The draft genome of the large yellow croaker reveals well-developed innate immunity

Changwen Wu (), Di Zhang, Mengyuan Kan, Zhengmin Lv, Aiyi Zhu, Yongquan Su, Daizhan Zhou, Jianshe Zhang, Zhou Zhang, Meiying Xu, Lihua Jiang, Baoying Guo, Ting Wang, Changfeng Chi, Yong Mao, Jiajian Zhou, Xinxiu Yu, Hailing Wang, Xiaoling Weng, Jason Gang Jin, Junyi Ye, Lin He () and Yun Liu ()
Additional contact information
Changwen Wu: National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University
Di Zhang: Bio-X Center, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders (Ministry of Education), Shanghai Jiao Tong University
Mengyuan Kan: Institute for Nutritional Sciences, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Graduate School of the Chinese Academy of Sciences
Zhengmin Lv: National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University
Aiyi Zhu: National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University
Yongquan Su: College of Ocean and Earth Sciences, Xiamen University
Daizhan Zhou: Bio-X Center, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders (Ministry of Education), Shanghai Jiao Tong University
Jianshe Zhang: National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University
Zhou Zhang: Bio-X Center, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders (Ministry of Education), Shanghai Jiao Tong University
Meiying Xu: National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University
Lihua Jiang: National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University
Baoying Guo: National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University
Ting Wang: Institute for Nutritional Sciences, Shanghai Institutes for Biological Sciences, Chinese Academy of Sciences, Graduate School of the Chinese Academy of Sciences
Changfeng Chi: National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University
Yong Mao: College of Ocean and Earth Sciences, Xiamen University
Jiajian Zhou: National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University
Xinxiu Yu: National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University
Hailing Wang: National Engineering Research Center of Marine Facilities Aquaculture, Zhejiang Ocean University
Xiaoling Weng: Institutes of Biomedical Sciences, Fudan University
Jason Gang Jin: ShanghaiBio Corporation
Junyi Ye: Institutes of Biomedical Sciences, Fudan University
Lin He: Bio-X Center, Key Laboratory for the Genetics of Developmental and Neuropsychiatric Disorders (Ministry of Education), Shanghai Jiao Tong University
Yun Liu: Institutes of Biomedical Sciences, Fudan University

Nature Communications, 2014, vol. 5, issue 1, 1-7

Abstract: Abstract The large yellow croaker, Larimichthys crocea, is one of the most economically important marine fish species endemic to China. Its wild stocks have severely suffered from overfishing, and the aquacultured species are vulnerable to various marine pathogens. Here we report the creation of a draft genome of a wild large yellow croaker using a whole-genome sequencing strategy. We estimate the genome size to be 728 Mb with 19,362 protein-coding genes. Phylogenetic analysis shows that the stickleback is most closely related to the large yellow croaker. Rapidly evolving genes under positive selection are significantly enriched in pathways related to innate immunity. We also confirm the existence of several genes and identify the expansion of gene families that are important for innate immunity. Our results may reflect a well-developed innate immune system in the large yellow croaker, which could aid in the development of wild resource preservation and mariculture strategies.

Date: 2014
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DOI: 10.1038/ncomms6227

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