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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.
GigaScience ( IF 11.8 ) Pub Date : 2020-01-01 , DOI: 10.1093/gigascience/giz157 Gangchun Xu 1, 2 , Chao Bian 3, 4 , Zhijuan Nie 2 , Jia Li 3 , Yuyu Wang 2 , Dongpo Xu 2 , Xinxin You 3, 5 , Hongbo Liu 2 , Jiancao Gao 2 , Hongxia Li 2 , Kai Liu 2 , Jian Yang 2 , Quanjie Li 2 , Nailin Shao 2 , Yanbing Zhuang 2 , Dian Fang 2 , Tao Jiang 2 , Yunyun Lv 3, 5 , Yu Huang 3, 5, 6 , Ruobo Gu 2 , Junmin Xu 3 , Wei Ge 4 , Qiong Shi 3, 5 , Pao Xu 1, 2
GigaScience ( IF 11.8 ) Pub Date : 2020-01-01 , DOI: 10.1093/gigascience/giz157 Gangchun Xu 1, 2 , Chao Bian 3, 4 , Zhijuan Nie 2 , Jia Li 3 , Yuyu Wang 2 , Dongpo Xu 2 , Xinxin You 3, 5 , Hongbo Liu 2 , Jiancao Gao 2 , Hongxia Li 2 , Kai Liu 2 , Jian Yang 2 , Quanjie Li 2 , Nailin Shao 2 , Yanbing Zhuang 2 , Dian Fang 2 , Tao Jiang 2 , Yunyun Lv 3, 5 , Yu Huang 3, 5, 6 , Ruobo Gu 2 , Junmin Xu 3 , Wei Ge 4 , Qiong Shi 3, 5 , Pao Xu 1, 2
Affiliation
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.
更新日期：2020-01-02
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