ArticlePLoS genetics2014
Epistatic adaptive evolution of human color vision.
Article in PLoS genetics, 2014. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 26 papers.
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Who cites it
26 citing papers in PubMed.
- An early-flowering nrpd1 mutant generated by stress-induced ONSEN mobilization.Journal of plant research · 2026Article
- Accessible and robust machine learning approaches to improve the opsin genotype-phenotype map.Molecular biology and evolution · 2026Article
- Genomic and phenotypic evidence support visual and olfactory shifts in primate evolution.Nature ecology & evolution · 2025Article
- The role of microRNAs in NBS-LRR gene expression and its implications for plant immunity and crop development.Transgenic research · 2024Review
- Discovering genotype-phenotype relationships with machine learning and the Visual Physiology Opsin Database (VPOD).GigaScience · 2024Article
- Repair of DNA double-strand breaks in plant meiosis: role of eukaryotic RecA recombinases and their modulators.Plant reproduction · 2023Review
- BPM1 regulates RdDM-mediated DNA methylation via a cullin 3 independent mechanism.Plant cell reports · 2022Article
- Molecular advances to study the function, evolution and spectral tuning of arthropod visual opsins.Philosophical transactions of the Royal Society of London. Series B, Biological sciences · 2022Review
- Intragenic compensation through the lens of deep mutational scanning.Biophysical reviews · 2022Review
- What colour are your eyes? Teaching the genetics of eye colour & colour vision. Edridge Green Lecture RCOphth Annual Congress Glasgow May 2019.Eye (London, England) · 2022Review
- Article
- The Chemosensory Repertoire of the Eastern Diamondback Rattlesnake (Crotalus adamanteus) Reveals Complementary Genetics of Olfactory and Vomeronasal-Type Receptors.Journal of molecular evolution · 2021Article
- Selection, drift, and constraint in cypridinid luciferases and the diversification of bioluminescent signals in sea fireflies.Molecular ecology · 2021Article
- The evolution of red color vision is linked to coordinated rhodopsin tuning in lycaenid butterflies.Proceedings of the National Academy of Sciences of the United States of America · 2021Article
- Color for the perceptual organization of the pictorial plane: Victor Vasarely's legacy to Gestalt psychology.Heliyon · 2020Article
- Comparison of Alicyclobacillus acidocaldarius o-Succinylbenzoate Synthase to Its Promiscuous N-Succinylamino Acid Racemase/ o-Succinylbenzoate Synthase Relatives.Biochemistry · 2018Article
- Convergent evolution of tertiary structure in rhodopsin visual proteins from vertebrates and box jellyfish.Proceedings of the National Academy of Sciences of the United States of America · 2018Article
- Human Blue Cone Opsin Regeneration Involves Secondary Retinal Binding with Analog Specificity.Biophysical journal · 2018Article
- Epistatic interactions influence terrestrial-marine functional shifts in cetacean rhodopsin.Proceedings. Biological sciences · 2017Article
- How mutational epistasis impairs predictability in protein evolution and design.Protein science : a publication of the Protein Society · 2016Article
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Authors and funding
6 authors.
Funding
Abstract
Establishing genotype-phenotype relationship is the key to understand the molecular mechanism of phenotypic adaptation. This initial step may be untangled by analyzing appropriate ancestral molecules, but it is a daunting task to recapitulate the evolution of non-additive (epistatic) interactions of amino acids and function of a protein separately. To adapt to the ultraviolet (UV)-free retinal environment, the short wavelength-sensitive (SWS1) visual pigment in human (human S1) switched from detecting UV to absorbing blue light during the last 90 million years. Mutagenesis experiments of the UV-sensitive pigment in the Boreoeutherian ancestor show that the blue-sensitivity was achieved by seven mutations. The experimental and quantum chemical analyses show that 4,008 of all 5,040 possible evolutionary trajectories are terminated prematurely by containing a dehydrated nonfunctional pigment. Phylogenetic analysis further suggests that human ancestors achieved the blue-sensitivity gradually and almost exclusively by epistasis. When the final stage of spectral tuning of human S1 was underway 45-30 million years ago, the middle and long wavelength-sensitive (MWS/LWS) pigments appeared and so-called trichromatic color vision was established by interprotein epistasis. The adaptive evolution of human S1 differs dramatically from orthologous pigments with a major mutational effect used in achieving blue-sensitivity in a fish and several mammalian species and in regaining UV vision in birds. These observations imply that the mechanisms of epistatic interactions must be understood by studying various orthologues in different species that have adapted to various ecological and physiological environments.
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