ArticleProceedings of the National Academy of Sciences of the United States of America2020
The evolutionary origin and domestication history of goldfish (
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Article in Proceedings of the National Academy of Sciences of the United States of America, 2020. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 34 papers.
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34 citing papers in PubMed, 107 citations in OpenAlex.
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- Histological Divergence Underlying Globular Body Shapes in Ornamental Goldfish.Zoological studies · 2026Article
- Independent Mutations in theInternational journal of molecular sciences · 2025Article
- Subgenome Partitioning and Polyploid Genome Evolution in the Loach Family Botiidae (Order Cypriniformes).Advanced science (Weinheim, Baden-Wurttemberg, Germany) · 2025Article
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- Variation and Interaction of Distinct Subgenomes Contribute to Growth Diversity in Intergeneric Hybrid Fish.Genomics, proteomics & bioinformatics · 2025Article
- Arachidonic Acid Metabolism Down-Regulation-Mediated Tumor Necrosis Factor Signaling Contributes to Cutaneous Fibrosis and Skull Hyperplasia in Goldfish Hoods.Research (Washington, D.C.) · 2025Article
- Goldfish phenomics reveals commonalities and a lack of universality in the domestication process for ornamentation.Evolution letters · 2024Article
- The Identification of Proteomic Signatures Associated with Alkaline Tolerance in the Skin Mucus of Crucian Carp (International journal of molecular sciences · 2024Article
- Evolutionary divergence of subgenomes in common carp provides insights into speciation and allopolyploid success.Fundamental research · 2024Article
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- Population structure and adaptability analysis of Schizothorax o'connori based on whole-genome resequencing.BMC genomics · 2024Article
- Genetic improvement and genomic resources of important cyprinid species: status and future perspectives for sustainable production.Frontiers in genetics · 2024Review
- The Goldfish Genome and Its Utility for Understanding Gene Regulation and Vertebrate Body Morphology.Methods in molecular biology (Clifton, N.J.) · 2024Article
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- Transposon signatures of allopolyploid genome evolution.Nature communications · 2023Article
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Authors and funding
53 authors at 9 institutions in 4 countries.
Duo ChenPublic Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China.
Qing ZhangCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Weiqi TangInstitute of Oceanography, Marine Biotechnology Center, Minjiang University, 350108 Fuzhou, China.
Zhen HuangPublic Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China; zhuang@fjnu.edu.cn marc.vanmontagu@ugent.be tanghaibao@gmail.com yves.vandepeer@psb.ugent.be yqchen@fjnu.edu.cn zjisen@fafu.edu.cn.ORCID 0000-0002-8908-0355
Gang WangCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Yongjun WangCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.ORCID 0000-0002-9040-891X
Jiaxian ShiPublic Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China.
Huimin XuCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Lianyu LinCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Zhen LiCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Wenchao ChiInstitute of Oceanography, Marine Biotechnology Center, Minjiang University, 350108 Fuzhou, China.
Likun HuangFujian Key Laboratory of Crop Breeding by Design, Fujian Agriculture and Forestry University, Fuzhou, 350002 Fujian, China.
Jing XiaFujian Key Laboratory of Crop Breeding by Design, Fujian Agriculture and Forestry University, Fuzhou, 350002 Fujian, China.
Xingtan ZhangCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Lin GuoCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Yuanyuan WangCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Panpan MaCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Juan TangTechnical Department, Biomarker Technologies Corporation, 101300 Beijing, China.
Gang ZhouTechnical Department, Biomarker Technologies Corporation, 101300 Beijing, China.ORCID 0000-0001-8633-6290
Min LiuTechnical Department, Biomarker Technologies Corporation, 101300 Beijing, China.
Fuyan LiuTechnical Department, Biomarker Technologies Corporation, 101300 Beijing, China.
Xiuting HuaCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Baiyu WangCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Qiaochu ShenCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Qing JiangCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Jingxian LinCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Xuequn ChenCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Hongbo WangCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Meijie DouCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Lei LiuCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Haoran PanCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Yiying QiCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China.
Bin WuLaboratory Department, Fujian Fisheries Technology Extension Center, 350002 Fuzhou, China.
Jingping FangPublic Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China.
Yitao ZhouPublic Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China.
Wan CenPublic Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China.
Wenjin HePublic Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China.
Qiujin ZhangPublic Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China.
Ting XuePublic Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China.
Gang LinPublic Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China.
