title: Draft sequencing and analysis of the genome of pufferfish Takifugu flavidus.
abstract: 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.
authors: The Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, Shandong 266071, China University of Chinese Academy of Sciences, Shijingshan, Beijing 100049, China.
authors: Yang
authors: Y
authors: Gao
authors: The Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, Shandong 266071, China.
authors: Qiang
authors: Q
authors: Gao
authors: The Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, Shandong 266071, China.
authors: Huan
authors: H
authors: Zhang
authors: The Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, Shandong 266071, China.
authors: Lingling
authors: L
authors: Wang
authors: Ocean and Fishery Sciences Research Institute of Hebei Province, Qinhuangdao, Hebei 066200, China.
authors: Fuchong
authors: F
authors: Zhang
authors: The Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, Shandong 266071, China.
authors: Chuanyan
authors: C
authors: Yang
authors: The Key Laboratory of Experimental Marine Biology, Institute of Oceanology, Chinese Academy of Sciences, Qingdao, Shandong 266071, China lshsong@qdio.ac.cn.
authors: Linsheng
authors: L
authors: Song
mesh_terms: D000818:Animals; D001693:Biological Transport, Active / Q000235:genetics; D029941:Fish Proteins / Q000235:genetics; D016678:Genome; D059014:High-Throughput Nucleotide Sequencing; D050356:Lipid Metabolism / Q000235:genetics; D018919:Neovascularization, Physiologic / Q000235:genetics; D022661:RNA, Untranslated / Q000235:genetics; D012880:Skin Pigmentation / Q000235:genetics; D023741:Takifugu / Q000235:genetics*
chemical_list: D029941:Fish Proteins; D022661:RNA, Untranslated
keywords: NGS; Takifugu flavidus; draft genome