ArticleJournal of the Royal Society, Interface2014
A tractable genotype-phenotype map modelling the self-assembly of protein quaternary structure.
Article in Journal of the Royal Society, Interface, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 38 papers.
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Who cites it
38 citing papers in PubMed, 74 citations in OpenAlex.
- A simple model captures key characteristics of biological non-deterministic genotype-phenotype maps.PLoS computational biology · 2026Article
- Bounding phenotype transition probabilities via conditional complexity.Journal of the Royal Society, Interface · 2025Article
- Article
- Non-Poissonian Bursts in the Arrival of Phenotypic Variation Can Strongly Affect the Dynamics of Adaptation.Molecular biology and evolution · 2024Article
- Bias in the arrival of variation can dominate over natural selection in Richard Dawkins's biomorphs.PLoS computational biology · 2024Article
- The non-deterministic genotype-phenotype map of RNA secondary structure.Journal of the Royal Society, Interface · 2023Article
- Maximum mutational robustness in genotype-phenotype maps follows a self-similar blancmange-like curve.Journal of the Royal Society, Interface · 2023Article
- A shark-inspired general model of tooth morphogenesis unveils developmental asymmetries in phenotype transitions.Proceedings of the National Academy of Sciences of the United States of America · 2023Article
- Genotype-phenotype mapping with polyominos made from DNA origami tiles.Biophysical journal · 2022Article
- Predicting phenotype transition probabilities via conditional algorithmic probability approximations.Journal of the Royal Society, Interface · 2022Article
- The structure of genotype-phenotype maps makes fitness landscapes navigable.Nature ecology & evolution · 2022Article
- Symmetry and simplicity spontaneously emerge from the algorithmic nature of evolution.Proceedings of the National Academy of Sciences of the United States of America · 2022Article
- Phenotype Bias Determines How Natural RNA Structures Occupy the Morphospace of All Possible Shapes.Molecular biology and evolution · 2022Article
- Gene duplication and subsequent diversification strongly affect phenotypic evolvability and robustness.Royal Society open science · 2021Article
- On the evolution and development of morphological complexity: A view from gene regulatory networks.PLoS computational biology · 2021Article
- Neutral components show a hierarchical community structure in the genotype-phenotype map of RNA secondary structure.Journal of the Royal Society, Interface · 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
- Model genotype-phenotype mappings and the algorithmic structure of evolution.Journal of the Royal Society, Interface · 2019Article
- Biophysics and population size constrains speciation in an evolutionary model of developmental system drift.PLoS computational biology · 2019Article
- Evolution of interface binding strengths in simplified model of protein quaternary structure.PLoS computational biology · 2019Article
Corrections and comments
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Authors and funding
4 authors at 3 institutions in 1 country.
Funding
Abstract
The mapping between biological genotypes and phenotypes is central to the study of biological evolution. Here, we introduce a rich, intuitive and biologically realistic genotype-phenotype (GP) map that serves as a model of self-assembling biological structures, such as protein complexes, and remains computationally and analytically tractable. Our GP map arises naturally from the self-assembly of polyomino structures on a two-dimensional lattice and exhibits a number of properties: redundancy (genotypes vastly outnumber phenotypes), phenotype bias (genotypic redundancy varies greatly between phenotypes), genotype component disconnectivity (phenotypes consist of disconnected mutational networks) and shape space covering (most phenotypes can be reached in a small number of mutations). We also show that the mutational robustness of phenotypes scales very roughly logarithmically with phenotype redundancy and is positively correlated with phenotypic evolvability. Although our GP map describes the assembly of disconnected objects, it shares many properties with other popular GP maps for connected units, such as models for RNA secondary structure or the hydrophobic-polar (HP) lattice model for protein tertiary structure. The remarkable fact that these important properties similarly emerge from such different models suggests the possibility that universal features underlie a much wider class of biologically realistic GP maps.
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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.