The Public Service Platform for Industrialization Development Technology of Marine Biological Medicine and Product of State Oceanic Administration, Fujian Key Laboratory of Developmental and Neural Biology, College of Life Sciences, Fujian Normal University, Fuzhou, Fujian, China.
School of Computer Science and Technology, Wuhan University of Technology, Wuhan, Hubei, China.
Sci Data. 2019 Nov 8;6(1):267. doi: 10.1038/s41597-019-0279-z.
Pufferfish are ideal models for vertebrate chromosome evolution studies. The yellowbelly pufferfish, Takifugu flavidus, is an important marine fish species in the aquaculture industry and ecology of East Asia. The chromosome assembly of the species could facilitate the study of chromosome evolution and functional gene mapping. To this end, 44, 27 and 50 Gb reads were generated for genome assembly using Illumina, PacBio and Hi-C sequencing technologies, respectively. More than 13 Gb full-length transcripts were sequenced on the PacBio platform. A 366 Mb genome was obtained with the contig of 4.4 Mb and scaffold N50 length of 15.7 Mb. 266 contigs were reliably assembled into 22 chromosomes, representing 95.9% of the total genome. A total of 29,416 protein-coding genes were predicted and 28,071 genes were functionally annotated. More than 97.7% of the BUSCO genes were successfully detected in the genome. The genome resource in this work will be used for the conservation and population genetics of the yellowbelly pufferfish, as well as in vertebrate chromosome evolution studies.
河豚鱼是研究脊椎动物染色体进化的理想模型。黄腹河豚是东亚水产养殖业和生态学中的一种重要海洋鱼类。该物种的染色体组装将有助于研究染色体进化和功能基因图谱。为此，使用 Illumina、PacBio 和 Hi-C 测序技术分别为基因组组装生成了 44、27 和 50Gb 的读取量。在 PacBio 平台上测序了超过 13Gb 的全长转录本。获得了一个 366Mb 的基因组，其串联体大小为 4.4Mb，支架 N50 长度为 15.7Mb。266 个串联体可靠地组装成 22 条染色体，代表总基因组的 95.9%。共预测到 29416 个蛋白质编码基因，其中 28071 个基因具有功能注释。在基因组中成功检测到超过 97.7%的 BUSCO 基因。本工作中的基因组资源将用于黄腹河豚的保护和群体遗传学研究，以及脊椎动物染色体进化研究。
