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Genome and population sequencing of a chromosome-level genome assembly of the Chinese tapertail anchovy (Coilia nasus) provides novel insights into migratory adaptation

文献类型： 外文期刊

作者： Xu, Gangchun 1 ; Bian, Chao 3 ; Nie, Zhijuan 2 ; Li, Jia 3 ; Wang, Yuyu 2 ; Xu, Dongpo 2 ; You, Xinxin 3 ; Liu, Hongbo 2 ; G 1 ;

作者机构： 1.Nanjing Agr Univ, Wuxi Fisheries Coll, Wuxi 214081, Jiangsu, Peoples R China

2.Chinese Acad Fishery Sci, Minist Agr, Freshwater Fisheries Res Ctr, Key Lab Freshwater Fisheries & Germplasm Resource, Wuxi 214081, Jiangsu, Peoples R China

3.BGI Acad Marine Sci, BGI Marine, Guangdong Prov Key Lab Mol Breeding Marine Econ A, BGI,Shenzhen Key Lab Marine Genom, Shenzhen 518083, Peoples R China

4.Univ Macau, Fac Hlth Sci, Ctr Reprod Dev & Aging, Taipa, Macau, Peoples R China

5.Univ Chinese Acad Sci, BGI Educ Ctr, Shenzhen 518083, Peoples R China

6.George Washington Univ, Dept Biol Sci, Washington, DC 20052 USA

关键词： Chinese tapertail anchovy (Coilia nasus); genome and population sequencing; genome assembly; migratory dimorphism and adaptation

期刊名称：GIGASCIENCE （ 影响因子：6.524； 五年影响因子：8.702 ）

ISSN： 2047-217X

年卷期： 2020 年 9 卷 1 期

页码：

收录情况： SCI

摘要： Background: Seasonal migration is one of the most spectacular events in nature; however, the molecular mechanisms related to this phenomenon have not been investigated in detail. The Chinese tapertail, or Japanese grenadier anchovy, Coilia nasus, is a valuable migratory fish of high economic importance and special migratory dimorphism (with certain individuals as non-migratory residents). Results: In this study, an 870.0-Mb high-quality genome was assembled by the combination of Illumina and Pacific Biosciences sequencing. Approximately 812.1 Mb of scaffolds were linked to 24 chromosomes using a high-density genetic map from a family of 104 full siblings and their parents. In addition, population sequencing of 96 representative individuals from diverse areas along the putative migration path identified 150 candidate genes, which are mainly enriched in 3 Ca2+-related pathways. Based on integrative genomic and transcriptomic analyses, we determined that the 3 Ca2+-related pathways are critical for promotion of migratory adaption. A large number of molecular markers were also identified, which distinguished migratory individuals and non-migratory freshwater residents. Conclusions: We assembled a chromosome-level genome for the Chinese tapertail anchovy. The genome provided a valuable genetic resource for understanding of migratory adaption and population genetics and will benefit the aquaculture and management of this economically important fish.

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