Draft Sequencing and Analysis of the Genome of Pufferfish Takifugu flavidus

被引:22
|
作者
Gao, Yang [1 ,2 ]
Gao, Qiang [1 ]
Zhang, Huan [1 ]
Wang, Lingling [1 ]
Zhang, Fuchong [3 ]
Yang, Chuanyan [1 ]
Song, Linsheng [1 ]
机构
[1] Chinese Acad Sci, Inst Oceanol, Key Lab Expt Marine Biol, Qingdao 266071, Shandong, Peoples R China
[2] Univ Chinese Acad Sci, Beijing 100049, Peoples R China
[3] Ocean & Fishery Sci Res Inst Hebei Prov, Qinhuangdao 066200, Hebei, Peoples R China
关键词
Takifugu flavidus; draft genome; NGS; GENE; FUGU; ANNOTATION; PROGRAM; DUPLICATION; PREDICTION; DIVERSITY; MECHANISM; RUBRIPES; REVEALS;
D O I
10.1093/dnares/dsu025
中图分类号
Q3 [遗传学];
学科分类号
071007 ; 090102 ;
摘要
The pufferfish Takifugu flavidus is an important economic species due to its outstanding flavour and high market value. It has been regarded as an excellent model of genetic study for decades as well. In the present study, three mate-pair libraries of T. flavidus genome were sequenced by the SOLiD 4 next-generation sequencing platform, and the draft genome was constructed with the short reads using an assisted assembly strategy. The draft consists of 50,947 scaffolds with an N50 value of 305.7 kb, and the average GC content was 45.2%. The combined length of repetitive sequences was 26.5 Mb, which accounted for 6.87% of the genome, indicating that the compactness of T. flavidus genome was approximative with that of T. rubripes genome. A total of 1,253 non-coding RNA genes and 30,285 protein-encoding genes were assigned to the genome. There were 132,775 and 394 presumptive genes playing roles in the colour pattern variation, the relatively slow growth and the lipid metabolism, respectively. Among them, genes involved in the microtubule-dependent transport system, angiogenesis, decapentaplegic pathway and lipid mobilization were significantly expanded in the T. flavidus genome. This draft genome provides a valuable resource for understanding and improving both fundamental and applied research with pufferfish in the future.
引用
收藏
页码:627 / 637
页数:11
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