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The evolutionary origin and domestication history of goldfish (Carassius auratus).


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.

SUBMITTER: Chen D 

PROVIDER: S-EPMC7703540 | biostudies-literature | 2020 Nov

REPOSITORIES: biostudies-literature

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The evolutionary origin and domestication history of goldfish (<i>Carassius auratus</i>).

Chen Duo D   Zhang Qing Q   Tang Weiqi W   Huang Zhen Z   Wang Gang G   Wang Yongjun Y   Shi Jiaxian J   Xu Huimin H   Lin Lianyu L   Li Zhen Z   Chi Wenchao W   Huang Likun L   Xia Jing J   Zhang Xingtan X   Guo Lin L   Wang Yuanyuan Y   Ma Panpan P   Tang Juan J   Zhou Gang G   Liu Min M   Liu Fuyan F   Hua Xiuting X   Wang Baiyu B   Shen Qiaochu Q   Jiang Qing Q   Lin Jingxian J   Chen Xuequn X   Wang Hongbo H   Dou Meijie M   Liu Lei L   Pan Haoran H   Qi Yiying Y   Wu Bin B   Fang Jingping J   Zhou Yitao Y   Cen Wan W   He Wenjin W   Zhang Qiujin Q   Xue Ting T   Lin Gang G   Zhang Wenchun W   Liu Zhongjian Z   Qu Liming L   Wang Aiming A   Ye Qichang Q   Chen Jianming J   Zhang Yanding Y   Ming Ray R   Van Montagu Marc M   Tang Haibao H   Van de Peer Yves Y   Chen Youqiang Y   Zhang Jisen J  

Proceedings of the National Academy of Sciences of the United States of America 20201102 47


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 b  ...[more]

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