology · 2015Article
- Phenotypic robustness and the assortativity signature of human transcription factor networks.PLoS computational biology · 2014Article
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2 authors.
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Abstract
Gene regulatory circuits drive the development, physiology, and behavior of organisms from bacteria to humans. The phenotypes or functions of such circuits are embodied in the gene expression patterns they form. Regulatory circuits are typically multifunctional, forming distinct gene expression patterns in different embryonic stages, tissues, or physiological states. Any one circuit with a single function can be realized by many different regulatory genotypes. Multifunctionality presumably constrains this number, but we do not know to what extent. We here exhaustively characterize a genotype space harboring millions of model regulatory circuits and all their possible functions. As a circuit's number of functions increases, the number of genotypes with a given number of functions decreases exponentially but can remain very large for a modest number of functions. However, the sets of circuits that can form any one set of functions becomes increasingly fragmented. As a result, historical contingency becomes widespread in circuits with many functions. Whether a circuit can acquire an additional function in the course of its evolution becomes increasingly dependent on the function it already has. Circuits with many functions also become increasingly brittle and sensitive to mutation. These observations are generic properties of a broad class of circuits and independent of any one circuit genotype or phenotype.
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