ArticleProceedings of the National Academy of Sciences of the United States of America2013
Evolutionary changes of multiple visual pigment genes in the complete genome of Pacific bluefin tuna.
Article in Proceedings of the National Academy of Sciences of the United States of America, 2013. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 39 papers.
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39 citing papers in PubMed, 125 citations in OpenAlex.
- Genome refinement in Pacific bluefin tuna (Thunnus orientalis): chromosome-level assembly using hybrid linkage data.BMC genomics · 2026Article
- Chromosome-level genome assembly of starry flounder (Platichthys stellatus).Scientific data · 2025Article
- Multiple Ecological Axes Drive Molecular Evolution of Cone Opsins in Beloniform Fishes.Journal of molecular evolution · 2024Article
- Distinct and shared endothermic strategies in the heat producing tissues of tuna and other teleosts.Science China. Life sciences · 2023Article
- Transcriptome characterization of gonadal sex differentiation in Pacific bluefin tuna, Thunnus orientalis (Temminck et Schlegel).Scientific reports · 2023Article
- Single-cell transcriptomics of the goldfish retina reveals genetic divergence in the asymmetrically evolved subgenomes after allotetraploidization.Communications biology · 2022Article
- Photoreceptor distributions, visual pigments and the opsin repertoire of Atlantic halibut (Hippoglossus hippoglossus).Scientific reports · 2022Article
- Whole genome sequencing of the fast-swimming Southern bluefin tuna (Frontiers in genetics · 2022Article
- Molecular Evolution of Ultraviolet Visual Opsins and Spectral Tuning of Photoreceptors in Anemonefishes (Amphiprioninae).Genome biology and evolution · 2021Article
- Seadragon genome analysis provides insights into its phenotype and sex determination locus.Science advances · 2021Article
- Evolutionary ecology of the visual opsin gene sequence and its expression in turbot (Scophthalmus maximus).BMC ecology and evolution · 2021Article
- The Genomes of Two Billfishes Provide Insights into the Evolution of Endothermy in Teleosts.Molecular biology and evolution · 2021Article
- Adaptive markers distinguish North and South Pacific Albacore amid low population differentiation.Evolutionary applications · 2021Article
- Prediction of the Sex-Associated Genomic Region in Tunas (International journal of genomics · 2021Article
- Orthologous Divergence and Paralogous Anticonvergence in Molecular Evolution of Triplicated Green Opsin Genes in Medaka Fish, Genus Oryzias.Genome biology and evolution · 2020Article
- Visual pigment evolution in Characiformes: The dynamic interplay of teleost whole-genome duplication, surviving opsins and spectral tuning.Molecular ecology · 2020Article
- Improvement of the Pacific bluefin tuna (Thunnus orientalis) reference genome and development of male-specific DNA markers.Scientific reports · 2019Article
- Targeted mutagenesis of the ryanodine receptor by Platinum TALENs causes slow swimming behaviour in Pacific bluefin tuna (Thunnus orientalis).Scientific reports · 2019Article
- Plasticity of opsin gene expression in the adult red shiner (Cyprinella lutrensis) in response to turbid habitats.PloS one · 2019Article
- Phylogenomics investigation of sparids (Teleostei: Spariformes) using high-quality proteomes highlights the importance of taxon sampling.Communications biology · 2019Article
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Authors and funding
24 authors at 6 institutions in 1 country.
Funding
No grant is acknowledged in the PubMed record.
Abstract
Tunas are migratory fishes in offshore habitats and top predators with unique features. Despite their ecological importance and high market values, the open-ocean lifestyle of tuna, in which effective sensing systems such as color vision are required for capture of prey, has been poorly understood. To elucidate the genetic and evolutionary basis of optic adaptation of tuna, we determined the genome sequence of the Pacific bluefin tuna (Thunnus orientalis), using next-generation sequencing technology. A total of 26,433 protein-coding genes were predicted from 16,802 assembled scaffolds. From these, we identified five common fish visual pigment genes: red-sensitive (middle/long-wavelength sensitive; M/LWS), UV-sensitive (short-wavelength sensitive 1; SWS1), blue-sensitive (SWS2), rhodopsin (RH1), and green-sensitive (RH2) opsin genes. Sequence comparison revealed that tuna's RH1 gene has an amino acid substitution that causes a short-wave shift in the absorption spectrum (i.e., blue shift). Pacific bluefin tuna has at least five RH2 paralogs, the most among studied fishes; four of the proteins encoded may be tuned to blue light at the amino acid level. Moreover, phylogenetic analysis suggested that gene conversions have occurred in each of the SWS2 and RH2 loci in a short period. Thus, Pacific bluefin tuna has undergone evolutionary changes in three genes (RH1, RH2, and SWS2), which may have contributed to detecting blue-green contrast and measuring the distance to prey in the blue-pelagic ocean. These findings provide basic information on behavioral traits of predatory fish and, thereby, could help to improve the technology to culture such fish in captivity for resource management.
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