Wenchun ZhangDepartment of Technical Science, Minhou County Nantong Chunyuanli Ecological Farm, 350001 Fuzhou, China.
Zhongjian LiuKey Laboratory of National Forestry and Grassland Administration for Orchid Conservation and Utilization at College of Landscape Architecture, Fujian Agriculture and Forestry University, 350001 Fuzhou, China.
Liming QuEditorial Department, The Straits Publishing House, 350001 Fuzhou, China.
Aiming WangDepartment of Breeding, Aimin Goldfish Farm, 350001 Fuzhou, China.
Qichang YeDepartment of Technical Science, Minhou County Nantong Chunyuanli Ecological Farm, 350001 Fuzhou, China.
Jianming ChenInstitute of Oceanography, Marine Biotechnology Center, Minjiang University, 350108 Fuzhou, China.ORCID 0000-0003-0400-3092
Yanding ZhangFujian Key Laboratory of Developmental and Neural Biology, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China.
Ray MingDepartment of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL 61801.
Marc Van MontaguDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium; zhuang@fjnu.edu.cn marc.vanmontagu@ugent.be tanghaibao@gmail.com yves.vandepeer@psb.ugent.be yqchen@fjnu.edu.cn zjisen@fafu.edu.cn.ORCID 0000-0003-4711-5131
Haibao TangCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China; zhuang@fjnu.edu.cn marc.vanmontagu@ugent.be tanghaibao@gmail.com yves.vandepeer@psb.ugent.be yqchen@fjnu.edu.cn zjisen@fafu.edu.cn.ORCID 0000-0002-3460-8570
Yves Van de PeerDepartment of Plant Biotechnology and Bioinformatics, Ghent University, 9052 Ghent, Belgium; zhuang@fjnu.edu.cn marc.vanmontagu@ugent.be tanghaibao@gmail.com yves.vandepeer@psb.ugent.be yqchen@fjnu.edu.cn zjisen@fafu.edu.cn.
Youqiang ChenPublic Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, College of Life Sciences, Fujian Normal University, 350117 Fuzhou, China; zhuang@fjnu.edu.cn marc.vanmontagu@ugent.be tanghaibao@gmail.com yves.vandepeer@psb.ugent.be yqchen@fjnu.edu.cn zjisen@fafu.edu.cn.
Jisen ZhangCenter for Genomics and Biotechnology, Haixia Institute of Science and Technology, Fujian Provincial Laboratory of Haixia Applied Plant Systems Biology, College of Life Sciences, Fujian Agriculture and Forestry University, 350002 Fuzhou, China; zhuang@fjnu.edu.cn marc.vanmontagu@ugent.be tanghaibao@gmail.com yves.vandepeer@psb.ugent.be yqchen@fjnu.edu.cn zjisen@fafu.edu.cn.ORCID 0000-0003-1041-2757
Fujian Agriculture and Forestry University · CNFujian Normal University · CNBiomarker Technologies (China) · CNMinjiang University · CNFujian Fisheries Research Institute · CNNanjing Agricultural University · CNSinoMaps Press · CNUniversity of Illinois Urbana-Champaign · USVlaams Instituut voor Biotechnologie · BE
Funding
No grant is acknowledged in the PubMed record.
Abstract
Goldfish have been subjected to over 1,000 y of intensive domestication and selective breeding. In this report, we describe a high-quality goldfish genome (2n = 100), anchoring 95.75% of contigs into 50 pseudochromosomes. Comparative genomics enabled us to disentangle the two subgenomes that resulted from an ancient hybridization event. Resequencing 185 representative goldfish variants and 16 wild crucian carp revealed the origin of goldfish and identified genomic regions that have been shaped by selective sweeps linked to its domestication. Our comprehensive collection of goldfish varieties enabled us to associate genetic variations with a number of well-known anatomical features, including features that distinguish traditional goldfish clades. Additionally, we identified a tyrosine-protein kinase receptor as a candidate causal gene for the first well-known case of Mendelian inheritance in goldfish-the transparent mutant. The goldfish genome and diversity data offer unique resources to make goldfish a promising model for functional genomics, as well as domestication.
Indexed as
DomesticationEvolution, MolecularAnimalsContig MappingDatasets as TopicFemaleFish ProteinsGenetic VariationGenomeGenomicsGoldfishHybridization, GeneticMaleModels, AnimalPhylogenyProtein-Tyrosine KinasesFish ProteinsProtein-Tyrosine KinasesCarassius auratusdomesticationgenome evolutiongoldfishGWAS
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